#### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTT-GGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTCGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATG-TAAGCTG---ATCATCCCCTCAGTGGGGGTCATTGCTATGggtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTCGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTAA-GCTG---ATCATCCCCTCAGTGGGGGTCATTGCTATGggtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAAtCCTTTCGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTAAG----CTGATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTT-GGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTCGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTAAGC----TGATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTT-GGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTCGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTAAGC----TGATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAG-CCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCT caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTCGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTAAGCTGATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGG---CCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTT--CGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATGTAAGCTG----ATCATCCCCTCAGTGGGGGTCATTGCTATGGgtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg Alignment from GeneWise CTCACCAAGCTGAGCACAGCTTTCATC-CGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCT caacctgtctcttgcaaaactttgtgattcctcatgctccttttctccagCTTACCAAGCTGAGCACAGCATTCATTTGGAAAGAATCCTTTCGGCCTGGTGCTTATCATCGCACCATGGAATTCTCATgtaagctgatcatcccctcagtgggggtcattgctatgggtgagtggtgcctcatgcagtaatccttatcgtccctactttaccatccg #### 1700055N04Rik_ID227_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG cattgaggggcaattaacccacatgtgcttgcccttttaaacttgttcaggaAACTGTGTGGTGCTTAAAAGATCTGAAATTCAGCAGGAATACAGAGAAGGTGTTAGCGGAGC-TCCACCTCAGTATCTAGACCAAgtgagttcattttatgtgattaatttggtaaatggcaaagtgagccgaat Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG cattgaggggcaattaacccacatgtgcttgcccttttaaacttgttcaggaAACTGTGTGGTGCTTAAAAGATCTGAAATTCAGCAGGAATACAGAGAAGGTGTTAGCGGAGCTC-CACCTCAGTATCTAGACCAAgtgagttcattttatgtgattaatttggtaaatggcaaagtgagccgaat Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG cattgaggggcaattaacccacatgtgcttgcccttttaaacttgttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTcAGCAGGAATACAGAGAAGGTGTTAGCGGAGCTCCA-CCTCAGTATCTAGACCAAgtgagttcattttatgtgattaatttggtaaatggcaaagtgagccgaat Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG cattgaggggcaattaacccacatgtgcttgcccttttaaacttgttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTCAGCAGGAATACAGAGAAGGTGTTAGCGGAGCT-CCACCTCAGTATCTAGACCAAgtgagttcattttatgtgattaatttggtaaatggcaaagtgagccgaat Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATT-AGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG cattgaggggcaattaacccacatgtgcttgcccttttaaacttgttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTCAGCAGGAATACAGAGAAGGTGTTAGCGGAGCT-CCACCTCAGTATCTAGACCAAgtgagttcattttatgtgattaatttggtaaatggcaaagtgagccgaat Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG cattgaggggcaattaacccacatgtgcttgcccttttaaacttgttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTCAGCAGGAATACAGAGAAGGTGTTAGCGGAGCTCCACCTCAGTATCTAGACCAAgtgagttcattttatgtgattaatttggtaaatggcaaagtgagccgaat Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG cattgaggggcaattaacccacatgtgcttgcccttttaaacttgttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTCAGCAGGAATACAGAGAAGGTGTTAGCGGAGCTCCACCTCAGTATCTAGACCAAgtgagttcattttatgtgattaatttggtaaatggcaaagtgagccgaat Alignment from GeneWise GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG cattgaggggcaattaacccacatgtgcttgcccttttaaacttgttcagGAAACTGTGTGGTGCTTAAAAGATCTGAAATTCAGCAGGAATACAGAGAAGGTGTTAGCGGAGCTCCACCTCAGTATCTAGACCAAgtgagttcattttatgtgattaatttggtaaatggcaaagtgagccgaat #### 1700123I01Rik_ID1492_4 --> 2 - 1 Original Alignment atAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATC-CTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCg agcctgtaccttgggtgcctactacaagctctttcctcctcctcccacagacAAAAGTAAATGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCATTCTTGACACCCTACCCATTTGTTTTTACTTTGTATATAG-GATGAAATGGTTTGCTGAAGACTTGCCTTCGcgtaagaaaccaaggtgggttgtgaaaaaactaagcactcaggatgactaa Alignment from CESAR atAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATC-CTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCg agcctgtaccttgggtgcctactacaagctctttcctcctcctcccacagacAAAAGTAAATGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCATTCTTGACACCCTACCCATTTGTTTTTACTTTGTATATA-GGATGAAATGGTTTGCTGAAGACTTGCCTTCGcgtaagaaaccaaggtgggttgtgaaaaaactaagcactcaggatgactaa Alignment from Spaln_aa2Genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agcctgtaccttgggtgcctactacaagctctttcctcctcctcccacagACAAAAGTAAATGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCATTCTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGGATGAAATGGTTTGCTGAAGACTTGCCTTCGCgtaagaaaccaaggtgggttgtgaaaaaactaagcactcaggatgactaa Alignment from Spaln_nt2Genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATC-CTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agcctgtaccttgggtgcctactacaagctctttcctcctcctcccacagACAAAAGTAAATGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCATTCTTGACACCCTACCCATTTGTTTTTACTTTGTATATAG-GATGAAATGGTTTGCTGAAGACTTGCCTTCGCgtaagaaaccaaggtgggttgtgaaaaaactaagcactcaggatgactaa Alignment from Pairagon ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCA-TCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agcctgtaccttgggtgcctactacaagctctttcctcctcctcccacagACAAAAGTAAATGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCATTCTTGACACCCTACCCATTTGTTTTTACTTTGTATATAG-GATGAAATGGTTTGCTGAAGACTTGCCTTCGCgtaagaaaccaaggtgggttgtgaaaaaactaagcactcaggatgactaa Alignment from Exonerate_protein2genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agcctgtaccttgggtgcctactacaagctctttcctcctcctcccacagACAAAAGTAAATGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCATTCTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGGATGAAATGGTTTGCTGAAGACTTGCCTTCGCgtaagaaaccaaggtgggttgtgaaaaaactaagcactcaggatgactaa Alignment from Exonerate_coding2genome ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCGGGAAACCAGCAGATGATATTCCTCTTGAG agcctgtaccttgggtgcctactacaagctctttcctcctcctcccacagACAAAAGTAAATGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCATTCTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGGATGAAATGGTTTGCTGAAGACTTGCCTTCGCGTAAGAAACCAAGGTGGGTTGTGAAAAAActaagcactcaggatgactaa Alignment from GeneWise ATAAAAGCAAGTGGGAGAGAGTTTCCCACCTGAAGTTTAAACATGGGGAAAGCATCCTGACGCCCTACCCGTTTGTTTTTACTTTGTATATAGAGATGAAATGGTTTGCTGAAGACTTGCCTTCCG agcctgtaccttgggtgcctactacaagctctttcctcctcctcccacagACAAAAGTAAATGGGAGAGAGTTTCCCATCTGAGGTTTAAATATGGGGAAAGCATTCTTGACACCCTACCCATTTGTTTTTACTTTGTATATAGGATGAAATGGTTTGCTGAAGACTTGCCTTCGCgtaagaaaccaaggtgggttgtgaaaaaactaagcactcaggatgactaa #### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAATATCAGC-CAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATAT-TGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from CESAR GTCACAGATAATATCAGC-CAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATA-TTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Spaln_aa2Genome GATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacaggtcacagATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATT-GAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Spaln_nt2Genome GTCACAGATAATATCAG-CCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATT-GAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Pairagon GTCACAGATAATATCAG-CCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATT-GAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Exonerate_protein2genome GTCACAGATAATATCAGC-CAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACA aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATTGAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from Exonerate_coding2genome GTCACAGATAATATCAG---CCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacagGTCACAGATAATATC--AGCCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATT-GAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag Alignment from GeneWise GATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG aacatgttgctttccattgtaaaagtagacttgtctgttttcctggacaggtcacagATAATATCAGCCCAGAACACTATCCTGGAATATGTAATGATCAACAGCATATT-GAAGCCATTTTACAGgtaagtggttcaactgtcattcaaaattttgcaatacccagaggcaaaag #### AI846148_ID2143_3 --> 2 - 1 Original Alignment agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAG-ATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagaaTCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAACATGATAGTGCTTTTAGATTCCCAAGGCAATCCACTGC-CCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAagtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAG-ATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagaaTCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAACATGATAGTGCTTTTAGATTCCCAAGGCAATCCACTG-CCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAagtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAACATGATAGTGCTTTTAGATTCCCAAGGCAATCCACTGCCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAG-ATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAACATGATAGTGCTTTTAGATTCCCAAGGCAATCCA-CTGCCCCAACAAGGCTGCGGCCTAGAGGACTCCGACC---TGAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Pairagon ----------------------------------------------CTAGAGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGA----GATAGTGGTCCTCTTGGATTCCGAGGACAA--------CCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG ATGGGAGTAGGAAGTGCTAATGACTAACTCACTTGTCTTCTGCCCACTAGAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAACATGATAGTG---CTTTTAGATTCCCAAGGCAATCCACTGCCCCA---------ACAAGGCTGCGGCCTAGAGGACTCCGACC---TGAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAACATGATAGTGCTTTTAGATTCCCAAGGCAATCCACTGCCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAACATGATAGTGCTTTTAGATTCCCAAGGCAATCCACTGCCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG atgggagtaggaagtgctaatgactaactcacttgtcttctgcccactagAATCAGGCCAGGATGGACAGTTGGACCCTGTCTCCAACCCAGATCCAGTGAGGATGCCCGCAGAACATGATAGTGCTTTTAGATTCCCAAGGCAATCCACTGCCCCAACAAGGCTGCGGCCTAGAGGACTCCGACCT---GAGTTGCCAAgtgagacatccagtattcttggtttcggtgagacatcataaagtaaggca #### Abcc2_ID8821_5 --> 0 - 0 Original Alignment GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTC-TCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC taatcattactgtttagctatgggcctcttggattcttttatttttcaagGATAGTAAGTCAAACATGACATACTCCTGTTTGTTCTTCATCCTCCTCCAGTTTCCTGATTGTGGCTTTGATTC-TTCAGCATTTTCAGAATCAAGTGACTCTACACATgtaagcaagtccatgagtatttaaaaaagggtgattctagtgaatgtcca Alignment from CESAR GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTC-TCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC taatcattactgtttagctatgggcctcttggattcttttatttttcaagGATAGTAAGTCAAACATGACATACTCCTGTTTGTTCTTCATCCTCCTCCAGTTTCCTGATTGTGGCTTTGATTC-TTCAGCATTTTCAGAATCAAGTGACTCTACACATgtaagcaagtccatgagtatttaaaaaagggtgattctagtgaatgtcca Alignment from Spaln_aa2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC taatcattactgtttagctatgggcctcttggattcttttatttttcaagGATAGTAAGTCAAACATGACATACTCCTGTTTGTTCTTCATCCTCCTCCAGTTTCCTGATTGTGGCTTTGATTCTTCAGCATTTTCAGAATCAAGTGACTCTACACATgtaagcaagtccatgagtatttaaaaaagggtgattctagtgaatgtcca Alignment from Spaln_nt2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTC-TCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC taatcattactgtttagctatgggcctcttggattcttttatttttcaagGATAGTAAGTCAAACATGACATACTCCTGTTTGTTCTTCATCCTCCTCCAGTTTCCTGATTGTGGCTTTGATTC-TTCAGCATTTTCAGAATCAAGTGACTCTACACATgtaagcaagtccatgagtatttaaaaaagggtgattctagtgaatgtcca Alignment from Pairagon GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGT-CTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC taatcattactgtttagctatgggcctcttggattcttttatttttcaagGATAGTAAGTCAAACATGACATACTCCTGTTTGTTCTTCATCCTCCTCCAGTTTCCTGATTGTGGCTTTGATTC-TTCAGCATTTTCAGAATCAAGTGACTCTACACATgtaagcaagtccatgagtatttaaaaaagggtgattctagtgaatgtcca Alignment from Exonerate_protein2genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC taatcattactgtttagctatgggcctcttggattcttttatttttcaagGATAGTAAGTCAAACATGACATACTCCTGTTTGTTCTTCATCCTCCTCCAGTTTCCTGATTGTGGCTTTGATTCTTCAGCATTTTCAGAATCAAGTGACTCTACACATgtaagcaagtccatgagtatttaaaaaagggtgattctagtgaatgtcca Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC taatcattactgtttagctatgggcctcttggattcttttatttttcaagGATAGTAAGTCAAACATGACATACTCCTGTTTGTTCTTCATCCTCCTCCAGTTTCCTGATTGTGGCTTTGATTCTTCAGCATTTTCAGAATCAAGTGACTCTACACATgtaagcaagtccatgagtatttaaaaaagggtgattctagtgaatgtcca #### Abcc2_ID8838_22 --> 0 - 1 Original Alignment GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTC-TTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg tgtagaggtgtgttcacactgcacctattttgcttttgtgtgtgattcagGTCAAGCTGTCTATCTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGCTTTATTATCATCTTCTACGTACTGAACTATGTGGCATTCATTG-CACTAATCTATGGTTGAGCGCCTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATTGCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATTGCACAAggtaatcgtgccaagaccacaaggcctaaagtgggttacatctggttacat Alignment from CESAR GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTC-TTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAg tgtagaggtgtgttcacactgcacctattttgcttttgtgtgtgattcagGTCAAGCTGTCTATCTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGCTTTATTATCATCTTCTACGTACTGAACTATGTGGCATTCATT-GCACTAATCTATGGTTGAGCGCCTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATTGCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATTGCACAAggtaatcgtgccaagaccacaaggcctaaagtgggttacatctggttacat Alignment from Spaln_aa2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTC-TTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG tgtagaggtgtgttcacactgcacctattttgcttttgtgtgtgattcagGTCAAGCTGTCTATCTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGcTTTATTATCATCTTCTACGTACTGAACTATGTGGCATTCATTGC-ACTAATCTATGGTTGAGCGCCTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATTGCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATTGCACAAGgtaatcgtgccaagaccacaaggcctaaagtgggttacatctggttacat Alignment from Spaln_nt2Genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCT-CTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG tgtagaggtgtgttcacactgcacctattttgcttttgtgtgtgattcagGTCAAGCTGTCTATCTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGCTTTATTATCATCTTCTACGTACTGAACTATGTGGCATTCATT-GCACTAATCTATGGTTGAGCGCCTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATTGCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATTGCACAAGgtaatcgtgccaagaccacaaggcctaaagtgggttacatctggttacat Alignment from Pairagon GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCT-CTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG tgtagaggtgtgttcacactgcacctattttgcttttgtgtgtgattcagGTCAAGCTGTCTATCTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGCTTTATTATCATCTTCTACGTACTGAACTATGTGGCATTCATT-GCACTAATCTATGGTTGAGCGCCTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATTGCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATTGCACAAGgtaatcgtgccaagaccacaaggcctaaagtgggttacatctggttacat Alignment from Exonerate_protein2genome GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTGCTC-TTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATT--GGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG tgtagaggtgtgttcacactgcacctattttgcttttgtgtgtgattcagGTCAAGCTGTCTATCTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGCTTTATTATCATCTTCTACGTACTGAACTATGTGGCATTCATTGC---ACTAATCTATGGTTGAGCGCCTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATTGCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATTGCACAAGgtaatcgtgccaagaccacaaggcctaaagtgggttacatctggttacat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTAAAGTTCTCCATCTACCTGAAATATCTGCAGGCGGTAGGATGGTGGTCCCTG-CTCTTCATCGTCATCTTCTACGTATTGAACTATGTGGCTTTTATTGGCACTAACCTCTGGCTGAGTGCTTGGACCAGTGACTCTGAAAAACAGAATGGGACCGACAATTCACCTTCTCAGAGGGACATGAGAATCGGGGTCTTTGGAGCTCTGGGAATAGCACAAG tgtagaggtgtgttcacactgcacctattttgcttttgtgtgtgattcagGTCAAGCTGTCTATCTACTTAAAGTATCTGCAGGCGGTGGGATGGTGGGCCCTGCTGCTTTATTATCATCTTCTACGTACTGAACTATGTGGCATTCATTGC-ACTAATCTATGGTTGAGCGCCTGGACAAGTGACTCTGAAAAACAGAATAGCACTGACAATTCACCATTGCAGAGAGATATGAGAATCAGAGTATTTGGTGCTCTGGGTATTGCACAAGgtaatcgtgccaagaccacaaggcctaaagtgggttacatctggttacat #### Abcc2_ID8844_28 --> 0 - 0 Original Alignment GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTAT-CAAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCCAAGTACAATACCGTCCCGAGCTAGATCTGGTCCTGA-GGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from CESAR GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTAT-CAAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCCAAGTACAATACCGTCCCGAGCTAGATCTGGTCCTGA-GGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Spaln_aa2Genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCCAAGTACAATACCGTCCCGAGCTAGATCTGGTCCTGAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Spaln_nt2Genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATC-AAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCCAAGTACAATACCGTCCCGAGCTAGATCTGGTCCTG-AGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Pairagon GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTAT-CAAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCCAAGTACAATACCGTCCCGAGCTAGATCTGGTCCTG-AGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Exonerate_protein2genome GCGCCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagaggtggtcactgtattttgctgttgttgttttcagGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCCAAGTACAATACCGTCCCGAGCTAGATCTGGTCCTGAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --------------------------------------CCGTGGGTGACCGACAAGAAGCCTCCGGCAGATTGGCCCAAAAAAGGTGAGATCCAGTTCAACAACTATCAAGTGCGGTATCGGCCGGAGCTGGATCTGGTCCTGAAAGGGATTACTTGTAACATCAAGAGCACCGAGAAG aatgcaagaaagaagAGGTGGTCACTGTATTTTGCTGTTGTTGTTTTCAGGTTCCATGGGTAAATGATAAAGCTCCTCCAGGAGACTGGCCTGAAAAAGGTGAGATCCAGTTCAATAACTATCCAAGTACAATACCGTCCCGAGCTAGATCTGGTCCTGAGGGAATCACCTGTAACATCAAAAGCACTGAAAAGgtaagaaatacaaaccatgagagtaaactaaaaggtgccaaatgatgcga #### Acsl5_ID11614_19 --> 0 - 0 Original Alignment TGTGTAAAGGAAGCCATTTTA-GAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcccctagactgcatgccctgcgtattctctggcaatcttggttgcagTTTGTGAAAGAGGCCATTCTGCGAGGACTTACAGAAAATAGGGAAAGAGGGTGGTT-GAAATCCCTTGAACAGgtaagaatgtggtatgttttccctacttgatgcagtaaatcaatcaacag Alignment from CESAR TGTGTAAAGGAAGCCATTTTA-GAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcccctagactgcatgccctgcgtattctctggcaatcttggttgcagTTTGTGAAAGAGGCCATTCTGCGAGGACTTACAGAAAATAGGGAAAGAGGGTG-GTTGAAATCCCTTGAACAGgtaagaatgtggtatgttttccctacttgatgcagtaaatcaatcaacag Alignment from Spaln_aa2Genome TGTGTAAAGGAAGCCATTTTA-GAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcccctagactgcatgccctgcgtattctctggcaatcttggttgcagTTTGTGAAAGAGGCCATTCTGcGAGGACTTACAGAAAATAGGGAAAGAGGGTGGTTG-AAATCCCTTGAACAGgtaagaatgtggtatgttttccctacttgatgcagtaaatcaatcaacag Alignment from Spaln_nt2Genome TGTGTAAAGGAAGCCATTTTA-GAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcccctagactgcatgccctgcgtattctctggcaatcttggttgcagTTTGTGAAAGAGGCCATTCTGCGAGGACTTACAGAAAATAGGGAAAGAGGGTGG-TTGAAATCCCTTGAACAGgtaagaatgtggtatgttttccctacttgatgcagtaaatcaatcaacag Alignment from Pairagon TGTGTAAAGGAAGCCATTTTA-GAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcccctagactgcatgccctgcgtattctctggcaatcttggttgcagTTTGTGAAAGAGGCCATTCTGCGAGGACTTACAGAAAATAGGGAAAGAGGGTGG-TTGAAATCCCTTGAACAGgtaagaatgtggtatgttttccctacttgatgcagtaaatcaatcaacag Alignment from Exonerate_protein2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcccctagactgcatgccctgcgtattctctggcaatcttggttgcagTTTGTGAAAGAGGCCATTCTGCGAGGACTTACAGAAAATAGGGAAAGAGGGTGGTTGAAATCCCTTGAACAGgtaagaatgtggtatgttttccctacttgatgcagtaaatcaatcaacag Alignment from Exonerate_coding2genome TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAGGTCAAAAGTATCTTTGTGCATCCA aggcccctagactgcatgccctgcgtattctctggcaatcttggttgcagTTTGTGAAAGAGGCCATTCTGCGAGGACTTACAGAAAATAGGGAAAGAGGGTGGTTGAAATCCCTTGAACAGGTAAGAATGTGGTATGTTTTCCCTacttgatgcagtaaatcaatcaacag Alignment from GeneWise TGTGTAAAGGAAGCCATTTTAGAAGACTTGCAGAAAATTGGGAAAGAGGGTGGCCTGAAATCCTTTGAGCAG aggcccctagactgcatgccctgcgtattctctggcaatcttggttgcagTTTGTGAAAGAGGCCATTCTGCGAGGACTTACAGAAAATAGGGAAAGAGGGTGGTTGAAATCCCTTGAACAGgtaagaatgtggtatgttttccctacttgatgcagtaaatcaatcaacag #### Actn3_ID693_17 --> 0 - 0 Original Alignment GAAGTAGGACGGCTGGCAGCTGGGCTGGCC-GGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggccaatggtgagttttgggactctactcttttgcttcactctggacagGAAGTAGGACGACTAGCAGCAGGGCTAGCTCGGCTCTCTGGAGGAGCATATGGCAGGTCTGCGTCAGCAGGAAC-GAATATCATCAATTACAAAAGTAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtcagtacctaatggccgccagatagtcgtggtttatgtcagctgactca Alignment from CESAR GAAGTAGGACGGCTGGCAGCTGGGCTGGCC-GGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggccaatggtgagttttgggactctactcttttgcttcactctggacagGAAGTAGGACGACTAGCAGCAGGGCTAGCTCGGCTCTCTGGAGGAGCATATGGCAGGTCTGCGTCAGCAGGAA-CGAATATCATCAATTACAAAAGTAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtcagtacctaatggccgccagatagtcgtggtttatgtcagctgactca Alignment from Spaln_aa2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCCGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggccaatggtgagttttgggactctactcttttgcttcactctggacagGAAGTAGGACGACTAGCAGCAGGGCTAGCTCGGCTCTCTGGAGGAGCATATGGCAGGTCTGCGTCAGCAGGAACGAATATCATCAATTACAAAAGTAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtcagtacctaatggccgccagatagtcgtggtttatgtcagctgactca Alignment from Spaln_nt2Genome GAAGTAGGACGGCTGGCAGCTGGGCTGGC-CGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggccaatggtgagttttgggactctactcttttgcttcactctggacagGAAGTAGGACGACTAGCAGCAGGGCTAGCTCGGCTCTCTGGAGGAGCATATGGCAGGTCTGCGTCAGCAGGAAC-GAATATCATCAATTACAAAAGTAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtcagtacctaatggccgccagatagtcgtggtttatgtcagctgactca Alignment from Pairagon GAAGTAGGACGGCTGGCAGCTGGGCTGGC-CGGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggccaatggtgagttttgggactctactcttttgcttcactctggacagGAAGTAGGACGACTAGCAGCAGGGCTAGCTCGGCTCTCTGGAGGAGCATATGGCAGGTCTGCGTCAGCAGGAAC-GAATATCATCAATTACAAAAGTAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtcagtacctaatggccgccagatagtcgtggtttatgtcagctgactca Alignment from Exonerate_protein2genome GAAGTAGGACGGCTGGCAGCTGGGCTGGCC-GGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAA--CAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggccaatggtgagttttgggactctactcttttgcttcactctggacagGAAGTAGGACGACTAGCAGCAGGGCTAGCTCGGCTCTCTGGAGGAGCATATGGCAGGTCTGCGTCAGCAGGAACG---AATATCATCAATTACAAAAGTAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtcagtacctaatggccgccagatagtcgtggtttatgtcagctgactca Alignment from Exonerate_coding2genome gggccaatggtgagttttgggactctactcttttgcttcactctggacaggaagtaggacgactagcagcagggctagctcggctctctggaggagcatatggcaggtctgcgtcagcaggaacgaatatcatcaattacaaaagtaacatcgactggctagagggtgaccaccagttgctgcaggagagcctagtttttgacaacaagcacacagtctacagcatggaggtcagtacctaatggccgccagatagtcgtggtttatgtcagctgactca Alignment from GeneWise ---GGCTCTCTGGAGGAGCAGATGGCAGGTCTGCGGCAGCAGGAACAGAACATCATCAATTACAAGAGCAACATCGACCGGCTGGAGGGTGACCACCAGCTGCTGCAGGAGAGCCTAGTCTTTGACAACAAGCACACAGTCTACAGCATGGAG gggccaatggtgagttttgggactctactcttttgcttcactctggacaggaagtaggacgactagcagcagggctagCTCGGCTCTCTGGAGGAGCATATGGCAGGTCTGCGTCAGCAGGAACG-AATATCATCAATTACAAAAGTAACATCGACTGGCTAGAGGGTGACCACCAGTTGCTGCAGGAGAGCCTAGTTTTTGACAACAAGCACACAGTCTACAGCATGGAGgtcagtacctaatggccgccagatagtcgtggtttatgtcagctgactca #### Actn3_ID695_15 --> 0 - 0 Original Alignment AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCC-ATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacccacaggcaaatatggataatgcttttctattgggatttttatagAGCCTACTAACAGCACATGAACAATTCAAAGCTACTTTACCTGAAGCTGATCGAGAGCCAGGCGCTCGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCC-AACATATGGGTCACGCCCAAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGATATCAATAATAAGTGGGACACTgtaagttacctctttttgtgttaagtgagagatctattgtagcaatacta Alignment from CESAR AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCC-ATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacccacaggcaaatatggataatgcttttctattgggatttttatagAGCCTACTAACAGCACATGAACAATTCAAAGCTACTTTACCTGAAGCTGATCGAGAGCCAGGCGCTCGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCC-AACATATGGGTCACGCCCAAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGATATCAATAATAAGTGGGACACTgtaagttacctctttttgtgttaagtgagagatctattgtagcaatacta Alignment from Spaln_aa2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacccacaggcaaatatggataatgcttttctattgggatttttatagAGCCTACTAACAGCACATGAACAATTCAAAGCTACTTTACCTGAAGCTGATCGAGAGCCAGGCGCTCGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAACATATGGGTCACGCCCAAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGATATCAATAATAAGTGGGACACTgtaagttacctctttttgtgttaagtgagagatctattgtagcaatacta Alignment from Spaln_nt2Genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGC-CATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacccacaggcaaatatggataatgcttttctattgggatttttatagAGCCTACTAACAGCACATGAACAATTCAAAGCTACTTTACCTGAAGCTGATCGAGAGCCAGGCGCTCGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCC-AACATATGGGTCACGCCCAAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGATATCAATAATAAGTGGGACACTgtaagttacctctttttgtgttaagtgagagatctattgtagcaatacta Alignment from Pairagon AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGC-CATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacccacaggcaaatatggataatgcttttctattgggatttttatagAGCCTACTAACAGCACATGAACAATTCAAAGCTACTTTACCTGAAGCTGATCGAGAGCCAGGCGCTCGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCC-AACATATGGGTCACGCCCAAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGATATCAATAATAAGTGGGACACTgtaagttacctctttttgtgttaagtgagagatctattgtagcaatacta Alignment from Exonerate_protein2genome AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacccacaggcaaatatggataatgcttttctattgggatttttatagAGCCTACTAACAGCACATGAACAATTCAAAGCTACTTTACCTGAAGCTGATCGAGAGCCAGGCGCTCGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAACATATGGGTCACGCCCAAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGATATCAATAATAAGTGGGACACTgtaagttacctctttttgtgttaagtgagagatctattgtagcaatacta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacccacaggcaaatatggataatgcttttctattgggatttttatagAGCCTACTAACAGCACATGAACAATTCAAAGCTACTTTACCTGAAGCTGATCGAGAGCCAGGCGCTCGTCCCAGGCATCCAAGGAAAGATTTCAAAGATCTGCCAACATATGGGTCACGCCCAAAATTTGGAAACCCCTACATTACCCTCAGTATGAGGGATATCAATAATAAGTGGGACACTgtaagttacctctttttgtgttaagtgagagatctattgtagcaatacta #### Actn3_ID696_14 --> 0 - 0 Original Alignment AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAG-CTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatatttgtcctttgcctggattctgatgacatgtttcactcccgacagAAGATGGAGAAATTCCTGGAGACAATTGACCAGCTTCAGCCTAGAACTTGCTCGCAGGGCAGCTTCCTTCA-TAATTGGTTTGATGGAGCTGTTAAGGATCTGCATGACGTGTGGCTAGTGGTACACTCTGTGGAAGAA---AAAgtaatgtcaaatgtgcttggggcctgaacagatgacacaatgacttacct Alignment from CESAR AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAG-CTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatatttgtcctttgcctggattctgatgacatgtttcactcccgacagAAGATGGAGAAATTCCTGGAGACAATTGACCAGCTTCAGCCTAGAACTTGCTCGCAGGGCAGCTTCCTTC-ATAATTGGTTTGATGGAGCTGTTAAGGATCTGCATGACGTGTGGCTAGTGGTACACTCTGTGGAAGAA---AAAgtaatgtcaaatgtgcttggggcctgaacagatgacacaatgacttacct Alignment from Spaln_aa2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAG taatatttgtcctttgcctggattctgatgacatgtttcactcccgacagAAGATGGAGAAATTCCTGGAGACAATTGACCAGCTTCAGCCTAGAACTTGCTCGCAGGGCAGCTTCCTTCATAATTGGTTTGATGGAGCTGTTAAGGATCTGCATGACGTGTGGCTAGTGGTACACTCTGTGGAAGAA---AAAgtaatgtcaaatgtgcttggggcctgaacagatgacacaatgacttacct Alignment from Spaln_nt2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGC-TGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGAGACCCAG taatatttgtcctttgcctggattctgatgacatgtttcactcccgacagAAGATGGAGAAATTCCTGGAGACAATTGACCAGCTTCAGCCTAGAACTTGCTCGCAGGGCAGCTTCCTTC-ATAATTGGTTTGATGGAGCTGTTAAGGATCTGCATGACGTGTGGCTAGTGGTACACTCTGTGGAAGAAA---AAgtaatgtcaaatgtgcttggggcctgaacagatgacacaatgacttacct Alignment from Pairagon ------------------------------------------------AGAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAG-CTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTG---CACTCTGTGGAGGA------------------------------------------------------ TAATATTTGTCCTTTGCCTGGATTCTGATGACATGTTTCACTCCCGACAGAAGATGGAGAAATTCCTGGAGACAATTGACCAGCTTCAGCCTAGAACTTGCTCGCAGGGCAGCTTCCTTC-ATAATTGGTTTGATGGAGCTGTTAAGGATCTGCATGACGTGTGGCTAGTGGTACACTCTGTGGAAGAAAAAGTAATGTCAAATGTGCTTGGGGCCTGAACAGATGACACAATGACTTACCT Alignment from Exonerate_protein2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG taatatttgtcctttgcctggattctgatgacatgtttcactcccgacagAAGATGGAGAAATTCCTGGAGACAATTGACCAGCTTCAGCCTAGAACTTGCTCGCAGGGCAGCTTCCTTCATAATTGGTTTGATGGAGCTGTTAAGGATCTGCATGACGTGTGGCTAGTGGTACACTCTGTGGAAGAAAAAgtaatgtcaaatgtgcttggggcctgaacagatgacacaatgacttacct Alignment from Exonerate_coding2genome taatatttgtcctttgcctggattctgatgacatgtttcactcccgacagaagatggagaaattcctggagacaattgaccagcttcagcctagaacttgctcgcagggcagcttccttcataattggtttgatggagctgttaaggatctgcatgacgtgtggctagtggtacactctgtggaagaaaaagtaatgtcaaatgtgcttggggcctgaacagatgacacaatgacttacct Alignment from GeneWise AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTC---GTGCACTCTGTGGAGGAGACCCAGAG taatatttgtcctttgcctggattctgatgacatgtttcactcccgacagAAGATGGAGAAATTCCTGGAGACAATTGACCAGCTTCAGCCTAGAACTTGCTCGCAGGGCAGCTTCCTTCATAATTGGTTTGATGGAGCTGTTAAGGATCTGCATGACGTGTGGCTAGTGGTACACTCTGTGGAAGAAAAAGTAATgtcaaatgtgcttggggcctgaacagatgacacaatgacttacct #### Actn3_ID700_10 --> 0 - 0 Original Alignment CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGAC-TATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG------------CAG---CTGGAGCACTTCCAAGACCTATCAACACTTACGAAAGCCACCCTGTTTCCAAG-AACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAAC------TCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from CESAR CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGAC-TATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGCACTTCCAAGACCTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAA-CATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAAC------TCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Spaln_aa2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGCACTTCCAAGACCTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAAC------TCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Spaln_nt2Genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGAC-TATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTT------------AAACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGCACTTCCAAGACCTATCAACACTTACGAAAGCCACCCTGTTTCCAAGA-ACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAACTCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Pairagon CTGTTGGAGTGGATCCGCCGCAC--------------------------TGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGA-CTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTAAACCATGTAGCTGAATCTAGCATGC-----------------------------------------------------AGCTGGAGCACTTCCAAGACCTATCAACACTTACGAAAGCCACCCTGTTTCCAAGA-ACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAA------CTCAgtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Exonerate_protein2genome CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG ccgtcacctgttgcccattctgcccctagAGTTAATTTATCTTCTTGCAGCTGTTAGAATGGAATTGCCGCACCTTAAACCATGTAGCTGAATCTAGCATGCAG------CTGGAGCACTTCCAAGACCTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAACTCAGTAAGCggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from Exonerate_coding2genome ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagctgttagaatggaattgccgcaccttaaaccatgtagctgaatctagcatgcagctggagcacttccaagacctatcaacacttacgaaagccaccctgtttccaagaacatgccagctagagatcaactttaacatgctgcaagctaaattgcgtctgagtcaccaacctgccttcatgccctctggaggcaactcagtaagcggggattcagtaagatgtgacacagcctacatgcctacacaatc Alignment from GeneWise CTGTTGGAGTGGATCCGCCGCACTGTCCCATGGCTAGAGAACCGCGTGGGCGAACCCAGCATGAGTGCCATGCAGCGCAAGCTGGAGGACTTCCGAGACTATCGACGCCTGCACAAGCCTCCCCGTGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGTTGCGCCTGAGCCACCGACCCGCTTTCATGCCCTCCGAGGGCAAGCTGGTTTCG--------- ccgtcacctgttgcccattctgcccctagagttaatttatcttcttgcagCTGTTAGAATGGAATTGCCGCACCTTA------------AACCATGTAGCTGAATCTAGCATG---------------CAGCTGGAGCACTTCCAAGACCTATCAACACTTACGAAAGCCACCCTGTTTCCAAGAACATGCCAGCTAGAGATCAACTTTAACATGCTGCAAGCTAAATTGCGTCTGAGTCACCAACCTGCCTTCATGCCCTCTGGAGGCAACTCAGTAAGCGGGGATTCAgtaagatgtgacacagcctacatgcctacacaatc #### Actn3_ID701_9 --> 0 - 0 Original Alignment GCAGAGACTGCTGCCAACAGG-ATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG agccccctccaagctttctgggtatagtttaattgtcttttctacaaaagGCAGAGACTGCTGCCAACAGACATCTGCAAGGTATTACCAGTGAACCAGGAAAATG-GGAGCTTATGGAGAAATATGCAAAACTGGCTAGTGAGgtgtccttactccactgccctagaaatccctcccagcacttcttctgtgt Alignment from CESAR GCAGAGACTGCTGCCAACAGG-ATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG agccccctccaagctttctgggtatagtttaattgtcttttctacaaaagGCAGAGACTGCTGCCAACAGACATCTGCAAGGTATTACCAGTGAACCAGGAAAAT-GGGAGCTTATGGAGAAATATGCAAAACTGGCTAGTGAGgtgtccttactccactgccctagaaatccctcccagcacttcttctgtgt Alignment from Spaln_aa2Genome GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG agccccctccaagctttctgggtatagtttaattgtcttttctacaaaagGCAGAGACTGCTGCCAACAGACATCTGCAAGGTATTACCAGTGAACCAGGAAAATGGGAGCTTATGGAGAAATATGCAAAACTGGCTAGTGAGgtgtccttactccactgccctagaaatccctcccagcacttcttctgtgt Alignment from Spaln_nt2Genome GCAGAGACTGCTGCCAACAGG-ATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG agccccctccaagctttctgggtatagtttaattgtcttttctacaaaagGCAGAGACTGCTGCCAACAGACATCTGCAAGGTATTACCAGTGAACCAGGAAAATG-GGAGCTTATGGAGAAATATGCAAAACTGGCTAGTGAGgtgtccttactccactgccctagaaatccctcccagcacttcttctgtgt Alignment from Pairagon GCAGAGACTGCTGCCAACAGG-ATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG agccccctccaagctttctgggtatagtttaattgtcttttctacaaaagGCAGAGACTGCTGCCAACAGACATCTGCAAGGTATTACCAGTGAACCAGGAAAATG-GGAGCTTATGGAGAAATATGCAAAACTGGCTAGTGAGgtgtccttactccactgccctagaaatccctcccagcacttcttctgtgt Alignment from Exonerate_protein2genome GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG agccccctccaagctttctgggtatagtttaattgtcttttctacaaaagGCAGAGACTGCTGCCAACAGACATCTGCAAGGTATTACCAGTGAACCAGGAAAATGGGAGCTTATGGAGAAATATGCAAAACTGGCTAGTGAGgtgtccttactccactgccctagaaatccctcccagcacttcttctgtgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCAGAGACTGCTGCCAACAGGATCTGCAAGGTCTTAGCTGTGAACCAGGAAAATGAGAAGCTGATGGAGGAGTATGAGAAACTGGCCAGTGAG agccccctccaagctttctgggtatagtttaattgtcttttctacaaaagGCAGAGACTGCTGCCAACAGACATCTGCAAGGTATTACCAGTGAACCAGGAAAATGGGAGCTTATGGAGAAATATGCAAAACTGGCTAGTGAGgtgtccttactccactgccctagaaatccctcccagcacttcttctgtgt #### Actn3_ID702_8 --> 2 - 0 Original Alignment atATCGTGAACACCCCCAAACCAGAT-GAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagatATTGGCAACACACCCAGACCAGATCGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACG-TGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from CESAR atATCGTGAACACCCCCAAACCAGAT-GAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagatATTGGCAACACACCCAGACCAGATCGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTAC-GTGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Spaln_aa2Genome ATATCGTGAACACCCCCAAACCAGAT-GAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATcGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGT-GCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Spaln_nt2Genome ATATCGTGAACACCCCCAAACCAGAT-GAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATCGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTA-CGTGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Pairagon ATATCGTGAACACCCCCAAACCAGAT-GAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATCGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTA-CGTGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Exonerate_protein2genome ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATCGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGTGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATATCGTGAACACCCCCAAACCAGATGAGAAAGCCATCATGACCTATGTTTCCTGCTTCTACCATGCGTTTGCTGGGGCTGAGCAG tggaggtcaactatgctaggacactggccctttcccttgccttctcccagATATTGGCAACACACCCAGACCAGATCGAGAAAGCCATCATAACTTACCTTTCCTGTTTTTACGTGCATTTGCTGGGGCTGAGCAGgtaagcgagctgttgtaaacatcacatcatacagtatgtcctggcagttg #### Actn3_ID705_5 --> 2 - 2 Original Alignment agACCTCAGCCAAAGAA-GGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagagGCTGCCTCCAAACAGCGCCTTGTTCCTCTGGTGCCAATGGAAAATAG-TCCATACCATAATGTTAATGTACAGAACTTCCATACTaggtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from CESAR agACCTCAGCCAAAGAA-GGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagagGCTGCCTCCAAACAGCGCCTTGTTCCTCTGGTGCCAATGGAAAATA-GTCCATACCATAATGTTAATGTACAGAACTTCCATACTaggtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Spaln_aa2Genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGCGCCTTGTTCCTCTGGTGCCAATGGAAAATAGTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Spaln_nt2Genome AGACCTCAGCCAAAGAAGGC-TTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGCGCCTTGTTCCTCTGGTGCCAATGGAAAATAG-TCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Pairagon AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagaggctgcctccaaacag----------------CGCCTTGTTCCTCTGGTGCCAATGGAAAATAGT-CCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Exonerate_protein2genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGCGCCTTGTTCCTCTGGTGCCAATGGAAAATAGTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from Exonerate_coding2genome AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGCGCCTTGTTCCTCTGGTGCCAATGGAAAATAGTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca Alignment from GeneWise AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG atgctggataccaagccaagccatgtcactgtggttctctcctctgtcagAGGCTGCCTCCAAACAGCGCCTTGTTCCTCTGGTGCCAATGGAAAATAGTCCATACCATAATGTTAATGTACAGAACTTCCATACTAGgtaagaatgctgtatatcatagtcaggatctataaaagtgaagggtgtca #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAAC-CTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg cataacaagggggaaaaaataactctcaaaacatccttttccattcccagaaATAGTCGATGGAAACCCTGAAGATGACCCTTGGTATGATTGGGACAA-CATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggtgagctgatgctggataccaagccaagccatgtcaattttatatatcat Alignment from CESAR aaATTGTTGACGGGAAC-CTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg cataacaagggggaaaaaataactctcaaaacatccttttccattcccagaaATAGTCGATGGAAACCCTGAAGATGACCCTTGGTATGA-TTGGGACAACATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAggtgagctgatgctggataccaagccaagccatgtcactgtggttctctcc Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG cataacaagggggaaaaaataactctcaaaacatccttttccattcccagAAATAGTCGATGGAAACCCTGAAGATGACCCTTGGTATGATTGGGACAACATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgagctgatgctggataccaagccaagccatgtcaattttatatatcat Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACC-TGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG cataacaagggggaaaaaataactctcaaaacatccttttccattcccagAAATAGTCGATGGAAACCCTGAAGATGACCCTTGGTATGAT-TGGGACAACATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgagctgatgctggataccaagccaagccatgtcaattttatatatcat Alignment from Pairagon AAATTGTTGACGGGAA-CCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG cataacaagggggaaaaaataactctcaaaacatccttttccattcccagAAATAGTCGATGGAAACCCTGAAGATGACCCTTGGTATGATTGGGACAA-CATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgagctgatgctggataccaagccaagccatgtcaattttatatatcat Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG cataacaagggggaaaaaataactctcaaaacatccttttccattcccagAAATAGTCGATGGAAACCCTGAAGATGACCCTTGGTATGATTGGGACAACATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgagctgatgctggataccaagccaagccatgtcaattttatatatcat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG cataacaagggggaaaaaataactctcaaaacatccttttccattcccagAAATAGTCGATGGAAACCCTGAAGATGACCCTTGGTATGATTGGGACAACATCCTCCGTTTTGCCATTCAGGACATCTCTGTAGAAGgtgagctgatgctggataccaagccaagccatgtcaattttatatatcat #### Actr1a_ID9874_6 --> 1 - 0 Original Alignment tTATGCCACGGGCAGAACCACAGGCGTGGTGTTGGATTCTGGGGATGGTGTCACCCATGCAGTCCCGATTTATGAAGGC-TTCGCCATGCCTCACTCCATCATGCGCATCGACATCGCTGGCCGGGATGTCTCACGCTTCCTCCGCCTCTACCTACGGAAGGAGGGCTATGATTTCCACTCCTCCTCTGAGTTTGAGATTGTCAAGGCCATAAAGGAA cacgtgatctcaaggaactctctaagagcatatcacttcccttcacacagtTATGCCACCAGCAAGACCACAGGTGTAGTGTTGGATTCTGGGGATGGTATCACTCATGTAGTTCCAATTTATGAAGGCCTTCACCATTCCTCACTCCATCATGCGCA-TGACATTGCTGGACGGGATGTGTCACACCTCCTGCGTCTCTATCTACGGCAGGAGGGATATGATTTTCATGCCTCCTCTGAGTTTGAGATTGTTAAAGCTATAAAAGAAgtaactgttgtaaacacccagcttcatcatgaggtcttaagaataaaaaa Alignment from CESAR tTATGCCACGGGCAGAACCACAGGCGTGGTGTTGGATTCTGGGGATGGTGTCACCCATGCAGTCCCGATTTATGAAGGC-TTCGCCATGCCTCACTCCATCATGCGCATCGACATCGCTGGCCGGGATGTCTCACGCTTCCTCCGCCTCTACCTACGGAAGGAGGGCTATGATTTCCACTCCTCCTCTGAGTTTGAGATTGTCAAGGCCATAAAGGAA cacgtgatctcaaggaactctctaagagcatatcacttcccttcacacagtTATGCCACCAGCAAGACCACAGGTGTAGTGTTGGATTCTGGGGATGGTATCACTCATGTAGTTCCAATTTATGAAGGCCTTCACCATTCCTCACTCCATCATGCGCA-TGACATTGCTGGACGGGATGTGTCACACCTCCTGCGTCTCTATCTACGGCAGGAGGGATATGATTTTCATGCCTCCTCTGAGTTTGAGATTGTTAAAGCTATAAAAGAAgtaactgttgtaaacacccagcttcatcatgaggtcttaagaataaaaaa Alignment from Spaln_aa2Genome TTATGCCACGGGCAGAACCACAGGCGTGGTGTTGGATTCTGGGGATGGTGTCACCCATGCAGTCCCGATTTATGAAGGCTTCGCCATGCCTCACTCCATCATGCGCATCGACATCGCTGGCCGGGATGTCTCACGCTTCCTCCGCCTCTACCTACGGAAGGAGGGCTATGATTTCCACTCCTCCTCTGAGTTTGAGATTGTCAAGGCCATAAAGGAA cacgtgatctcaaggaactctctaagagcatatcacttcccttcacacagTTATGCCACCAGCAAGACCACAGGTGTAGTGTTGGATTCTGGGGATGGTATCACTCATGTAGTTCCAATTTATGAAGGCCTTCACCATTCCTCACTCCATCATGCGCATGACATTGCTGGACGGGATGTGTCACACCTCCTGCGTCTCTATCTACGGCAGGAGGGATATGATTTTCATGCCTCCTCTGAGTTTGAGATTGTTAAAGCTATAAAAGAAgtaactgttgtaaacacccagcttcatcatgaggtcttaagaataaaaaa Alignment from Spaln_nt2Genome TTATGCCACGGGCAGAACCACAGGCGTGGTGTTGGATTCTGGGGATGGTGTCACCCATGCAGTCCCGATTTATGAAGG-CTTCGCCATGCCTCACTCCATCATGCGCATCGACATCGCTGGCCGGGATGTCTCACGCTTCCTCCGCCTCTACCTACGGAAGGAGGGCTATGATTTCCACTCCTCCTCTGAGTTTGAGATTGTCAAGGCCATAAAGGAA cacgtgatctcaaggaactctctaagagcatatcacttcccttcacacagTTATGCCACCAGCAAGACCACAGGTGTAGTGTTGGATTCTGGGGATGGTATCACTCATGTAGTTCCAATTTATGAAGGCCTTCACCATTCCTCACTCCATCATGCGCAT-GACATTGCTGGACGGGATGTGTCACACCTCCTGCGTCTCTATCTACGGCAGGAGGGATATGATTTTCATGCCTCCTCTGAGTTTGAGATTGTTAAAGCTATAAAAGAAgtaactgttgtaaacacccagcttcatcatgaggtcttaagaataaaaaa Alignment from Pairagon TTATGCCACGGGCAGAACCACAGGCGTGGTGTTGGATTCTGGGGATGGTGTCACCCATGCAGTCCCGATTTATGAAGG-CTTCGCCATGCCTCACTCCATCATGCGCATCGACATCGCTGGCCGGGATGTCTCACGCTTCCTCCGCCTCTACCTACGGAAGGAGGGCTATGATTTCCACTCCTCCTCTGAGTTTGAGATTGTCAAGGCCATAAAGGAA cacgtgatctcaaggaactctctaagagcatatcacttcccttcacacagTTATGCCACCAGCAAGACCACAGGTGTAGTGTTGGATTCTGGGGATGGTATCACTCATGTAGTTCCAATTTATGAAGGCCTTCACCATTCCTCACTCCATCATGCGCAT-GACATTGCTGGACGGGATGTGTCACACCTCCTGCGTCTCTATCTACGGCAGGAGGGATATGATTTTCATGCCTCCTCTGAGTTTGAGATTGTTAAAGCTATAAAAGAAgtaactgttgtaaacacccagcttcatcatgaggtcttaagaataaaaaa Alignment from Exonerate_protein2genome TTATGCCACGGGCAGAACCACAGGCGTGGTGTTGGATTCTGGGGATGGTGTCACCCATGCAGTCCCGATTTATGAAGGCTTCGCCATGCCTCACTCCATCATGCGCATCGACATCGCTGGCCGGGATGTCTCACGCTTCCTCCGCCTCTACCTACGGAAGGAGGGCTATGATTTCCACTCCTCCTCTGAGTTTGAGATTGTCAAGGCCATAAAGGAA cacgtgatctcaaggaactctctaagagcatatcacttcccttcacacagTTATGCCACCAGCAAGACCACAGGTGTAGTGTTGGATTCTGGGGATGGTATCACTCATGTAGTTCCAATTTATGAAGGCCTTCACCATTCCTCACTCCATCATGCGCATGACATTGCTGGACGGGATGTGTCACACCTCCTGCGTCTCTATCTACGGCAGGAGGGATATGATTTTCATGCCTCCTCTGAGTTTGAGATTGTTAAAGCTATAAAAGAAgtaactgttgtaaacacccagcttcatcatgaggtcttaagaataaaaaa Alignment from Exonerate_coding2genome TTATGCCACGGGCAGAACCACAGGCGTGGTGTTGGATTCTGGGGATGGTGTCACCCATGCAGTCCCGATTTATGAAGGCTTCGCCATGCCTCACTCCATCATGCGCATCGACATCGCTGGCCGGGATGTCTCACGCTTCCTCCGCCTCTACCTACGGAAGGAGGGCTATGATTTCCACTCCTCCTCTGAGTTTGAGATTGTCAAGGCCATAAAGGAA cacgtgatctcaaggaactctctaagagcatatcacttcccttcacacagTTATGCCACCAGCAAGACCACAGGTGTAGTGTTGGATTCTGGGGATGGTATCACTCATGTAGTTCCAATTTATGAAGGCCTTCACCATTCCTCACTCCATCATGCGCATGACATTGCTGGACGGGATGTGTCACACCTCCTGCGTCTCTATCTACGGCAGGAGGGATATGATTTTCATGCCTCCTCTGAGTTTGAGATTGTTAAAGCTATAAAAGAAgtaactgttgtaaacacccagcttcatcatgaggtcttaagaataaaaaa Alignment from GeneWise TTATGCCACGGGCAGAACCACAGGCGTGGTGTTGGATTCTGGGGATGGTGTCACCCATGCAGTCCCGATTTATGAAGGCTTCGCCATGCCTCACTCCATCATGCGCATCGACATCGCTGGCCGGGATGTCTCACGCTTCCTCCGCCTCTACCTACGGAAGGAGGGCTATGATTTCCACTCCTCCTCTGAGTTTGAGATTGTCAAGGCCATAAAGGAA cacgtgatctcaaggaactctctaagagcatatcacttcccttcacacagTTATGCCACCAGCAAGACCACAGGTGTAGTGTTGGATTCTGGGGATGGTATCACTCATGTAGTTCCAATTTATGAAGGCCTTCACCATTCCTCACTCCATCATGCGCATGACATTGCTGGACGGGATGTGTCACACCTCCTGCGTCTCTATCTACGGCAGGAGGGATATGATTTTCATGCCTCCTCTGAGTTTGAGATTGTTAAAGCTATAAAAGAAgtaactgttgtaaacacccagcttcatcatgaggtcttaagaataaaaaa #### Actr1a_ID9877_3 --> 1 - 0 Original Alignment tGTGGGCAGACCCAAA-CATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagtGTAGGAAGGCCCAAACCATGTTCATGCTATGTCAGGGGCCCTGG-AGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from CESAR tGTGGGCAGACCCAAA-CATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagtGTAGGAAGGCCCAAACCATGTTCATGCTATGTCAGGGGCCCTGG-AGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Spaln_aa2Genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACCATGTTCATGCTATGTCAGGGGCCCTGGAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Spaln_nt2Genome TGTGGGCAGACCCAAAC-ATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACCATGTTCATGCTATGTCAGGGGCCCTGG-AGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Pairagon TGTGGGCAGACCCAAA-CATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACCATGTTCATGCTATGTCAGGGGCCCTGG-AGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Exonerate_protein2genome TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACCATGTTCATGCTATGTCAGGGGCCCTGGAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from Exonerate_coding2genome gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagtgtaggaaggcccaaaccatgttcatgctatgtcaggggccctggaggtgacctctttattggctcaaaagcagaggtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat Alignment from GeneWise TGTGGGCAGACCCAAACATGTTCGTGTCATGGCAGGAGCCCTGGAAGGTGACATCTTCATTGGCCCCAAAGCGGAG gtgtgttctcccacatgacatgaagaatcaactccttactctgctcctagTGTAGGAAGGCCCAAACCATGTTCATGCTATGTCAGGGGCCCTGGAGGTGACCTCTTTATTGGCTCAAAAGCAGAGgtaagctttgtccaacgaaaaaaggttggtataaggagctccccccacat #### Adrbk1_ID486_9 --> 0 - 1 Original Alignment GACTGCCCCTTC-ATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCCACTGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAG-CTTTATCCTGGATCTTATGAATggtaagtgagtttcataactgcatatctattttctccttacagggGTAGAG Alignment from CESAR GACTGCCCCTTC-ATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCCACTGTGTGCATGTCATATGCATTCCACACACCGGACAAGC-TAGCTTTATCCTGGATCTTATGAATggtaagtgagtttcataactgtgatttgggaattgctttgcagggGTAGAG Alignment from Spaln_aa2Genome GACTGCCCCTTC-ATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCcACTGTGTGCATGTCATATGCATTCCACACACCGGACAAGCT-AGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgcatatctattttctccttacagGGGTAGAG Alignment from Spaln_nt2Genome GACTGCCCCTTCATC-GTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCCACTGTGTGCATGTCATATGCATTCCACACACCGGACAAGCT-AGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgcatatctattttctccttacagGGGTAGAG Alignment from Pairagon GACTGCCCCTT-CATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCCACTGTGTGCATGTCATATGCATTCCACACACCGGACAAGCT-AGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgcatatctattttctccttacagGGGTAGAG Alignment from Exonerate_protein2genome GACTGC-CCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAG--CTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCCACTGTGTGCATGTCATATGCATTCCACACACCGGACAAGCT---AGCTTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgcatatctattttctccttacagGGGTAGAG Alignment from Exonerate_coding2genome cccctctcagttcaccttctataagacactcatccttctttgacccctaggactgctccttccactgtgtgcatgtcatatgcattccacacaccggacaagctagctttatcctggatcttatgaatggtaagtgagtttcataactgcatatctattttctccttacaggggtagag Alignment from GeneWise ----------------GTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC cccctctcagttcaccttctataagacactcatccttctttgacccctagGACTGCTCCTTCCACTGTGTGCATGTCATATGCATTCCACACACCGGACAAGCTAGC-TTTATCCTGGATCTTATGAATGgtaagtgagtttcataactgcatatctattttctccttacagGGGTAGAG #### Adrbk1_ID491_4 --> 0 - 0 Original Alignment CCCTTTTCAAAGAAT-GCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttcttcttgtatattgttctgtatccttccttacagCCCTTCTCCCAAAATCGCTGCGGAGCATGTGCAGGCTCACCTTG-GAAGAAGCAGGTCCCACCAGATCTGTTTCAAgtgaggttaggatgcttatcacggtgttcataagaggttgtttttctttc Alignment from CESAR CCCTTTTCAAAGAAT-GCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttcttcttgtatattgttctgtatccttccttacagCCCTTCTCCCAAAATCGCTGCGGAGCATGTGCAGGCTCACCTT-GGAAGAAGCAGGTCCCACCAGATCTGTTTCAAgtgaggttaggatgcttatcacggtgttcataagaggttgtttttctttc Alignment from Spaln_aa2Genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttcttcttgtatattgttctgtatccttccttacagCCCTTCTCCCAAAATCGCTGCGGAGCATGTGCAGGCTCACCTTGGAAGAAGCAGGTCCCACCAGATCTGTTTCAAgtgaggttaggatgcttatcacggtgttcataagaggttgtttttctttc Alignment from Spaln_nt2Genome CCCTTTTCAAAGAAT-GCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttcttcttgtatattgttctgtatccttccttacagCCCTTCTCCCAAAATCGCTGCGGAGCATGTGCAGGCTCACCTTG-GAAGAAGCAGGTCCCACCAGATCTGTTTCAAgtgaggttaggatgcttatcacggtgttcataagaggttgtttttctttc Alignment from Pairagon CCCTTTTCAAAGAAT-GCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttcttcttgtatattgttctgtatccttccttacagCCCTTCTCCCAAAATCGCTGCGGAGCATGTGCAGGCTCACCTTG-GAAGAAGCAGGTCCCACCAGATCTGTTTCAAgtgaggttaggatgcttatcacggtgttcataagaggttgtttttctttc Alignment from Exonerate_protein2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttcttcttgtatattgttctgtatccttccttacagCCCTTCTCCCAAAATCGCTGCGGAGCATGTGCAGGCTCACCTTGGAAGAAGCAGGTCCCACCAGATCTGTTTCAAgtgaggttaggatgcttatcacggtgttcataagaggttgtttttctttc Alignment from Exonerate_coding2genome acattccattttgcttcttcttgtatattgttctgtatccttccttacagcccttctcccaaaatcgctgcggagcatgtgcaggctcaccttggaagaagcaggtcccaccagatctgtttcaagtgaggttaggatgcttatcacggtgttcataagaggttgtttttctttc Alignment from GeneWise CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acattccattttgcttcttcttgtatattgttctgtatccttccttacagCCCTTCTCCCAAAATCGCTGCGGAGCATGTGCAGGCTCACCTTGGAAGAAGCAGGTCCCACCAGATCTGTTTCAAgtgaggttaggatgcttatcacggtgttcataagaggttgtttttctttc #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGAC-ACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tgctcttcaaaccacctggaagtatatctattggtatcctttcccgccagAGGCAGCCAGAAGTTCAAGAGTCTTCAGAGCCTATTGAACCCACACCGTGGAGCACTATTGTAAAGTTGCAT---GATCAACAAAGGATTTACTTCCCTGCTAACTGCCAAGATCACAATGGCTTCCACCCCCATTACTGCAA-TGCACCTGCAAAAGAGAAGTTAAGT------GGTGCAggtaagtctgtagttcgcctgtgttgctgagttggtccagaggaggttaat Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGAC-ACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tgctcttcaaaccacctggaagtatatctattggtatcctttcccgccagAGGCAGCCAGAAGTTCAAGAGTCTTCAGAGCCTATTGAACCCACACCGTGGAGCACTATTGTAAAGTTGCAT---GATCAACAAAGGATTTACTTCCCTGCTAACTGCCAAGATCACAATGGCTTCCACCCCCATTACTG-CAATGCACCTGCAAAAGAGAAGTTA------AGTGGTGCAggtaagtctgtagttcgcctgtgttgctgagttggtccagaggaggttaat Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtatatctattggtatcctttcccgccagAGGCAGCCAGAAGTTCAAGAGTCTTCAGAGCCTATTGAACCCACACCGTGGAGCACTATTGTAAAGTTGCAT---GATCAACAAAGGATTTACTTCCCTGCTAACTGCCAAGATCACAATGGCTTCCACCCCCATTACTGCAATGCACCTGCAAAAGAGAAGTTA------AGTGGTGCAGgtaagtctgtagttcgcctgtgttgctgagttggtccagaggaggttaat Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGA-CACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtatatctattggtatcctttcccgccagAGGCAGCCAGAAGTTCAAGAGTCTTCAGAGCCTATTGAACCCACACCGTGGAGCACTATTGTAAAGTTGCA---TGATCAACAAAGGATTTACTTCCCTGCTAACTGCCAAGATCACAATGGCTTCCACCCCCATTACTG-CAATGCACCTGCAAAAGAGAAGTTAAGTG------GTGCAGgtaagtctgtagttcgcctgtgttgctgagttggtccagaggaggttaat Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGA-CACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtatatctattggtatcctttcccgccagAGGCAGCCAGAAGTTCAAGAGTCTTCAGAGCCTATTGAACCCACACCGTGGAGCACTATTGTAAAGTTGCA---TGATCAACAAAGGATTTACTTCCCTGCTAACTGCCAAGATCACAATGGCTTCCACCCCCATTACTG-CAATGCACCTGCAAAAGAGAAGTTAAGTG------GTGCAGgtaagtctgtagttcgcctgtgttgctgagttggtccagaggaggttaat Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtatatctattggtatcctttcccgccagAGGCAGCCAGAAGTTCAAGAGTCTTCAGAGCCTATTGAACCCACACCGTGGAGCACTATTGTAAAGTTGCAT---GATCAACAAAGGATTTACTTCCCTGCTAACTGCCAAGATCACAATGGCTTCCACCCCCATTACTGCAATGCACCTGCAAAAGAGAAGTTA------AGTGGTGCAGgtaagtctgtagttcgcctgtgttgctgagttggtccagaggaggttaat Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tgctcttcaaaccacctggaagtatatctattggtatcctttcccgccagAGGCAGCCAGAAGTTCAAGAGTCTTCAGAGCCTATTGAACCCACACCGTGGAGCACTATTGTAAAGTTGCAT---GATCAACAAAGGATTTACTTCCCTGCTAACTGCCAAGATCACAATGGCTTCCACCCCCATTACTGCAATGCACCTGCAAAAGAGAAGTTA------AGTGGTGCAGgtaagtctgtagttcgcctgtgttgctgagttggtccagaggaggttaat Alignment from GeneWise AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAG-- tgctcttcaaaccacctggaagtatatctattggtatcctttcccgccagAGGCAGCCAGAAGTTCAAGAGTCTTCAGAGCCTATTGAACCCACACCGTGGAGCACTATTGTAAAGTTGCAT---GATCAACAAAGGATTTACTTCCCTGCTAACTGCCAAGATCACAATGGCTTCCACCCCCATTACTGCAATGCACCTGCAAAAGAGAAgttaagtggtgcaggtaagtctgtagttcgcctgtgttgctgagttggtccagaggaggttaat #### Afap1l2_ID12248_15 --> 0 - 0 Original Alignment GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGAC-CCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACA---G-ACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from CESAR GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGAC-CCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACAG-A---CCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Spaln_aa2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCCAGAGTCCATCACTACCCGAGAGGAGGC---CCACACAGACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Spaln_nt2Genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGA-CCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGG---CTACTGTTGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACAGA----CCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Pairagon GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGA-CCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGG---CTACTGTTGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACAGA----CCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Exonerate_protein2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCCAGAGTCCATCACTACCCG---AGAGGAGGCCCACACAGACCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from Exonerate_coding2genome GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCAC---CCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCCAGAGTC--CATCACTACCCGAGAGGAGGCCCACACAGA----CCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt Alignment from GeneWise GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAG---CCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG tagcagaccagcactagcactccagagatttcacttggtctccttttcagGTGGAACCTGCTGAAGAAGAGGCT---ACTGTTGACACGAACAGTGGCAGTGAACCAGACACAGTATACTTGGAT---ACACCAGTGAAATCTTTCTTGCACAGTAGCAGAGAGGCTCAGGTACAGACTTCTCTCCCTGCTGTGTCACACCAGGATGACATAGCTGAGACCCTTACAGTAGATCCCAGAGTCCATCACTACCCGAGAGGAGGCCCACACAGA------CCAGGAGATCCTGAGTTGCAGCAGgtaaggaagtggacacactacattacctgctcttcaaaccacctggaagt #### Afap1l2_ID12253_10 --> 0 - 1 Original Alignment CCAGACATAGCTGAGAAG-TACCTGTCAGCAGCGGAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATg ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAACTACCTCTCAGCAGCAGAGTACGGAATTACCA-CAATGGTCACCCTGAGATTCCAGAAACTAAAGATggttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from CESAR CCAGACATAGCTGAGAAG-TACCTGTCAGCAGCGGAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATg ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAACTACCTCTCAGCAGCAGAGTACGGAATTACC-ACAATGGTCACCCTGAGATTCCAGAAACTAAAGATggttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Spaln_aa2Genome CCAGACATAGCTGAGAAG-TACCTGTCAGCAGCGGAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAAcTACCTCTCAGCAGCAGAGTACGGAATTACCAC-AATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Spaln_nt2Genome CCAGACATAGCTG-AGAAGTACCTGTCAGCAGCGGAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAACTACCTCTCAGCAGCAGAGTACGGAATTACCA-CAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Pairagon CCAGACATAGCTG-AGAAGTACCTGTCAGCAGCGGAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAACTACCTCTCAGCAGCAGAGTACGGAATTACCA-CAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Exonerate_protein2genome CCAGACATAGCTGAGAAGTACCTGTCAGCAGCGGAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAACTACCTCTCAGCAGCAGAGTACGGAATTACCACAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from Exonerate_coding2genome ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagtctgatattgctgcaaaactacctctcagcagcagagtacggaattaccacaatggtcaccctgagattccagaaactaaagatggttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc Alignment from GeneWise CCAGACATAGCTGAGAAGTACCTGTCAGCAGCGGAGTACGGGATCACCATCAACGGCCACCCTGAGATCCCAGAGACCAAAGATG ttgtctttgcagtatcataaaccatttaagatcatggctcactcttgcagTCTGATATTGCTGCAAAACTACCTCTCAGCAGCAGAGTACGGAATTACCACAATGGTCACCCTGAGATTCCAGAAACTAAAGATGgttggtcagtaaggatccccaaagggcttttttaagcgtgtaggccagcc #### Aip_ID330_5 --> 0 - 1 Original Alignment GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATC-ACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg ctatcatcactgcagctggggactgacctggttcctttatctgcttacagGAGCAGGCTGGCTCTTCAGACTGGGTCCAGTTAGACCTGCAGATCCACACCATTGCTACCCAATTACTGCCAGTGCA-GCTTGTAGCTCCAGGGTATTATGAAGTACTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtaagcgtcattgcccagtactgcccaatacaactcaactcagacttccc Alignment from CESAR GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATC-ACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATg ctatcatcactgcagctggggactgacctggttcctttatctgcttacagGAGCAGGCTGGCTCTTCAGACTGGGTCCAGTTAGACCTGCAGATCCACACCATTGCTACCCAATTACTGCCAGT-GCAGCTTGTAGCTCCAGGGTATTATGAAGTACTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTggtaagcgtcattgcccagtactgcccaatacaactcaactcagacttccc Alignment from Spaln_aa2Genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG ctatcatcactgcagctggggactgacctggttcctttatctgcttacagGAGCAGGCTGGCTCTTCAGACTGGGTCCAGTTAGACCTGCAGATCCACACCATTGCTACCCAATTACTGCCAGTGCAGCTTGTAGCTCCAGGGTATTATGAAGTACTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagcgtcattgcccagtactgcccaatacaactcaactcagacttccc Alignment from Spaln_nt2Genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGAT-CACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG ctatcatcactgcagctggggactgacctggttcctttatctgcttacagGAGCAGGCTGGCTCTTCAGACTGGGTCCAGTTAGACCTGCAGATCCACACCATTGCTACCCAATTACTGCCAGTGC-AGCTTGTAGCTCCAGGGTATTATGAAGTACTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagcgtcattgcccagtactgcccaatacaactcaactcagacttccc Alignment from Pairagon GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGAT-CACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG ctatcatcactgcagctggggactgacctggttcctttatctgcttacagGAGCAGGCTGGCTCTTCAGACTGGGTCCAGTTAGACCTGCAGATCCACACCATTGCTACCCAATTACTGCCAGTGC-AGCTTGTAGCTCCAGGGTATTATGAAGTACTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagcgtcattgcccagtactgcccaatacaactcaactcagacttccc Alignment from Exonerate_protein2genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG ctatcatcactgcagctggggactgacctggttcctttatctgcttacagGAGCAGGCTGGCTCTTCAGACTGGGTCCAGTTAGACCTGCAGATCCACACCATTGCTACCCAATTACTGCCAGTGCAGCTTGTAGCTCCAGGGTATTATGAAGTACTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagcgtcattgcccagtactgcccaatacaactcaactcagacttccc Alignment from Exonerate_coding2genome GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG ctatcatcactgcagctggggactgacctggttcctttatctgcttacagGAGCAGGCTGGCTCTTCAGACTGGGTCCAGTTAGACCTGCAGATCCACACCATTGCTACCCAATTACTGCCAGTGCAGCTTGTAGCTCCAGGGTATTATGAAGTACTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagcgtcattgcccagtactgcccaatacaactcaactcagacttccc Alignment from GeneWise GAGCAGCCTGGCTCACCTGACTGGATCCAGTTGGACCTGCAGATCACACCACTGCTACTCAACTATTGCCAGTGCAAGCTGGTGGCTCAGGAGTATTATGAAGTGTTGGATCACTGCTCCTCCATCCTCAACAAGTATGATG ctatcatcactgcagctggggactgacctggttcctttatctgcttacagGAGCAGGCTGGCTCTTCAGACTGGGTCCAGTTAGACCTGCAGATCCACACCATTGCTACCCAATTACTGCCAGTGCAGCTTGTAGCTCCAGGGTATTATGAAGTACTGGATCACTGCTTGTCCATTCTCAACAAGTATGTTGgtaagcgtcattgcccagtactgcccaatacaactcaactcagacttccc #### Aldh3b1_ID204_3 --> 0 - 1 Original Alignment GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAG-CCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg acggagcagagtagggatctgaccacatgctctgtgttatttgtttctagTCTACTATGTTGGATGCTACATTCATCAGGAAGGAACCCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACC-CATAAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCTggtagcctggttttaactttttcactggggcttctgcctttgtcttttagt Alignment from CESAR GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAG-CCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg acggagcagagtagggatctgaccacatgctctgtgttatttgtttctagTCTACTATGTTGGATGCTACATTCATCAGGAAGGAACCCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATT-ACCCATAAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCTggtagcctggttttaactttttcactggggcttctgcctttgtcttttagt Alignment from Spaln_aa2Genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAG-CCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acggagcagagtagggatctgaccacatgctctgtgttatttgtttctagTCTACTATGTTGGATGCTACATTCATCAGGAAGGAAcCCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCC-ATAAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCTGgtagcctggttttaactttttcactggggcttctgcctttgtcttttagt Alignment from Spaln_nt2Genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCC-TTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acggagcagagtagggatctgaccacatgctctgtgttatttgtttctagTCTACTATGTTGGATGCTACATTCATCAGGAAGGAACCCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTAC-CCATAAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCTGgtagcctggttttaactttttcactggggcttctgcctttgtcttttagt Alignment from Pairagon ---------------GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAG-CCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acggagcagagtagggatctgaccacatgctctgtgttatttgtttctagTCTACTATGTTGGATGCTACA---------------TTCATCAGGAAGGAACCCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTA-CCCATAAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCTGgtagcctggttttaactttttcactggggcttctgcctttgtcttttagt Alignment from Exonerate_protein2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAG-CCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCC--ATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acggagcagagtagggatctgaccacatgctctgtgttatttgtttctagTCTACTATGTTGGATGCTACATTCATCAGGAAGGAACCCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCATA---AACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCTGgtagcctggttttaactttttcactggggcttctgcctttgtcttttagt Alignment from Exonerate_coding2genome acggagcagagtagggatctgaccacatgctctgtgttatttgtttctagtctactatgttggatgctacattcatcaggaaggaacccctttgggctggtgctaatcattgtgccctggaattacccataaacttgatgcttgtgccactggtgggtgctgtagctgctggtagcctggttttaactttttcactggggcttctgcctttgtcttttagt Alignment from GeneWise GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAG acggagcagagtagggatctgaccacatgctctgtgttatttgtttctagTCTACTATGTTGGATGCTACATTCATCAGGAAGGAACCCCTTTGGGCTGGTGCTAATCATTGTGCCCTGGAATTACCCATAAACTTGATGCTTGTGCCACTGGTGGGTGCTGTAGCTGCTGgtagcctggttttaactttttcactggggcttctgcctttgtcttttagt #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCTCAGCC-TTCATCCGGAAAGAGCCCTTTGGCCTG---GTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg tcctgtttaatttacattgcgaatttaaatctctctcccttcctccacagCTGACAAAGCTTAGCTCCACACTTCATCCGAAAAGAGCCCTTTGGTCTAGTTTTCCTGATCA-TGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAggtatgggaagtattatggccacctacatagaagaatatgccctgagggta Alignment from CESAR CTCACCAAGCTGAGCTCAGCC-TTCATCCGGAAAGAGCCCTTTGGCCTGGTG---CTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg tcctgtttaatttacattgcgaatttaaatctctctcccttcctccacagCTGACAAAGCTTAGCTCCACACTTCATCCGAAAAGAGCCCTTTGGTCTAGTTTTCCTGATCA-TGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAggtatgggaagtattatggccacctacatagaagaatatgccctgagggta Alignment from Spaln_aa2Genome GCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATT--GCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tcctgtttaatttacattgcgaatttaaatctctctcccttcctccacagctgacaaagcttagCTCCACACTTCATCCGAAAAGAGCCCTTTGGTCTAGTTTTCCTGATCatGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtatgggaagtattatggccacctacatagaagaatatgccctgagggta Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCTCAGC-CTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCAT--TGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tcctgtttaatttacattgcgaatttaaatctctctcccttcctccacagCTGACAAAGCTTAGCTCCACACTTCATCCGAAAAGAGCCCTTTGGTCTAGTTTTCCTGATCATGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtatgggaagtattatggccacctacatagaagaatatgccctgagggta Alignment from Pairagon CTCACCAAGCTGAGCTCAGC-CTTCATCCGGAAAGAGCCCTTTGGCCTGG---TGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tcctgtttaatttacattgcgaatttaaatctctctcccttcctccacagCTGACAAAGCTTAGCTCCACACTTCATCCGAAAAGAGCCCTTTGGTCTAGTTTTCCTGATCA-TGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtatgggaagtattatggccacctacatagaagaatatgccctgagggta Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCTCAGCC-TTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATT--GCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tcctgtttaatttacattgcgaatttaaatctctctcccttcctccacagCTGACAAAGCTTAGCTCCACACTTCATCCGAAAAGAGCCCTTTGGTCTAGTTTTCCTGATCATGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtatgggaagtattatggccacctacatagaagaatatgccctgagggta Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCTCAGCC-TTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATT--GCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAGGAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAG tcctgtttaatttacattgcgaatttaaatctctctcccttcctccacagCTGACAAAGCTTAGCTCCACACTTCATCCGAAAAGAGCCCTTTGGTCTAGTTTTCCTGATCATGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGGTATGGGAAGTATTATG---GCCACCTACATAGAAGAATATGCCCTGAGG Alignment from GeneWise GCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATT--GCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG tcctgtttaatttacattgcgaatttaaatctctctcccttcctccacagctgacaaagcttagCTCCACACTTCATCCGAAAAGAGCCCTTTGGTCTAGTTTTCCTGATCATGCACCTTGGAACTATCCTGTAAACTTGATGATCATCCCTCAGGTGGGGGCCATTGCTGCAGgtatgggaagtattatggccacctacatagaagaatatgccctgagggta #### Aldh3b2_ID242_8 --> 2 - 0 Original Alignment ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAG-GAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagcgCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGCGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCT-GGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from CESAR ccCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAG-GAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagcgCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGCGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAA-GCTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Spaln_aa2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAG-GAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGcGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAG-CTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Spaln_nt2Genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAG-GAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGCGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAG-CTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Pairagon CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAG-GAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGCGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAG-CTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Exonerate_protein2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAG-GAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGA--AGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGCGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAG---CTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from Exonerate_coding2genome CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAG-GAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGA--AGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGCGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAG---CTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt Alignment from GeneWise CCCCCACAGTGCTGGTAGACGTGCAGGAGACAGAGCCCGTGATGCAGGAGGAGATCTTTGGGCCCATCCTGCCCCTGGTGACTGTGAGAAGCCTGGATGAAGCCATTGAGTTCATCAACCGGCGGGAGAAGCCTCTGGCGCTGTATGCCTTCTCCAACAACAACCAG cacacaagtcttctgtacagtcttcattctgcctgcctgccctactctagCGCCGACAGATCTAGTAGATGTTCATGCAACAGAGCCCCTTATGCAAGAGCGAAATATTTGGGCCCATCCTTCCTTTAGTGACTGTAAGAAGCTGGATGAAGCCATTGTATCCAATAACCAATGGGAGAAACCACTAGCATTGTTTGCCTTTTCAAACAACAACCAGgtgagttggtggtgagacaagtcaagtgtggccagactggtcagaccttt #### Aldh3b2_ID243_9 --> 0 - 1 Original Alignment GTGGTGAATCAGATGTTGGAACGC-ACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTg ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTCACAAGCAGTGGGGGGTTTGGAGGCAATG-GGGATTCCTATACCTAACACTGCCTGCATTGCCTTTGGCTGGGGTTggtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from CESAR GTGGTGAATCAGATGTTGGAACGC-ACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTg ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTCACAAGCAGTGGGGGGTTTGGAGGCAAT-GGGGATTCCTATACCTAACACTGCCTGCATTGCCTTTGGCTGGGGTTggtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Spaln_aa2Genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTCACAAGCAGTGGGGGGTTTGGAGGCAATGGGGATTCCTATACCTAACACTGCCTGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Spaln_nt2Genome GTGGTGAATCAGATGTTGGAACG-CACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTCACAAGCAGTGGGGGGTTTGGAGGCAATG-GGGATTCCTATACCTAACACTGCCTGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Pairagon GTGGTGAATCAGATGTTGGAACG-CACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTCACAAGCAGTGGGGGGTTTGGAGGCAATGG-GGATTCCTATACCTAACACTGCCTGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Exonerate_protein2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTCACAAGCAGTGGGGGGTTTGGAGGCAATGGGGATTCCTATACCTAACACTGCCTGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from Exonerate_coding2genome GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTCACAAGCAGTGGGGGGTTTGGAGGCAATGGGGATTCCTATACCTAACACTGCCTGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata Alignment from GeneWise GTGGTGAATCAGATGTTGGAACGCACCAGCAGCGGTGGCTTTGGAGGCAACGATGGCTTCCTCTACCTGACCCTACCAGCTCTGCCTTTGGGGGGAGTTG ggcaggcctggtcctgtgtatgcctgtagcctctcccttgcaccctgcagGTGGTGAATCAGATGTTGGAGCGTCACAAGCAGTGGGGGGTTTGGAGGCAATGGGGATTCCTATACCTAACACTGCCTGCATTGCCTTTGGCTGGGGTTGgtaagatcttacatgctattgccattggagagttatgttccctcggtata #### Ankrd13d_ID465_8 --> 0 - 1 Original Alignment GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACTCGCACGAGAACAGAACATCTCTCTG-TCAGGACAAGTTAAGGAACAAAggtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from CESAR GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAg ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACTCGCACGAGAACAGAACATCTCTCT-GTCAGGACAAGTTAAGGAACAAAggtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Spaln_aa2Genome GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGcCTGGTGACTCGCACGAGAACAGAACATCTCTCTGT-CAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Spaln_nt2Genome GTGTACAGTGCCACCAATGTGGAGC-TGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACTCGCACGAGAACAGAACATCTCTCTG-TCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Pairagon GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACTCGCACGAGAACAGAACATCTCTCTG-TCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Exonerate_protein2genome GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACTCGCACGAGAACAGAACATCTCTCTGTCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from Exonerate_coding2genome GTGTACAGTGCCACCAATGTGGAG-CTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACTCGCACGAGAACAGAACATCTCTCT-GTCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag Alignment from GeneWise GTGTACAGTGCCACCAATGTGGAGCTGGTGACACGCACAAGAACAGAACACCTCTCTGACCAGGACAAGTTAAGGAACAAAG ctaacatcccctgctgtccactcaagtcgtcacagtgactgtcatttcagGTATACAGTGCTACGAATGTTGAGCCTGGTGACTCGCACGAGAACAGAACATCTCTCTGTCAGGACAAGTTAAGGAACAAAGgtgcgcactgctgctgcagtgttctgggtgcacccatcctggacttacag #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment CACGACATTGAG-CAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg cttggatgggtactccatataagaccatccctcttcccctcctgatacagCATGACATTGAGCCAGGAGGACCCACAGGGGCAGACCCCTTTAGAACTAG-TGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCTCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtgagttattgctctattatacgtgaagggcacctagaggtttaatacta Alignment from CESAR CACGACATTGAG-CAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg cttggatgggtactccatataagaccatccctcttcccctcctgatacagCATGACATTGAGCCAGGAGGACCCACAGGGGCAGACCCCTTTAGAACTAG-TGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCTCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTggtgagttattgctctattatacgtgaagggcacctagaggtttaatacta Alignment from Spaln_aa2Genome CACGACATTGAG-CAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttggatgggtactccatataagaccatccctcttcccctcctgatacagCATGACATTGAGcCAGGAGGACCCACAGGGGCAGACCCCTTTAGAACTAGT-GTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCTCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgagttattgctctattatacgtgaagggcacctagaggtttaatacta Alignment from Spaln_nt2Genome CACGACATTGAGC-AGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttggatgggtactccatataagaccatccctcttcccctcctgatacagCATGACATTGAGCCAGGAGGACCCACAGGGGCAGACCCCTTTAGAACTAG-TGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCTCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgagttattgctctattatacgtgaagggcacctagaggtttaatacta Alignment from Pairagon CACGACATTGAGC-AGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttggatgggtactccatataagaccatccctcttcccctcctgatacagCATGACATTGAGCCAGGAGGACCCACAGGGGCAGACCCCTTTAGAACTAG-TGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCTCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgagttattgctctattatacgtgaagggcacctagaggtttaatacta Alignment from Exonerate_protein2genome CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG cttggatgggtactccatataagaccatccctcttcccctcctgatacagCATGACATTGAGCCAGGAGGACCCACAGGGGCAGACCCCTTTAGAACTAGTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCTCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgagttattgctctattatacgtgaagggcacctagaggtttaatacta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCA- cttggatgggtactccatataagaccatccctcttcccctcctgatacagCATGACATTGAGCCAGGAGGACCCACAGGGGCAGACCCCTTTAGAACTAGTGTGACTTTGGGGAATTTAGAGTCTGTACGAGTCCTCCTTAAACATAATGCCAATTTAGGCAAGGAAAGCCACCAGGGCTGGGCTGgtgagttattgctctattatacgtgaagggcacctagaggtttaatacta #### Ankrd1_ID7101_4 --> 0 - 0 Original Alignment ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAG-AACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCT-CGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from CESAR ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAG-AACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCT-CGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Spaln_aa2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Spaln_nt2Genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAG-AACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTC-GAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Pairagon ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGA-GAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTC-GAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Exonerate_protein2genome ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTGAACCTGTGGATGTGCCGAGGTTTCTGAAAGCTGCGCTGGAGAACAAACTGCCAGTTGTAGAGAAATTCCTGTCAGACAAGAACAGCCCCGACGTCTGCGATGAG gggatggaagcataagaagccaattagtaagatgccttccttgcctctagAGTGAGCCTGTTGATGTACCTAGGTTTCTAAAAGCTGCACTGGATCAACAAACTTCCAGTTGTAGAAAAGTTCCTCTCGAGAAGAACAGTCCTGATGTCTGTGATGAAgtgagtagtagtagtgtgccctgccactttctggcctgtcatttgcctga #### Asah2_ID6669_5 --> 0 - 2 Original Alignment AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGA-AATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAag aaaacctcttagcatgctgaatgcatgcaatttgtttcattttatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAACAATGTAGCCAATCTGCAGATCAATCGAAGC---GCATCTTACCTGCTAAATCCACAAGCAAAGAGAGCAaggtatggcattccttatagtattagaggtatatacctcaggttacaaaaca Alignment from CESAR AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGA-AATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAag aaaacctcttagcatgctgaatgcatgcaatttgtttcattttatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAACAATGTAGCCAATCTGCAGATCAATCGAAGC---GCATCTTACCTGCTAAATCCACAAGCAAAGAGAGCAaggtatggcattccttatagtattagaggtatatacctcaggttacaaaaca Alignment from Spaln_aa2Genome AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAA-GGAAATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG aaaacctcttagcatgctgaatgcatgcaatttgtttcattttatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGgAACAATGTAGCCAATCTGCAGATCAATCGAAGCGCA---TCTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtatggcattccttatagtattagaggtatatacctcaggttacaaaaca Alignment from Spaln_nt2Genome AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGA-AATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG aaaacctcttagcatgctgaatgcatgcaatttgtttcattttatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAACAATGTAGCCAATCTGCAGATCAATCGAAGCGCA---TCTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtatggcattccttatagtattagaggtatatacctcaggttacaaaaca Alignment from Pairagon AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAAGGA-AATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG aaaacctcttagcatgctgaatgcatgcaatttgtttcattttatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAACAATGTAGCCAATCTGCAGATCAATCGAAGCG---CATCTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtatggcattccttatagtattagaggtatatacctcaggttacaaaaca Alignment from Exonerate_protein2genome AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAA-GGAAATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG aaaacctcttagcatgctgaatgcatgcaatttgtttcattttatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAACAATGTAGCCAATCTGCAGATCAATCGAAGC---GCATCTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtatggcattccttatagtattagaggtatatacctcaggttacaaaaca Alignment from Exonerate_coding2genome AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAA-GGAAATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG aaaacctcttagcatgctgaatgcatgcaatttgtttcattttatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAACAATGTAGCCAATCTGCAGATCAATCGAAGC---GCATCTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtatggcattccttatagtattagaggtatatacctcaggttacaaaaca Alignment from GeneWise AGCATTGATATAGCTCACACAAATCTTAAACCAGGCAAAATCTTTATCAACAAA-GGAAATGTTGCTAATGTGCAGATCAACCGAAGCCCCTCCTCTTACCTTCTGAATCCACAGTCAGAGAGAGCAAG aaaacctcttagcatgctgaatgcatgcaatttgtttcattttatttcagAGCATTGATGTTGCCCACACAAATCTCCAACCTGGCAAAATCTTTATCAATAAGGAACAATGTAGCCAATCTGCAGATCAATCGAAGC---GCATCTTACCTGCTAAATCCACAAGCAAAGAGAGCAAGgtatggcattccttatagtattagaggtatatacctcaggttacaaaaca #### B3gat3_ID2492_4 --> 0 - 0 Original Alignment ATGCGTTGGACTCGCGGTGTCTCAGTGTGG-CCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCCTGTTGGCTTGGTGGGTGGCCTACGAT-TGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from CESAR ATGCGTTGGACTCGCGGTGTCTCAGTGTGG-CCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCCTGTTGGCTTGGTGGGTGGCCTACGA-TTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from Spaln_aa2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCCTGTTGGCTTGGTGGGTGGCCTACGATTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from Spaln_nt2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGG-CCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCCTGTTGGCTTGGTGGGTGGCCTACGA-TTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from Pairagon ATGCGTTGGACTCGCGGTGTCTCAGTGTGG-CCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAGGTACTGGTATGGCACACCCGGACAGAGAAACCTAAGATGAAGCAGGAGGA agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCCTGTTGGCTTGGTGGGTGGCCTACGA-TTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGGT------------------------------------------------ Alignment from Exonerate_protein2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCCTGTTGGCTTGGTGGGTGGCCTACGATTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from Exonerate_coding2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAGGTA agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCCTGTTGGCTTGGTGGGTGGCCTACGATTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGGTTggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa Alignment from GeneWise ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG agtcagtcttttcagactaacctcccctatgctaagaaactcacctacagATGCGCTGGACACGTGGTGTCTCTGTGTGGCCCTGTTGGCTTGGTGGGTGGCCTACGATTGAAAGTCCCCAAGTACAGGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGATATGGCAGGATTTGCGATCGCCCTGCCCTTACTATTAGCTAAACCCAATGCCCAATTTGATGCTACTGCACCCCGGGGACACCTGGAAAGTAGCCTCCTAAGCCACCTTGTAGATCCAACAGATTTGGAATCGCGGGCTGCCAATTGTACTCAGgttggcggtcagttagcaggtcaggaacatggaggatggtgggctaagaa #### Bbs1_ID721_13 --> 2 - 1 Original Alignment gtGGCGGCCTGATCATCAAG-ATCCTGAAGCGCACAGCAGTGTTTGTGGAAGGGACGGGTGAGGTGGGCCCACCGCTAGCACAGACCACAAAACTCAGTGTGCCCCGAAAGACCCGGCTGTATGTGGATCAGACCCTGCGGGAGCGGGAAGCTGGCACAg aagaatcatgaacagggatccagaagtatctctctctctctctctccaaggcAGTGGCCTGATCACCAAGCCTCCTGAAGCGAACAGCTGTGTTCACAGAAG-TACAGGTGAAGTGGGCCCACTGCTAGCACAGACTACAAAGCTCAGTGTTCCTCGAAAAGGCCGGCTATATGTGGATCAAGCATTATGGGAGAGGGGTGCTGGAACCcgtgagtaataagcacggtttaaaatataggttactctcaaggcaggacag Alignment from CESAR gtGGCGGCCTGATCATCAAG-ATCCTGAAGCGCACAGCAGTGTTTGTGGAAGGGACGGGTGAGGTGGGCCCACCGCTAGCACAGACCACAAAACTCAGTGTGCCCCGAAAGACCCGGCTGTATGTGGATCAGACCCTGCGGGAGCGGGAAGCTGGCACAg aagaatcatgaacagggatccagaagtatctctctctctctctctccaaggcAGTGGCCTGATCACCAAGCCTCCTGAAGCGAACAGCTGTGTTCACAGAA-GTACAGGTGAAGTGGGCCCACTGCTAGCACAGACTACAAAGCTCAGTGTTCCTCGAAAAGGCCGGCTATATGTGGATCAAGCATTATGGGAGAGGGGTGCTGGAACCcgtgagtaataagcacggtttaaaatataggttactctcaaggcaggacag Alignment from Spaln_aa2Genome GTGGCGGCCTGATCATCAAG-ATCCTGAAGCGCACAGCAGTGTTTGTGGAAGGGACGGGTGAGGTGGGCCCACCGCTAGCACAGACCACAAAACTCAGTGTGCCCCGAAAGACCCGGCTGTATGTGGATCAGACCCTGCGGGAGCGGGAAGCTGGCACAG aagaatcatgaacagggatccagaagtatctctctctctctctctccaagGCAGTGGCCTGATCACCAAGcCTCCTGAAGCGAACAGCTGTGTTCACAGAAGT-ACAGGTGAAGTGGGCCCACTGCTAGCACAGACTACAAAGCTCAGTGTTCCTCGAAAAGGCCGGCTATATGTGGATCAAGCATTATGGGAGAGGGGTGCTGGAACCCgtgagtaataagcacggtttaaaatataggttactctcaaggcaggacag Alignment from Spaln_nt2Genome GTGGCGGCCTGATCATCAAGA-TCCTGAAGCGCACAGCAGTGTTTGTGGAAGGGACGGGTGAGGTGGGCCCACCGCTAGCACAGACCACAAAACTCAGTGTGCCCCGAAAGACCCGGCTGTATGTGGATCAGACCCTGCGGGAGCGGGAAGCTGGCACAG aagaatcatgaacagggatccagaagtatctctctctctctctctccaagGCAGTGGCCTGATCACCAAGCCTCCTGAAGCGAACAGCTGTGTTCACAGAA-GTACAGGTGAAGTGGGCCCACTGCTAGCACAGACTACAAAGCTCAGTGTTCCTCGAAAAGGCCGGCTATATGTGGATCAAGCATTATGGGAGAGGGGTGCTGGAACCCgtgagtaataagcacggtttaaaatataggttactctcaaggcaggacag Alignment from Pairagon GTGGCGGCCTGATCATCAAG-ATCCTGAAGCGCACAGCAGTGTTTGTGGAAGGGACGGGTGAGGTGGGCCCACCGCTAGCACAGACCACAAAACTCAGTGTGCCCCGAAAGACCCGGCTGTATGTGGATCAGACCCTGCGGGAGCGGGAAGCTGGCACAG aagaatcatgaacagggatccagaagtatctctctctctctctctccaagGCAGTGGCCTGATCACCAAGCCTCCTGAAGCGAACAGCTGTGTTCACAGAA-GTACAGGTGAAGTGGGCCCACTGCTAGCACAGACTACAAAGCTCAGTGTTCCTCGAAAAGGCCGGCTATATGTGGATCAAGCATTATGGGAGAGGGGTGCTGGAACCCgtgagtaataagcacggtttaaaatataggttactctcaaggcaggacag Alignment from Exonerate_protein2genome GTGGCGGCCTGATCATCAAGATCCTGAAGCGCACAGCAGTGTTTGTGGAAGGGACGGGTGAGGTGGGCCCACCGCTAGCACAGACCACAAAACTCAGTGTGCCCCGAAAGACCCGGCTGTATGTGGATCAGACCCTGCGGGAGCGGGAAGCTGGCACAG aagaatcatgaacagggatccagaagtatctctctctctctctctccaagGCAGTGGCCTGATCACCAAGCCTCCTGAAGCGAACAGCTGTGTTCACAGAAGTACAGGTGAAGTGGGCCCACTGCTAGCACAGACTACAAAGCTCAGTGTTCCTCGAAAAGGCCGGCTATATGTGGATCAAGCATTATGGGAGAGGGGTGCTGGAACCCgtgagtaataagcacggtttaaaatataggttactctcaaggcaggacag Alignment from Exonerate_coding2genome GTGGCGGCCTGATCATCAAGATCCTGAAGCGCACAGCAGTGTTTGTGGAAGGGACGGGTGAGGTGGGCCCACCGCTAGCACAGACCACAAAACTCAGTGTGCCCCGAAAGACCCGGCTGTATGTGGATCAGACCCTGCGGGAGCGGGAAGCTGGCACAG aagaatcatgaacagggatccagaagtatctctctctctctctctccaagGCAGTGGCCTGATCACCAAGCCTCCTGAAGCGAACAGCTGTGTTCACAGAAGTACAGGTGAAGTGGGCCCACTGCTAGCACAGACTACAAAGCTCAGTGTTCCTCGAAAAGGCCGGCTATATGTGGATCAAGCATTATGGGAGAGGGGTGCTGGAACCCgtgagtaataagcacggtttaaaatataggttactctcaaggcaggacag Alignment from GeneWise GTGGCGGCCTGATCATCAAGATCCTGAAGCGCACAGCAGTGTTTGTGGAAGGGACGGGTGAGGTGGGCCCACCGCTAGCACAGACCACAAAACTCAGTGTGCCCCGAAAGACCCGGCTGTATGTGGATCAGACCCTGCGGGAGCGGGAAGCTGGCACAG aagaatcatgaacagggatccagaagtatctctctctctctctctccaagGCAGTGGCCTGATCACCAAGCCTCCTGAAGCGAACAGCTGTGTTCACAGAAGTACAGGTGAAGTGGGCCCACTGCTAGCACAGACTACAAAGCTCAGTGTTCCTCGAAAAGGCCGGCTATATGTGGATCAAGCATTATGGGAGAGGGGTGCTGGAACCCgtgagtaataagcacggtttaaaatataggttactctcaaggcaggacag #### Best1_ID2631_8 --> 0 - 2 Original Alignment GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAAC-GAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCag cctctgcctttgatcaaatcatttaaccatttatgtcctttatctcatagGTGGCATTGTCATTTGTTGACCGAATGTACCAGAACCTGCCACCCATGGAGCGTGAAATGTACTGGAATCGAATCA---GCTCATCCT------ACAGCTGCCT-AGCCAAATCCCGATGGCGCTCATTCATGGGAACAACCTTTAACCCCaggtaaggtatcccgcaatgcatccaggagaacatttcatatgctcaaactg Alignment from CESAR GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAAC-GAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCag cctctgcctttgatcaaatcatttaaccatttatgtcctttatctcatagGTGGCATTGTCATTTGTTGACCGAATGTACCAGAACCTGCCACCCATGGAGCGTGAAATGTACTGGAATCGAATCAGCT---CATCCT------ACAGCTGCC-TAGCCAAATCCCGATGGCGCTCATTCATGGGAACAACCTTTAACCCCaggtaaggtatcccgcaatgcatccaggagaacatttcatatgctcaaactg Alignment from Spaln_aa2Genome GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG cctctgcctttgatcaaatcatttaaccatttatgtcctttatctcatagGTGGCATTGTCATTTGTTGACCGAATGTACCAGAACCTGCCACCCATGGAGCGTGAAATGTACTGGAATCGAATCAGC------TCATCCTACAGC---TGCCTAGCCAAATCCCGATGGCGCTCATTCATGGGAACAACCTTTAACCCCAGgtaaggtatcccgcaatgcatccaggagaacatttcatatgctcaaactg Alignment from Spaln_nt2Genome GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAA-CGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG cctctgcctttgatcaaatcatttaaccatttatgtcctttatctcatagGTGGCATTGTCATTTGTTGACCGAATGTACCAGAACCTGCCACCCATGGAGCGTGAAATGTACTGGAATCGAATCAG---CTCATCC------TACAGCTGCCT-AGCCAAATCCCGATGGCGCTCATTCATGGGAACAACCTTTAACCCCAGgtaaggtatcccgcaatgcatccaggagaacatttcatatgctcaaactg Alignment from Pairagon GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAA-------------------------------------CGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG cctctgcctttgatcaaatcatttaaccatttatgtcctttatctcatagGTGGCATTGTCATTTGTTGACCGAATGTACCAGAACCTGCCACCCATGGAGCGTGAAATGTACTGGAATCGAATCAGCTCATCCTACAGCTGCCTAGCCAAATCCCGA----------------------------------------------TGGCGCTCATTCATGGGAACAACCTTTAACCCCAGgtaaggtatcccgcaatgcatccaggagaacatttcatatgctcaaactg Alignment from Exonerate_protein2genome GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG cctctgcctttgatcaaatcatttaaccatttatgtcctttatctcatagGTGGCATTGTCATTTGTTGACCGAATGTACCAGAACCTGCCACCCATGGAGCGTGAAATGTACTGGAATCGAATCAGCTCATCC---------TACAGCTGCCTAGCCAAATCCCGATGGCGCTCATTCATGGGAACAACCTTTAACCCCAGgtaaggtatcccgcaatgcatccaggagaacatttcatatgctcaaactg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTCCCTGTTGTCCGTGGATGGGATGCACCAGAACTTGCCTCCCATGGAACGTGACATGTACTGGAACGAGGCAGCGCCTCAGCCGCCCTACACAGCTGCTTCTGCCAGGTCTCGCCGGCATTCCTTCATGGGCTCCACCTTCAACATCAG cctctgcctttgatcaaatcatttaaccatttatgtcctttatctcatagGTGGCATTGTCATTTGTTGACCGAATGTACCAGAACCTGCCACCCATGGAGCGTGAAATGTACTGGAATCGAATCAGCTCATCC------TACAGCTGCCTA---GCCAAATCCCGATGGCGCTCATTCATGGGAACAACCTTTAACCCCAGgtaaggtatcccgcaatgcatccaggagaacatttcatatgctcaaactg #### Bscl2_ID2422_5 --> 0 - 0 Original Alignment GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTG-TTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG cagtgatcacgacacccttctgcacctaaagttgatttctctgtttttagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGCTACTTCTCCAGCCTCTTGCTCTTCGGCTTTGCAAATC-AAAGCAGCTATTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgcaagtgggcaagttgtaatatatttctcaatgggccagaattgcattgt Alignment from CESAR GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTG-TTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG cagtgatcacgacacccttctgcacctaaagttgatttctctgtttttagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGCTACTTCTCCAGCCTCTTGCTCTTCGGCTTTGCAAATC-AAAGCAGCTATTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgcaagtgggcaagttgtaatatatttctcaatgggccagaattgcatatc Alignment from Spaln_aa2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG cagtgatcacgacacccttctgcacctaaagttgatttctctgtttttagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGCTACTTCTCCAGCCTCTTGCTCTTCGGCTTTGCAAATCAAAGCAGCTATTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgcaagtgggcaagttgtaatatatttctcaatgggccagaattgcattgt Alignment from Spaln_nt2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTG-TTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAGAATTCG cagtgatcacgacacccttctgcacctaaagttgatttctctgtttttagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGCTACTTCTCCAGCCTCTTGCTCTTCGGCTTTGCAAATCA-AAGCAGCTATTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgcaagtgggcaagttgtaatatatttctcaatgggccagaattgcattgt Alignment from Pairagon GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTG-TTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAGAATTCG cagtgatcacgacacccttctgcacctaaagttgatttctctgtttttagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGCTACTTCTCCAGCCTCTTGCTCTTCGGCTTTGCAAATCA-AAGCAGCTATTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTAT---GACAACTCAgcaagtgggcaagttgtaatatatttctcaatgggccagaattgcattgt Alignment from Exonerate_protein2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTG-TTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCC TGGAAGTAGAACTCTACTC cagtgatcacgacacccttctgcacctaaagttgatttctctgtttttagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGCTACTTCTCCAGCCTCTTGCTCTTCGGCTTTGCAAATCAAAGCAGCTATTggaaggcatgagaccaccattagaaatctatagtgactatgacaactcagcaagtgggcaagttgtaatatatttctcaaTGGGCCAGAATTGCATTGT Alignment from Exonerate_coding2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTG-TTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCC TGGAAGTAGAACTCTACTC cagtgatcacgacacccttctgcacctaaagttgatttctctgtttttagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGCTACTTCTCCAGCCTCTTGCTCTTCGGCTTTGCAAATCAAAGCAGCTATTggaaggcatgagaccaccattagaaatctatagtgactatgacaactcagcaagtgggcaagttgtaatatatttctcaaTGGGCCAGAATTGCATTGT Alignment from GeneWise GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG----------------------------------------------- cagtgatcacgacacccttctgcacctaaagttgatttctctgtttttagGTAATGCTGCAATATTGCTTACAATTGCTTCAAGTTCTTGACAAAGTGCTACTTCTCCAGCCTCTTGCTCTTCGGCTTTGCAAATCAAAGCAGCTATTGGAAGGCATGAGACCACCATTAGAAATCTATAGTGACTATGACAACTCAGCAAGTGGGCAAGTTGTAATATATTTCTCAATGGGCCAGAATTGCATTGT #### Bscl2_ID2424_7 --> 1 - 0 Original Alignment gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTG-CTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctagcagccatatatttaattccttaattgaatttgcaggTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTACCTTTTCAGTTATATGCAGTGGGCATGGGGTG-TGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgagccattttctcccaccagacaaacgaacctatactg Alignment from CESAR gTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTG-CTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctagcagccatatatttaattccttaattgaatttgcaggTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTACCTTTTCAGTTATATGCAGTGGGCATGGGGTG-TGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgagccattttctcccaccagacaaacgaacctatactg Alignment from Spaln_aa2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctagcagccatatatttaattccttaattgaatttgcagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTACCTTTTCAGTTATATGCAGTGGGCATGGGGTGTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgagccattttctcccaccagacaaacgaacctatactg Alignment from Spaln_nt2Genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGC-TCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctagcagccatatatttaattccttaattgaatttgcagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTACCTTTTCAGTTATATGCAGTGGGCATGGGGTG-TGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgagccattttctcccaccagacaaacgaacctatactg Alignment from Pairagon GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTG-CTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctagcagccatatatttaattccttaattgaatttgcagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTACCTTTTCAGTTATATGCAGTGGGCATGGGGTG-TGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgagccattttctcccaccagacaaacgaacctatactg Alignment from Exonerate_protein2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctagcagccatatatttaattccttaattgaatttgcagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTACCTTTTCAGTTATATGCAGTGGGCATGGGGTGTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgagccattttctcccaccagacaaacgaacctatactg Alignment from Exonerate_coding2genome GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAG ccaacttaactctagcagccatatatttaattccttaattgaatttgcagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTACCTTTTCAGTTATATGCAGTGGGCATGGGGTGTGTCTGGCCTCATCACCACTCCTCCTTGCAGgtaagtgttcttgagccattttctcccaccagacaaacgaacctatactg Alignment from GeneWise GTACCTGCTGTACAACTTCCCCATGACCTGCGCCTTCGTGGGTGTGGCCAGCAACTTCACGTTCCTCAGCGTCATCGTGCTCTTCAGCTATATGCAGTGGGTGTGGGGTGCTGTCTGGCCCCGCCACCGCTTCTCTCTGCAGGTT- ccaacttaactctagcagccatatatttaattccttaattgaatttgcagGTACCTGCTTTACAATTTTCCTATGACTTGTGCCTTTGTGGGTGTAGCAAGCAACTTCACATTTCTCAGTGTCATTGTACCTTTTCAGTTATATGCAGTGGGCATGGGGTGTGTCTGGCCTCATCACCACTCCTCCTTGCAGGTAAgtgttcttgagccattttctcccaccagacaaacgaacctatactg #### Bscl2_ID2425_8 --> 0 - 1 Original Alignment GTTAATATCCGA-CAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAg ccagtagaggatcacaactcattggttgcatgttctctgcctccctgcagGTTAATACATGTCCAAAGGGACAACTCACAG------------G-CCATATTTCACACCACCAACCAggtaccagaattaggcattaggaacttggaaatagaccagggattcctcca Alignment from CESAR GTTAATATCCGA-CAAAGGGATAACTCACAC--CACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAg ccagtagaggatcacaactcattggttgcatgttctctgcctccctgcagGTTAATACATGTCCAAAGGGACAACTCACAGGCCAT---------------ATTTCACACCACCAACCAggtaccagaattaggcattaggaacttggaaatagaccagggattcctcca Alignment from Spaln_aa2Genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG ccagtagaggatcacaactcattggttgcatgttctctgcctccctgcagGTTAATACATGTCCAAAGGGACAACTC------------ACAGGCCATATTTCACACCACCAACCAGgtaccagaattaggcattaggaacttggaaatagaccagggattcctcca Alignment from Spaln_nt2Genome GTTAATATCCGAC-AAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG ccagtagaggatcacaactcattggttgcatgttctctgcctccctgcagGTTAATACATGTCCAAAGGGACAACTCACA------GGC-------CATATTTCACACCACCAACCAGgtaccagaattaggcattaggaacttggaaatagaccagggattcctcca Alignment from Pairagon GTTAATA----TCCGACAAAGGGATAAC--------------TCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG ccagtagaggatcacaactcattggttgcatgttctctgcctccctgcagGTTAATACATGTC---CAAAGGGACAACTCACAGGCCATATTTCACACCAC---------------------------CAACCAGgtaccagaattaggcattaggaacttggaaatagaccagggattcctcca Alignment from Exonerate_protein2genome ccagtagaggatcacaactcattggttgcatgttctctgcctccctgcaggttaatacatgtccaaagggacaactcacaggccatatttcacaccaccaaccaggtaccagaattaggcattaggaacttggaaatagaccagggattcctcca Alignment from Exonerate_coding2genome ccagtagaggatcacaactcattggttgcatgttctctgcctccctgcaggttaatacatgtccaaagggacaactcacaggccatatttcacaccaccaaccaggtaccagaattaggcattaggaacttggaaatagaccagggattcctcca Alignment from GeneWise GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG ccagtagaggatcacaactcattggttgcatgttctctgcctccctgcagGTTAATACATGTCCAAAGGGACAA------------CTCACAGGCCATATTTCACACCACCAACCAGgtaccagaattaggcattaggaacttggaaatagaccagggattcctcca #### Bscl2_ID2427_10 --> 2 - 1 Original Alignment agGGCCAGCTGTCTGAGGAA-GAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg acataattttctaatactcccatgcccattaatgaacctcttcccctcagagGGTGAA---CCAGAAGAGCATGAAAGCAAAGAAATGGCCGCTGAACAAGG-GGATGAGCGGGAACCAGATGCTGGTGCTggtaggaactgcttggggggttgcgcttaacatagcaggaactatagccgg Alignment from CESAR agGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATg acataattttctaatactcccatgcccattaatgaacctcttcccctcagagGGTGAACCAGAAGAGCATG--AAAGCAAAGAAATGGCCGCTGAAC-AAGGGGATGAGCGGGAACCAGATGCTGGTGCTggtaggaactgcttggggggttgcgcttaacatagcaggaactatagccgg Alignment from Spaln_aa2Genome AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG acataattttctaatactcccatgcccattaatgaacctcttcccctcagAGGGTGAA---CCAGAAGAGCATGAAAGCAAAGAAATGGCCGCTGAACAAGGGGATGAGCGGGAACCAGATGCTGGTGCTGgtaggaactgcttggggggttgcgcttaacatagcaggaactatagccgg Alignment from Spaln_nt2Genome AGGGCCAGCTGTCTGAGGAAGA-GAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG acataattttctaatactcccatgcccattaatgaacctcttcccctcagAGGGTGAAC---CAGAAGAGCATGAAAGCAAAGAAATGGCCGCTGAA-CAAGGGGATGAGCGGGAACCAGATGCTGGTGCTGgtaggaactgcttggggggttgcgcttaacatagcaggaactatagccgg Alignment from Pairagon AGGG----CCAGCTGTCTGAGGAAGA----GAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG acataattttctaatactcccatgcccattaatgaacctcttcccctcagAGGGTGAACCA----------GAAGAGCATGAAAGCAAAGAAATGGCCGCTGAAC-AAGGGGATGAGCGGGAACCAGATGCTGGTGCTGgtaggaactgcttggggggttgcgcttaacatagcaggaactatagccgg Alignment from Exonerate_protein2genome acataattttctaatactcccatgcccattaatgaacctcttcccctcagagggtgaaccagaagagcatgaaagcaaagaaatggccgctgaacaaggggatgagcgggaaccagatgctggtgctggtaggaactgcttggggggttgcgcttaacatagcaggaactatagccgg Alignment from Exonerate_coding2genome acataattttctaatactcccatgcccattaatgaacctcttcccctcagagggtgaaccagaagagcatgaaagcaaagaaatggccgctgaacaaggggatgagcgggaaccagatgctggtgctggtaggaactgcttggggggttgcgcttaacatagcaggaactatagccgg Alignment from GeneWise AGGGCCAGCTGTCTGAGGAAGAGAAACCAGAGAAGCGGCCCCTGAATGGAGAGGAGGAGCAAGAGCCAGAGGCTAGTGATG acataattttctaatactcccatgcccattaatgaacctcttcccctcagAGGGTGAACCAGAAGAGCATGAAAGCAAAGAAATGGCCGCTGAACAAGGGGATGAG---CGGGAACCAGATGCTGGTGCTGgtaggaactgcttggggggttgcgcttaacatagcaggaactatagccgg #### Btaf1_ID7249_28 --> 1 - 2 Original Alignment GAGATCACTGTCAGag gGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCT-TCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAag GAGATCACTGTCAGaggtgactgccttggcttcacgctcttcattcacaggGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTCTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCACT-GGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAaggtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from CESAR GAGATCACTGTCAGag gGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCT-TCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAag GAGATCACTGTCAGaggtaatcgccttggcttcacgctcttcattcacaggGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTCTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCACT-GGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAaggtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Spaln_aa2Genome GAGATCACTGTCAGA GGGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCT-TCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAA GAGATCACTGTCAGAGgtgactgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTcTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCACTG-GTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Spaln_nt2Genome GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCT-TCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgactgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTCTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCACT-GGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Pairagon GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCT-TCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgactgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTCTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCACT-GGTAGACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Exonerate_protein2genome GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCT-TCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGG--GTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgactgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTCTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCACTGGTA---GACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from Exonerate_coding2genome GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCT-TCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGG--GTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgactgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTCTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCACTGGTA---GACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg Alignment from GeneWise GAGATCACTGTCAGAG GGCCCAGGAATATGCAAGATCGAAATTGGCAGAATGTATGCCACTTCCT-TCCTTGGTGGTTTGTCCACCAACATTAACAGGTCATTGGGTAGATGAAGTAGGTAAATTTTGTTCCAGAGAATATCTCAATCCGTTGCATTATACTGGCCCTCCCACTGAAAGGATAAG GAGATCACTGTCAGAGgtgactgccttggcttcacgctcttcattcacagGGCCCAGGAATATGCAAGATCAAGATTAGTAGAGTGTATGTCACTCCCTCTCCCTAGTGGTTTGTCCTCCATCATTGACAGGTCACTGGTA-GACGAAGTAGGGAAATTTTGTTCTAGAGAATATCTGAATCCACTTCATTATACCGGCCCTTCTACTGAAAGGATAAGgtgagtgggtggattatctaacaatccgtagctaaagacaaggtcctttg #### Btaf1_ID7253_32 --> 2 - 0 Original Alignment gtGTCCTGGCAATGGACGCTCTG-CACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggtttcttgagtcctgggtttccttttgtctcctgtcaggtGTATTGGCAATGGATGCCCTACCAGCACCAGGTCCTGACACTACTTTTGAGAAGAATGA-AGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCGCTTCAAgtaagtattgccttcataactagtgtggtactatttgtatggataactga Alignment from CESAR gtGTCCTGGCAATGGACGCTCTG-CACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggtttcttgagtcctgggtttccttttgtctcctgtcaggtGTATTGGCAATGGATGCCCTACCAGCACCAGGTCCTGACACTACTTTTGAGAAGAATGA-AGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCGCTTCAAgtaagtattgccttcataactagtgtggtactatttgtatggataactga Alignment from Spaln_aa2Genome GGTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCA gataatataatggtttcttgagtcctgggtttccttttgtctcctgtcagGTGTATTGGCAATGGATGCCCTACCAGCACCAGGTCCTGACACTACTTTTGAGAAGAATGAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCGCTTCAAgtaagtattgccttcataactagtgtggtactatttgtatggataactga Alignment from Spaln_nt2Genome GTGTCCTGGCAATGGACGCTCTGC-ACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggtttcttgagtcctgggtttccttttgtctcctgtcagGTGTATTGGCAATGGATGCCCTACCAGCACCAGGTCCTGACACTACTTTTGAGAAGAATG-AAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCGCTTCAAgtaagtattgccttcataactagtgtggtactatttgtatggataactga Alignment from Pairagon GTGTCCTGGCAATGGACGCTCTG-CACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggtttcttgagtcctgggtttccttttgtctcctgtcagGTGTATTGGCAATGGATGCCCTACCAGCACCAGGTCCTGACACTACTTTTGAGAAGAATG-AAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCGCTTCAAgtaagtattgccttcataactagtgtggtactatttgtatggataactga Alignment from Exonerate_protein2genome GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggtttcttgagtcctgggtttccttttgtctcctgtcagGTGTATTGGCAATGGATGCCCTACCAGCACCAGGTCCTGACACTACTTTTGAGAAGAATGAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCGCTTCAAgtaagtattgccttcataactagtgtggtactatttgtatggataactga Alignment from Exonerate_coding2genome gataatataatggtttcttgagtcctgggtttccttttgtctcctgtcaggtgtattggcaatggatgccctaccagcaccaggtcctgacactacttttgagaagaatgaagaagctgtattgcatgatcttccacccaaaattatacaagactactattgtactctcagtccgcttcaagtaagtattgccttcataactagtgtggtactatttgtatggataactga Alignment from GeneWise GTGTCCTGGCAATGGACGCTCTGCACCGCCAAGTCCTGCCGTTCCTTCTCAGAAGAATGAAAGAAGATGTTTTGCAGGATCTTCCACCTAAAATTATTCAAGACTATTACTGTACTCTCAGCCCTCTCCAG gataatataatggtttcttgagtcctgggtttccttttgtctcctgtcagGTGTATTGGCAATGGATGCCCTACCAGCACCAGGTCCTGACACTACTTTTGAGAAGAATGAAGAAGCTGTATTGCATGATCTTCCACCCAAAATTATACAAGACTACTATTGTACTCTCAGTCCGCTTCAAgtaagtattgccttcataactagtgtggtactatttgtatggataactga #### C030046E11Rik_ID6307_21 --> 0 - 2 Original Alignment GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCT-GGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag atggagcatgtcttgcactcattgcatgcctccgtccctgctgttcttagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTCGGCAAATTTGGATTACAAAAAACATTAAGTATACCAA-TGGTCCATCTGGGAAGcggtaagggaccaaatttaagcagcaatatcaaatatcaattgtctgggaga Alignment from CESAR GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCT-GGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag atggagcatgtcttgcactcattgcatgcctccgtccctgctgttcttagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTCGGCAAATTTGGATTACAAAAAACATTAAGTATAC-CAATGGTCCATCTGGGAAGcggtaagggaccaaatttaagcagcaatatcaaatatcaattgtctgggaga Alignment from Spaln_aa2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCT-GGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG atggagcatgtcttgcactcattgcatgcctccgtccctgctgttcttagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTcGGCAAATTTGGATTACAAAAAACATTAAGTATACCAAT-GGTCCATCTGGGAAGCGgtaagggaccaaatttaagcagcaatatcaaatatcaattgtctgggaga Alignment from Spaln_nt2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCT-GGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG atggagcatgtcttgcactcattgcatgcctccgtccctgctgttcttagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTCGGCAAATTTGGATTACAAAAAACATTAAGTATACCAA-TGGTCCATCTGGGAAGCGgtaagggaccaaatttaagcagcaatatcaaatatcaattgtctgggaga Alignment from Pairagon GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCT-GGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG atggagcatgtcttgcactcattgcatgcctccgtccctgctgttcttagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTCGGCAAATTTGGATTACAAAAAACATTAAGTATACCAA-TGGTCCATCTGGGAAGCGgtaagggaccaaatttaagcagcaatatcaaatatcaattgtctgggaga Alignment from Exonerate_protein2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG atggagcatgtcttgcactcattgcatgcctccgtccctgctgttcttagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTCGGCAAATTTGGATTACAAAAAACATTAAGTATACCAATGGTCCATCTGGGAAGCGgtaagggaccaaatttaagcagcaatatcaaatatcaattgtctgggaga Alignment from Exonerate_coding2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG atggagcatgtcttgcactcattgcatgcctccgtccctgctgttcttagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTCGGCAAATTTGGATTACAAAAAACATTAAGTATACCAATGGTCCATCTGGGAAGCGgtaagggaccaaatttaagcagcaatatcaaatatcaattgtctgggaga Alignment from GeneWise GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG atggagcatgtcttgcactcattgcatgcctccgtccctgctgttcttagGAGCCAAGCTCCAGTGGTGGTTTTGAGTTTTTCCGGAACCGGAGTATCAGCTTATCCCAGTCAGCTGAGAATGTTCCCCCTCGGCAAATTTGGATTACAAAAAACATTAAGTATACCAATGGTCCATCTGGGAAGCGgtaagggaccaaatttaagcagcaatatcaaatatcaattgtctgggaga #### C030046E11Rik_ID6311_25 --> 1 - 2 Original Alignment cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTT-CTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACtg gaccctcttaatattcctcttagatccttgtcttctctcctcccccgcagcTACTTGATTCACATTTACATG---GCTGGGTGTCTCGATTGGTGTGTTGTCATTGGCCTGATACTTCAAGAGGCACCAGTAGTCCTTCACCTTCCTTGGGCTCAGCCAGGCACCTGGAATGGATG-GGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACtggtgagtagatgatacaccagtctctttaaatcgttagttcccttattttc Alignment from CESAR cTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTT-CTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACtg gaccctcttaatattcctcttagatccttgtcttctctcctcccccgcagcTACTTGATTCACATTTACATG---GCTGGGTGTCTCGATTGGTGTGTTGTCATTGGCCTGATACTTCAAGAGGCACCAGTAGTCCTTCACCTTCCTTGGGCTCAGCCAGGCACCTGGAATGGATG-GGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACtggtgagtagatgatacaccagtctctttaaatcgttagttcccttattttc Alignment from Spaln_aa2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG gaccctcttaatattcctcttagatccttgtcttctctcctcccccgcagCTACTTGATTCACATTTACATG---GCTGGGTGTCTCGATTGGTGTGTTGTCATTGGCCTGATACTTCAAGAGGCACCAGTAGTCCTTCACCTTCCTTGGGCTCAGCCAGGCACCTGGAATGGATGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtagatgatacaccagtctctttaaatcgttagttcccttattttc Alignment from Spaln_nt2Genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTC-TTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTGCAA---GCAGTGGACCGCTGGGCCTCTACAGACTG gaccctcttaatattcctcttagatccttgtcttctctcctcccccgcagCTACTTGATTCACATTTACAT---GGCTGGGTGTCTCGATTGGTGTGTTGTCATTGGCCTGATACTTCAAGAGGCACCAGTAGTCCTTCACCTTCCTTGGGCTCAGCCAGGCACCTGGAATGGATGG-GAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtagatgatacaccagtctctttaaatcgttagttcccttattttc Alignment from Pairagon CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTT-CTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCT---GCAAGCAGTGGACCGCTGGGCCTCTACAGACTG gaccctcttaatattcctcttagatccttgtcttctctcctcccccgcagCTACTTGATTCACATTTACAT---GGCTGGGTGTCTCGATTGGTGTGTTGTCATTGGCCTGATACTTCAAGAGGCACCAGTAGTCCTTCACCTTCCTTGGGCTCAGCCAGGCACCTGGAATGGATGG-GAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtagatgatacaccagtctctttaaatcgttagttcccttattttc Alignment from Exonerate_protein2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG gaccctcttaatattcctcttagatccttgtcttctctcctcccccgcagCTACTTGATTCACATTTACATG---GCTGGGTGTCTCGATTGGTGTGTTGTCATTGGCCTGATACTTCAAGAGGCACCAGTAGTCCTTCACCTTCCTTGGGCTCAGCCAGGCACCTGGAATGGATGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtagatgatacaccagtctctttaaatcgttagttcccttattttc Alignment from Exonerate_coding2genome CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG gaccctcttaatattcctcttagatccttgtcttctctcctcccccgcagCTACTTGATTCACATTTACATG---GCTGGGTGTCTCGATTGGTGTGTTGTCATTGGCCTGATACTTCAAGAGGCACCAGTAGTCCTTCACCTTCCTTGGGCTCAGCCAGGCACCTGGAATGGATGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtagatgatacaccagtctctttaaatcgttagttcccttattttc Alignment from GeneWise CTATTTGCTGCACATTTTCATGGAGGCGGGATGTCTGGACTGGTGTGTTGTCATCGGCCTGATTCTCAGAGAATCCTCAGTGGTCAGTCAGCTTCTTGGGATTGCTCAGTCTTCCGAGATGGATGGAGAGATGTTACAGAACATAAAATCAGGGCTG---CAAGCAGTGGACCGCTGGGCCTCTACAGACTG gaccctcttaatattcctcttagatccttgtcttctctcctcccccgcagCTACTTGATTCACATTTACATG---GCTGGGTGTCTCGATTGGTGTGTTGTCATTGGCCTGATACTTCAAGAGGCACCAGTAGTCCTTCACCTTCCTTGGGCTCAGCCAGGCACCTGGAATGGATGGGAAATGTTGCAAAATATAAAATCAGGACTAGAACAGGCAGTTGATCGCTGGGGCTCAACTGACTGgtgagtagatgatacaccagtctctttaaatcgttagttcccttattttc #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCA-GAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcaggtGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTACGAGACAGTGGGCATGATTGGGGAAAGAGAAC-TAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from CESAR gtGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCA-GAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcaggtGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTACGAGACAGTGGGCATGATTGGGGAAAGAGAAC-TAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Spaln_aa2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTACGAGACAGTGGGCATGATTGGGGAAAGAGAACTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Spaln_nt2Genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCA-GAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTACGAGACAGTGGGCATGATTGGGGAAAGAGAAC-TAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Pairagon GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCA-GAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTACGAGACAGTGGGCATGATTGGGGAAAGAGAAC-TAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Exonerate_protein2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTACGAGACAGTGGGCATGATTGGGGAAAGAGAACTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from Exonerate_coding2genome GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTACGAGACAGTGGGCATGATTGGGGAAAGAGAACTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa Alignment from GeneWise GTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG caacaccctgcactaacctgagaccccatggatattctcatctctttcagGTGGGGGAAAGGTTCACTTTGAAATCTTCATAGAGCTGATGGGTCCCAAGCTACTAGTACGAGACAGTGGGCATGATTGGGGAAAGAGAACTAAAGACACTTTTAGGGAGgtgagttttaggtgctggctggcaagcaattcagcatgtttttggaagaa #### Capn1_ID1359_17 --> 0 - 0 Original Alignment CGAGATGGCAACGGGAAG-CTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG gatgatgaatgctgaagccaaagtatttacaagatgtctttttttaacagCGAGATGGAAATGGGAAGCTTAGGCCTGGTGGTATTCAATATCCTGTGGAACC-CATCCGTAATTATCTGgtgagtaatgagatattcactgccatgttccttgaaagcccagagcccaa Alignment from CESAR CGAGATGGCAACGGGAAGCTG-GGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG gatgatgaatgctgaagccaaagtatttacaagatgtctttttttaacagCGAGATGGAAATGGGAAGCTTAGGCCTGGTGGTATTCAATATCCTGTGGAAC-CCATCCGTAATTATCTGgtgagtaatgagatattcactgccatgttccttgaaagcccagagcccaa Alignment from Spaln_aa2Genome CGAGATGGCAACGGGAAG-CTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG gatgatgaatgctgaagccaaagtatttacaagatgtctttttttaacagCGAGATGGAAATGGGAAGcTTAGGCCTGGTGGTATTCAATATCCTGTGGAACCC-ATCCGTAATTATCTGgtgagtaatgagatattcactgccatgttccttgaaagcccagagcccaa Alignment from Spaln_nt2Genome CGAGATGGCAACGGGAAGCTG-GGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG gatgatgaatgctgaagccaaagtatttacaagatgtctttttttaacagCGAGATGGAAATGGGAAGCTTAGGCCTGGTGGTATTCAATATCCTGTGGAACC-CATCCGTAATTATCTGgtgagtaatgagatattcactgccatgttccttgaaagcccagagcccaa Alignment from Pairagon CGAGATGGCAACGGGAAGC-TGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG gatgatgaatgctgaagccaaagtatttacaagatgtctttttttaacagCGAGATGGAAATGGGAAGCTTAGGCCTGGTGGTATTCAATATCCTGTGGAACC-CATCCGTAATTATCTGgtgagtaatgagatattcactgccatgttccttgaaagcccagagcccaa Alignment from Exonerate_protein2genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG gatgatgaatgctgaagccaaagtatttacaagatgtctttttttaacagCGAGATGGAAATGGGAAGCTTAGGCCTGGTGGTATTCAATATCCTGTGGAACCCATCCGTAATTATCTGgtgagtaatgagatattcactgccatgttccttgaaagcccagagcccaa Alignment from Exonerate_coding2genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG gatgatgaatgctgaagccaaagtatttacaagatgtctttttttaacagCGAGATGGAAATGGGAAGCTTAGGCCTGGTGGTATTCAATATCCTGTGGAACCCATCCGTAATTATCTGgtgagtaatgagatattcactgccatgttccttgaaagcccagagcccaa Alignment from GeneWise CGAGATGGCAACGGGAAGCTG------GGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG gatgatgaatgctgaagccaaagtatttacaagatgtctttttttaacagCGAGATGGAAATGGGAAGCTTAGGCCTGGTGGTATTCAATATCCTGTG------GAACCCATCCGTAATTATCTGgtgagtaatgagatattcactgccatgttccttgaaagcccagagcccaa #### Capn1_ID1376_2 --> 0 - 1 Original Alignment GAACTGATGTCAAAC-CCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg cggaccaagcatggctggggcccatggaacactgcccgtcccatccccagGAACTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAA-AGACATCTGCCAAGGTGCACTAggtgaagaaatacctctaggaatgggctgctgtgtgagctgagctttgttt Alignment from CESAR GAACTGATGTCAAAC-CCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg cggaccaagcatggctggggcccatggaacactgcccgtcccatccccagGAACTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGA-AAGACATCTGCCAAGGTGCACTAggtgaagaaatacctctaggaatgggctgctgtgtgagctgagctttgttt Alignment from Spaln_aa2Genome GAACTGATGTCAAACCCC-CAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG cggaccaagcatggctggggcccatggaacactgcccgtcccatccccagGAACTGATGTCAAATCCCcCAATTCATTGTAGACGGAGCCACCCGAAA-GACATCTGCCAAGGTGCACTAGgtgaagaaatacctctaggaatgggctgctgtgtgagctgagctttgttt Alignment from Spaln_nt2Genome GAACTGATGTC-AAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG cggaccaagcatggctggggcccatggaacactgcccgtcccatccccagGAACTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCC-GAAAGACATCTGCCAAGGTGCACTAGgtgaagaaatacctctaggaatgggctgctgtgtgagctgagctttgttt Alignment from Pairagon GAACTGATGTCAAA-CCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG cggaccaagcatggctggggcccatggaacactgcccgtcccatccccagGAACTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAA-AGACATCTGCCAAGGTGCACTAGgtgaagaaatacctctaggaatgggctgctgtgtgagctgagctttgttt Alignment from Exonerate_protein2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG cggaccaagcatggctggggcccatggaacactgcccgtcccatccccagGAACTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAAAGACATCTGCCAAGGTGCACTAGgtgaagaaatacctctaggaatgggctgctgtgtgagctgagctttgttt Alignment from Exonerate_coding2genome cggaccaagcatggctggggcccatggaacactgcccgtcccatccccaggaactgatgtcaaatcccccaattcattgtagacggagccacccgaaagacatctgccaaggtgcactaggtgaagaaatacctctaggaatgggctgctgtgtgagctgagctttgttt Alignment from GeneWise GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG cggaccaagcatggctggggcccatggaacactgcccgtcccatccccagGAACTGATGTCAAATCCCCCAATTCATTGTAGACGGAGCCACCCGAAAGACATCTGCCAAGGTGCACTAGgtgaagaaatacctctaggaatgggctgctgtgtgagctgagctttgttt #### Carns1_ID387_5 --> 0 - 1 Original Alignment GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTG-AACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGCATGATGGTACTGGGATTATTGACAAAAC-GGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAggtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from CESAR GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAg tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGCATGATGGTACTGGGATTATTGACAAAACGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAggtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Spaln_aa2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGCATGATGGTACTGGGATTATTGACAAAACGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Spaln_nt2Genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAAC-ACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGCATGATGGTACTGGGATT-ATTGACAAAACGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Pairagon GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTG--------------------------AACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGCATGATGGTACTGGGATTATTGACAAAAC--------------------------GGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Exonerate_protein2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGCATGATGGTACTGGGATTATTGACAAAACGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from Exonerate_coding2genome GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGCATGATGGTACTGGGATTATTGACAAAACGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag Alignment from GeneWise GTGGCTGTGAGGCTCAGTGGCTGTCGCTGGCGTGGACAGCAGGCATTGCCTCTGCACCTGCGGGTAGAGCCATCCACAGTGGTGAACACGGTGCTGGGATTGCTGGAGAAGCTGGAGGAGGAGGAGAGTGTCCTTGTGGAGGCCATGTGCCCACCTGTCCGGCTGCCCTTACCAG tctaccatcgagtggtaattttgcaaggagtaacgctgttttctttgtagGTGGCAGCAAGACTCAGTGGCTGCCATTGGCATGGTCAGCAGGCATTGCCTTTACATCTGCAGGTAAAGCCATCCACAGTAGTGCATGATGGTACTGGGATTATTGACAAAACGGAAGAGGAGGAGAGTGTCCTTGTAGAGCCAATTTGTCCACCTGTCCGCCTACCCTTGCCAGgtgagctttgattttaactcacaagcacaaacagccttaatgagatgcag #### Catsper1_ID926_3 --> 2 - 1 Original Alignment aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCC-ATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagaaTGGTATTTCATGATCCTAGACTCCATCTTCCTCACCCATCTTTGTACTAGAGGCAGTC---AAAC-TATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGggtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from CESAR aaTGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCC-ATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGg gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagaaTGGTATTTCATGATCCTAGACTCCATCTTCCTCACCCATCTTTGTACTAGAGGCAGTC---AAAC-TATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGggtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Spaln_aa2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACC---CATCTTTGTACTAGAGGCAGTCAAACTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Spaln_nt2Genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCC-ATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACCCATCTTTGTACTAGAGGCAG---TCAAACT-ATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Pairagon AATGGTACTTCATGGTCTTGGACTCCATCTTCCTC-TCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACCCATCTTTGTACTAGAGGCAG---TCAAACT-ATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Exonerate_protein2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACC---CATCTTTGTACTAGAGGCAGTCAAACTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from Exonerate_coding2genome AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACC---CATCTTTGTACTAGAGGCAGTCAAACTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg Alignment from GeneWise AATGGTACTTCATGGTCTTGGACTCCATCTTCCTCTCCATCTATGTACTAGAAGCAGTCCTCAAGCTAATTGCCCTGGGCCTGGAGTATTTTTATGACCCATGGAACAACCTGG gtgagcagtgtagtcccagcctgtcccaaactctgttctgtgtctcacagAATGGTATTTCATGATCCTAGACTCCATCTTCCTCACC---CATCTTTGTACTAGAGGCAGTCAAACTATTGCTTTGGGCTTAGAGTATTTCTATGACCCGTCAAATAATCTGGgtcagtcaatacagctagtccataatgaagcgtttcgctggttcataatg #### Catsper1_ID929_6 --> 2 - 1 Original Alignment tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAG-GACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGC ttggactttccctttgctatgtcagatgtctgttctctcttgacccacagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGCGATCCAGATCCCAAGCGTTTCCAGAATGTCTTTATAACAC-CTTCACCCTTTTCATGATGCTTAGCCTGGACGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGggtgggtaccctaagcctccagggtctctcaccttgcaccctcgcagctGC Alignment from CESAR tcCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAG-GACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAg gcGC ttggactttccctttgctatgtcagatgtctgttctctcttgacccacagtcCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGCGATCCAGATCCCAAGCGTTTCCAGAATGTCTTTATAACA-CCTTCACCCTTTTCATGATGCTTAGCCTGGACGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGggtgggtaccctaagcctccagggttgtcgcttccttgtcttgacagctGC Alignment from Spaln_aa2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGC ttggactttccctttgctatgtcagatgtctgttctctcttgacccacagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGCGATCCAGATCCCAAGCGTTTCCAGAATGTCTTTATAACACCTTCACCCTTTTCATGATGCTTAGCCTGGACGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgggtaccctaagcctccagggtctctcaccttgcaccctcgcagCTGC Alignment from Spaln_nt2Genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAG-GACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGC ttggactttccctttgctatgtcagatgtctgttctctcttgacccacagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGCGATCCAGATCCCAAGCGTTTCCAGAATGTCTTTATAACAC-CTTCACCCTTTTCATGATGCTTAGCCTGGACGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgggtaccctaagcctccagggtctctcaccttgcaccctcgcagCTGC Alignment from Pairagon TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAG-GACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGC ttggactttccctttgctatgtcagatgtctgttctctcttgacccacagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGCGATCCAGATCCCAAGCGTTTCCAGAATGTCTTTATAACAC-CTTCACCCTTTTCATGATGCTTAGCCTGGACGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgggtaccctaagcctccagggtctctcaccttgcaccctcgcagCTGC Alignment from Exonerate_protein2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGC ttggactttccctttgctatgtcagatgtctgttctctcttgacccacagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGCGATCCAGATCCCAAGCGTTTCCAGAATGTCTTTATAACACCTTCACCCTTTTCATGATGCTTAGCCTGGACGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgggtaccctaagcctccagggtctctcaccttgcaccctcgcagCTGC Alignment from Exonerate_coding2genome TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGC ttggactttccctttgctatgtcagatgtctgttctctcttgacccacagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGCGATCCAGATCCCAAGCGTTTCCAGAATGTCTTTATAACACCTTCACCCTTTTCATGATGCTTAGCCTGGACGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgggtaccctaagcctccagggtctctcaccttgcaccctcgcagCTGC Alignment from GeneWise TCCTCTTCTCTGTGGTTCTCCGAGCACTGTTTCAGGACTCAGACCCCAAGCGCTTCCAGAACATCTTTACCACACTCTTCACCCTGTTCACCATGCTCACCCTGGACGACTGGTCCCTCATCTACATAGACAACAGGGCCCAAG GCGC ttggactttccctttgctatgtcagatgtctgttctctcttgacccacagTCCTCTTCTCTGTGACTCTCCAAGCACTCTTCCAGCGATCCAGATCCCAAGCGTTTCCAGAATGTCTTTATAACACCTTCACCCTTTTCATGATGCTTAGCCTGGACGACTGGTCCCTTATCTACATAGAGAACAAGGCCCAGGgtgggtaccctaagcctccagggtctctcaccttgcaccctcgcagCTGC #### Catsper1_ID931_8 --> 1 - 0 Original Alignment cCTGGTGATTGCTGTCCTGGTA-GATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagtCTAGTAATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGG-GAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from CESAR cCTGGTGATTGCTGTCCTGGTA-GATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagtCTAGTAATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGGCCTG-GGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Spaln_aa2Genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGGGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Spaln_nt2Genome CCTGGTGATTGCTGTCCTGGTA-GATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGGCCT-GGGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Pairagon CCTGGTGATTGCTGTCCTGGTA-GATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGGCCT-GGGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Exonerate_protein2genome CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGGGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from Exonerate_coding2genome tcctcactcataagccccatttatgcaactctttttaaaatgttttatagtctagtaattgcagctctagtacgacaacttcctaatggtcctgctcaaaggcctgggaaagtgaagctggaagtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg Alignment from GeneWise CCTGGTGATTGCTGTCCTGGTAGATAACTTCCAGATGGCGTTGCTCAAAGGCCTAGAGAAAGTGAAGCTGGAG tcctcactcataagccccatttatgcaactctttttaaaatgttttatagTCTAGTAATTGCAGCTCTAGTACGACAACTTCCTAATGGTCCTGCTCAAAGGCCTGGGAAAGTGAAGCTGGAAgtaagaacgatgtagaagcacagataatccagatgtgctgtgcaaagatg #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGT-CCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg catcatggtgacttccctgatccatacaagacatttggtctctttggaagggTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCCAGT---ACTTCACAGCAATGGTTCAAACAGC-GAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg catcatggtgacttccctgatccatacaagacatttggtctctttggaagggTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCCAG--TACTTCACAGCAATGGTTCAAACAGC-GAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAggtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG catcatggtgacttccctgatccatacaagacatttggtctctttggaagGGTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCCAGTACTTCACA---GCAATGGTTCAAACAGCGAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG catcatggtgacttccctgatccatacaagacatttggtctctttggaagGGTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCCCAGTACTTCACA--GCAATGGTTCAAACAGCG-AGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAG---------GCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG catcatggtgacttccctgatccatacaagacatttggtctctttggaagGGTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGT-----------CCCCAGTACTTCACAGCAATGGTTCAAACAGCG-AGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Exonerate_protein2genome catcatggtgacttccctgatccatacaagacatttggtctctttggaagggtcatcgtcaccagcgcccatgcaccaaatagagagctccctttgcttgggagacgagaccctagctggtgggcagcgacggagtctaagttctcagttctctattggacaaagtcccgcttcattcagtccccagtacttcacagcaatggttcaaacagcgaggccaggcccccttggggcactgagtacctacagcaaaggtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG catcatggtgacttccctgatccatacaagacatttggtctctttggaagGGTCATCGTCACCAGCGCCCATGCACCAAATAGAGAGCTCCCTTTGCTTGGGAGACGAGACCCTAGCTGGTGGGCAGCGACGGAGTCTAAGTTCTCAGTTCTCTATTGGACAAAGTCCCGCTTCATTCAGTCCC---CAGTACTTCACAGCAATGGTTCAAACAGCGAGGCCAGGCCCCCTTGGGGCACTGAGTACCTACAGCAAAGgtcagcggtgtcttattataattgtaatttcaatcgaagtatgaagttgt #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment gGACCAGCTTAATGCCTTGCGC-CGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa gctaccttaaggtcagattgatgctaccaaatgcctgcttttctcttcaggGACCAACTCAATGGGTTGCGTCCAACAGAAACAGAAGCTGTTGGAT---A-CATGGACCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTaagtaatatagcaccttatgtttcatgattagtattttgctttattccacag Alignment from CESAR gGACCAGCTTAATGCCTTGCGC-CGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa gctaccttaaggtcagattgatgctaccaaatgcctgcttttctcttcaggGACCAACTCAATGGGTTGCGTCCAACAGAAACAGAAGCTGTTGGAT----ACATGGACCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTaagtaatatagcaccttatgtttcatgattagtattttgctttattccacag Alignment from Spaln_aa2Genome GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gctaccttaaggtcagattgatgctaccaaatgcctgcttttctcttcagGGACCAACTCAATGGGTTGCGTCCAACAGAAACAGAAGCTGTTGGA---TACATGGACCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtaatatagcaccttatgtttcatgattagtattttgctttattccacag Alignment from Spaln_nt2Genome GGACCAGCTTAATGCCTTGCG-CCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gctaccttaaggtcagattgatgctaccaaatgcctgcttttctcttcagGGACCAACTCAATGGGTTGCGTCCAACAGAAACAGAAGCTGTTGGATAC----ATGGACCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtaatatagcaccttatgtttcatgattagtattttgctttattccacag Alignment from Pairagon GGACCAGCTTAATGCCTTGCG-CCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gctaccttaaggtcagattgatgctaccaaatgcctgcttttctcttcagGGACCAACTCAATGGGTTGCGTCCAACAGAAACAGAAGCTGTTGGATA----CATGGACCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtaatatagcaccttatgtttcatgattagtattttgctttattccacag Alignment from Exonerate_protein2genome gctaccttaaggtcagattgatgctaccaaatgcctgcttttctcttcagggaccaactcaatgggttgcgtccaacagaaacagaagctgttggatacatggaccaataccgggtagtacagcctgggccactcccccatgctaagtaatatagcaccttatgtttcatgattagtattttgctttattccacag Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA gctaccttaaggtcagattgatgctaccaaatgcctgcttttctcttcagGGACCAACTCAATGGGTTGCGTCCAACAGAAACAGAAGCTGTTGGA---TACATGGACCAATACCGGGTAGTACAGCCTGGGCCACTCCCCCATGCTAAgtaatatagcaccttatgtttcatgattagtattttgctttattccacag #### Ccdc88b_ID1827_22 --> 0 - 2 Original Alignment CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTG-AGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCACAGCCGCACAAACAGGGAGTTGCAAGAGTGTA-TTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACctgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from CESAR CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTG-AGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCACAGCCGCACAAACAGGGAGTTGCAAGAGTGT-ATTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACctgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Spaln_aa2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCACAGCCGCACAAACAGGGAGTTGCAAGAGTGTATTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Spaln_nt2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCC-CTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCACAGCCGCACAAACAGGGAGTTGCAAGAGTGTA-TTTGGAGA---GTGACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Pairagon CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGC-----------------------------------GACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGT--------------------------------------GAAGGCTTCACAGCCGCACAAACAGGGAGTTGCAAGAGTGTATTTGGAGAGTGACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Exonerate_protein2genome cttcaatggataggttaactaataaattcaggttttatgtttgttttcagctcttaacacagcttcatacagtacaaaaagaggagaataggcagcttttagtagaggtgaaggcttcacagccgcacaaacagggagttgcaagagtgtatttggagagtgaccccgtgcattgtgagcagccagaatacctgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT cttcaatggataggttaactaataaattcaggttttatgtttgttttcagCTCTTAACACAGCTTCATACAGTACAAAAAGAGGAGAATAGGCAGCTTTTAGTAGAGGTGAAGGCTTCACAGCCGCACAAACAGGGAGTTGCAAGAGTGTATTTGGAGAGT---GACCCCGTGCATTGTGAGCAGCCAGAATACCTgtgggcccaacttaaggtcagattgatgctaccttaaggtcagattgatg #### Ccdc88b_ID1831_18 --> 0 - 0 Original Alignment AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGC-CTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCCTACATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGG-TCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from CESAR AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGC-CTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCCTACATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGG-GTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Spaln_aa2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCCTACATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGGTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Spaln_nt2Genome AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCC-TGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCCTACATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGG-TCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Pairagon AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAG-CCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCCTACATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGG-TCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Exonerate_protein2genome aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagaatgccacattagtggcagagaaagtggctctgcagggacagttacagcatcttgagggccagctgggtagccctacatgctcgtgcacaggagttgcttctacagagtcaacgggtcaagagcacagtagttgcttgcaggtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AATGCCACACTGGTGGCTGAGAAGGCGGCTCTGCAGGGGCAGCTGCAGCACCTGGAGGGGCAGCTGGGGAGCCTGCAGGGCCGTGCACAGGAGCTCCTGCTACAGAGTCAGCGGGCTCAGGAGCACAGCAGTCGCCTGCAG aagggctgtcacatcacaacgttaatatcctaaccttttttccccctaagAATGCCACATTAGTGGCAGAGAAAGTGGCTCTGCAGGGACAGTTACAGCATCTTGAGGGCCAGCTGGGTAGCCCTACATGCTCGTGCACAGGAGTTGCTTCTACAGAGTCAACGGGTCAAGAGCACAGTAGTTGCTTGCAGgtgagcttgggtgattgaatgggttgggtcatccaccttgaaacaatgta #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagcaTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from CESAR ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagcaTCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Spaln_aa2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGcGATCGGGAAAATCGGGAGCTTCGAGGTCAA---CATATG------GCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Spaln_nt2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCA---ACATAT------GGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Pairagon CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Exonerate_protein2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTG-GAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG ttgagtagggaaacatgacaggatagaactgtcctcccatccattcccagCATCCCTTCCTGGCCCAGCACCCTCACTGCAGGATGAGGTGAGGAAAGTAGAGGGTTGCCGTCTTAGGGCAGTGCGATCGGGAAAATCGGGAGCTTCGAGGTCAA---------CATATGGCACAGCTTGGGAGCCAGgtacagcctctgtcgtttcatctctgagtaattcagttctttgtggatac #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment GACCTGGACTCTCTGCGGCATCAGCTGGAGCAG-CTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAACGTAGAGCTGGAGTTGG-GCTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGggtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from CESAR GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTG-GTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAACGTAGAGCTGGAGTTG-GGCTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGggtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Spaln_aa2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGGCTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Spaln_nt2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTG-GTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAACGTAGAGCTGGAGTTGG-GCTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Pairagon GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGC-TGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAACGTAGAGCTGGAGTTGG-GCTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Exonerate_protein2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGGCTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG aggcctaatgggcagatagctctggcacggcactgtactttctcccacagGACCTGGACTCACTGCGGCATCAGTTGGAACAGCTTAGTGGAAGAGAACGTAGAGCTGGAGTTGGGCTACAAAGAAGTTTGGAGCCACCTCCAGGCTCCCCTGGGGAGGgtgagttgtagcagacaggatttggcaaggaacctttagtcttaagaaga #### Ccdc88b_ID1839_10 --> 0 - 0 Original Alignment ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAG-CGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCATCAGAA---CGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTC-AAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from CESAR ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCA--TCAGAACGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTC-AAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Spaln_aa2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCA---TCAGAACGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Spaln_nt2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCA--TCAGAACGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTC-AAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Pairagon ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGC---------ACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTC-----------GCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCATCAGAACGA-----------GGCAGGTCACCTGCCCCACCTGCAGGAAGA------------TCTTCAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Exonerate_protein2genome GGTGCAGGGCTTGGAGGCTGAAATTCGAAGGCTCCGCCAGGAGACTCAGGCGCTGTCC-----GCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTG--CGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ACTCCTTCACTGGCAGCCCCCTGTCCAGTATTTTCTGTTTTCTACTGAAGACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCATCAGAACGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCTTCAAGA---TGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG actccttcactggcagccccctgtccagtattttctgttttctactgaagACTCAGGCATTGTCTGCCCAAGCAAAGTGCACCGAACTCTGCTGTGAAGAGGCAGAGGCATCAGAACGAGGCAGGTCACCTGCCCCACCTGCAGGAAGATCT---TCAAGATGCTGGGAGAAGCTTCAAGCTGCAGAAGTCTTCAAGGGACATTTGGAAgtgaggttatgcacatatgaaccagagcaatgggtagtgtcgatgctgct #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment GAGGAGCTACAGCTG-CTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTCTTAATATTATCTACATCACCAGACCTCCAGC-TACAGGGTGTGAACCCTTTTCAggtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from CESAR GAGGAGCTACAGCTGCTG-ATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTCTTAATATTATCTACATCACCAGACCTCC-AGCTACAGGGTGTGAACCCTTTTCAggtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Spaln_aa2Genome GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTCTTAATATTATCTACATCACCAGACCTCCAGCTACAGGGTGTGAACCCTTTTCAGgtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Spaln_nt2Genome GAGGAGCTACAGCTGCTGA-TCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTCTTAATATTATCTACATCACCAGACCTCCAG-CTACAGGGTGTGAACCCTTTTCAGgtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Pairagon GAGGAGCTACAGCTGC-TGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTCTTAATATTATCTACATCACCAGACCTCCAG-CTACAGGGTGTGAACCCTTTTCAGgtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Exonerate_protein2genome agagcccaggcacctagctcagacacattctaacccctgctcctttaaaggaagagctacagcttcttaatattatctacatcaccagacctccagctacagggtgtgaacccttttcaggtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from Exonerate_coding2genome agagcccaggcacctagctcagacacattctaacccctgctcctttaaaggaagagctacagcttcttaatattatctacatcaccagacctccagctacagggtgtgaacccttttcaggtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc Alignment from GeneWise GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG agagcccaggcacctagctcagacacattctaacccctgctcctttaaagGAAGAGCTACAGCTTCTTAATATTATCTACATCACCAGACCTCCAGCTACAGGGTGTGAACCCTTTTCAGgtatgtgttctaaccttgtctatcactagactaccatgtataccctcatc #### Ccdc88b_ID1846_3 --> 1 - 0 Original Alignment tGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTC-AGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacaggactctgagtatctaaagcatttttttccctccagtTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGAGGACGCGATGGTACAGCTGCTTGTCAGA-GTGGACACTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtacactcagtatggaatccagagcccaggcacctagctcagacacatct Alignment from CESAR tGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTC-AGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacaggactctgagtatctaaagcatttttttccctccagtTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGAGGACGCGATGGTACAGCTGCTTGTCAG-AGTGGACACTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtacactcagtatggaatccagagcccaggcacctagctcagacacattc Alignment from Spaln_aa2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacaggactctgagtatctaaagcatttttttccctccagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGAGGACGCGATGGTACAGCTGCTTGTCAGAGTGGACACTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtacactcagtatggaatccagagcccaggcacctagctcagacacatct Alignment from Spaln_nt2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTC-AGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacaggactctgagtatctaaagcatttttttccctccagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGAGGACGCGATGGTACAGCTGCTTGTCAGA-GTGGACACTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtacactcagtatggaatccagagcccaggcacctagctcagacacatct Alignment from Pairagon TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGT-CAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacaggactctgagtatctaaagcatttttttccctccagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGAGGACGCGATGGTACAGCTGCTTGTCAGA-GTGGACACTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtacactcagtatggaatccagagcccaggcacctagctcagacacatct Alignment from Exonerate_protein2genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacaggactctgagtatctaaagcatttttttccctccagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGAGGACGCGATGGTACAGCTGCTTGTCAGAGTGGACACTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtacactcagtatggaatccagagcccaggcacctagctcagacacatct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG ctttattattaacaggactctgagtatctaaagcatttttttccctccagTTCTCCAAGTTCTCAAGGGGGAGTTCGTATGGTCCAGAGGACGCGATGGTACAGCTGCTTGTCAGAGTGGACACTCTGTCATCTATGGGGGCAGTTGAGAGACTTTTATCAGgtacactcagtatggaatccagagcccaggcacctagctcagacacatct #### Ccdc88b_ID1847_2 --> 0 - 2 Original Alignment GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAG-GAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat atcctgatatcatgtgctcgcttccctagctcctccttgctctgttgcagGCTTTAGGTTTAGCTGGTCTTGTGGGGGATGCAGAAAAGTCAGCAGGTGGAACTGAAGAGGATCGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAA-AAGATCCCTACGGTCGATTGATGGCGCTTTACTTCTTCGGGTTTTGGAGATTatgtgagtgacacagtgaaatttaactatagatgtagcgcaagaatgatggg Alignment from CESAR GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAG-GAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat atcctgatatcatgtgctcgcttccctagctcctccttgctctgttgcagGCTTTAGGTTTAGCTGGTCTTGTGGGGGATGCAGAAAAGTCAGCAGGTGGAACTGAAGAGGATCGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAG-AAAAAGATCCCTACGGTCGATTGATGGCGCTTTACTTCTTCGGGTTTTGGAGATTatgtgagtgacacagtgaaatttaactatagatgtagcgcaagaatgatggg Alignment from Spaln_aa2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT atcctgatatcatgtgctcgcttccctagctcctccttgctctgttgcagGCTTTAGGTTTAGCTGGTCTTGTGGGGGATGCAGAAAAGTCAGCAGGTGGAACTGAAGAGGATCGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAGATCCCTACGGTCGATTGATGGCGCTTTACTTCTTCGGGTTTTGGAGATTATgtgagtgacacagtgaaatttaactatagatgtagcgcaagaatgatggg Alignment from Spaln_nt2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAG-GAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT atcctgatatcatgtgctcgcttccctagctcctccttgctctgttgcagGCTTTAGGTTTAGCTGGTCTTGTGGGGGATGCAGAAAAGTCAGCAGGTGGAACTGAAGAGGATCGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGA-AAAAGATCCCTACGGTCGATTGATGGCGCTTTACTTCTTCGGGTTTTGGAGATTATgtgagtgacacagtgaaatttaactatagatgtagcgcaagaatgatggg Alignment from Pairagon GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGA-GGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT atcctgatatcatgtgctcgcttccctagctcctccttgctctgttgcagGCTTTAGGTTTAGCTGGTCTTGTGGGGGATGCAGAAAAGTCAGCAGGTGGAACTGAAGAGGATCGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGA-AAAAGATCCCTACGGTCGATTGATGGCGCTTTACTTCTTCGGGTTTTGGAGATTATgtgagtgacacagtgaaatttaactatagatgtagcgcaagaatgatggg Alignment from Exonerate_protein2genome atcctgatatcatgtgctcgcttccctagctcctccttgctctgttgcaggctttaggtttagctggtcttgtgggggatgcagaaaagtcagcaggtggaactgaagaggatcgaagaggaagaggaggaagaaggagccctttgtacagaaaaagatccctacggtcgattgatggcgctttacttcttcgggttttggagattatgtgagtgacacagtgaaatttaactatagatgtagcgcaagaatgatggg Alignment from Exonerate_coding2genome atcctgatatcatgtgctcgcttccctagctcctccttgctctgttgcaggctttaggtttagctggtcttgtgggggatgcagaaaagtcagcaggtggaactgaagaggatcgaagaggaagaggaggaagaaggagccctttgtacagaaaaagatccctacggtcgattgatggcgctttacttcttcgggttttggagattatgtgagtgacacagtgaaatttaactatagatgtagcgcaagaatgatggg Alignment from GeneWise GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT atcctgatatcatgtgctcgcttccctagctcctccttgctctgttgcagGCTTTAGGTTTAGCTGGTCTTGTGGGGGATGCAGAAAAGTCAGCAGGTGGAACTGAAGAGGATCGAAGAGGAAGAGGAGGAAGAAGGAGCCCTTTGTACAGAAAAAGATCCCTACGGTCGATTGATGGCGCTTTACTTCTTCGGGTTTTGGAGATTATgtgagtgacacagtgaaatttaactatagatgtagcgcaagaatgatggg #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCAC-CGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct cctaatattaagcattctatactgtaggagtctttattttacatgcacagatTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACCTGTTACACGGCATACTCCTGGGCCTTCT-GGTTCAGTGTATGGAATGGTTATCGctgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from CESAR atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTC-ACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGct cctaatattaagcattctatactgtaggagtctttattttacatgcacagatTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACCTGTTACACGGCATACTCCTGGGCCT-TCTGGTTCAGTGTATGGAATGGTTATCGctgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Spaln_aa2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACCTGTTACACGGCATACTCCTGGGCCTTCTGGTTCAGTGTATGGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Spaln_nt2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACC-GTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACCTGTTACACGGCATACTCCTGGGCCTTC-TGGTTCAGTGTATGGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Pairagon ------------------------------------------------AGATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACC-GTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT CCTAATATTAAGCATTCTATACTGTAGGAGTCTTTATTTTACATGCACAGATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACCTGTTACACGGCATACTCCTGGGCCTTC-TGGTTCAGTGTATGGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Exonerate_protein2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACCTGTTACACGGCATACTCCTGGGCCTTCTGGTTCAGTGTATGGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from Exonerate_coding2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACCTGTTACACGGCATACTCCTGGGCCTTCTGGTTCAGTGTATGGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat Alignment from GeneWise ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT cctaatattaagcattctatactgtaggagtctttattttacatgcacagATTATGCCTTTCTGAATTATGCACCCTCCTTAATAGCAGCTGCATGTGTGGCCTTTTCCAGGATTATACTCCAACTGTCTCCAACCTGGCCTACAAGACTACACCTGTTACACGGCATACTCCTGGGCCTTCTGGTTCAGTGTATGGAATGGTTATCGCTgtaagtagagtcacatgattgaactcagactgccatggtgattgctgtat #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAA-GATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTGCCCGCACCTTGGTTATTGATGAGGGAGAACGACGATGTGGGCTGGGGGGGCCACCCTTTATCCA-GATTACTGGGAATTTAGAGAAAaggtaagccatatcacaatcaaagccattctccttgtcctgcagaCTCTCAT Alignment from CESAR GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAA-GATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTGCCCGCACCTTGGTTATTGATGAGGGAGAACGACGATGTGGGCTGGGGGGGCCACCCTTTAT-CCAGATTACTGGGAATTTAGAGAAAaggtaagccatatcacaatcaaaactcctgggtttttttctcagaCTCTCAT Alignment from Spaln_aa2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTGCCCGCACCTTGGTTATTGATGAGGGAGAACGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAGATTACTGGGAATTTAGAGAAAAGgtaagccatatcacaatcaaagccattctccttgtcctgcagACTCTCAT Alignment from Spaln_nt2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAA-GATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTGCCCGCACCTTGGTTATTGATGAGGGAGAACGACGATGTGGGCTGGGGGGGCCACCCTTTATCC-AGATTACTGGGAATTTAGAGAAAAGgtaagccatatcacaatcaaagccattctccttgtcctgcagACTCTCAT Alignment from Pairagon ------------------------------------------------AGGTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAA-GATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAGGTTGGCC------------------------------------------T GTGCATATGAAGGGCAGATGAATCTGACTCCCTCCTTTATCTTTGAATAGGTTTGGGATGTGATTGCCCGCACCTTGGTTATTGATGAGGGAGAACGACGATGTGGGCTGGGGGGGCCACCCTTTATCC-AGATTACTGGGAATTTAGAGAAAAGGTAAGCCATATCACAATCAAAGCCATTCTCCTTGTCCTGCAGACTCTCAT Alignment from Exonerate_protein2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTGCCCGCACCTTGGTTATTGATGAGGGAGAACGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAGATTACTGGGAATTTAGAGAAAAGgtaagccatatcacaatcaaagccattctccttgtcctgcagACTCTCAT Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG GTTGGCCT gtgcatatgaagggcagatgaatctgactccctcctttatctttgaatagGTTTGGGATGTGATTGCCCGCACCTTGGTTATTGATGAGGGAGAACGACGATGTGGGCTGGGGGGGCCACCCTTTATCCAGATTACTGGGAATTTAGAGAAAAGgtaagccatatcacaatcaaagccattctccttgtcctgcagACTCTCAT #### Ccs_ID664_4 --> 2 - 2 Original Alignment agAATCTGGGAGCAGCAGTGGCCATTCTGGAGGGCTGTGGCTCCATACAGGGGGTGGTCCGCTTCCTACAGCTATCCTCTGAACTCTGCTTGATTGAGGGAACCATC-GACGGCCTAGAGCCTGGGCTGCATGGACTCCATGTGCATCAGTATGGGGACCTTACGAGGGACTGCAATag atgtcctggacttttcatgacactacataaatgccctctgaacttttcagaaAATCTTGGAGCAACTGTTGCCATTCTAGAGGGGTATGGCACCATACAGGGATTGGTCCGTTTTTTGCAACTATCCTCTGAACTATGCTTGATGGAGGGTACAATTCGATGGGTTAGAT---GGACTGCATGGACTACAAG-GCATCACTACGGTGACCTATCACGTGACTGCAATaggtgaggagcctctgagaagttgtttagactcctggggttacacctcctgc Alignment from CESAR agAATCTGGGAGCAGCAGTGGCCATTCTGGAGGGCTGTGGCTCCATACAGGGGGTGGTCCGCTTCCTACAGCTATCCTCTGAACTCTGCTTGATTGAGGGAACCATC-GACGGCCTAGAGCCTGGGCTGCATGGACTCCATGTGCATCAGTATGGGGACCTTACGAGGGACTGCAATag atgtcctggacttttcatgacactacataaatgccctctgaacttttcagaaAATCTTGGAGCAACTGTTGCCATTCTAGAGGGGTATGGCACCATACAGGGATTGGTCCGTTTTTTGCAACTATCCTCTGAACTATGCTTGATGGAGGGTACAATTCGATGGGTTAGAT---GGACTGCATGGACTACAA-GGCATCACTACGGTGACCTATCACGTGACTGCAATaggtgaggagcctctgagaagttgtttagactcctggggttacacctcctgc Alignment from Spaln_aa2Genome AGAATCTGGGAGCAGCAGTGGCCATTCTGGAGGGCTGTGGCTCCATACAGGGGGTGGTCCGCTTCCTACAGCTATCCTCTGAACTCTGCTTGATTGAGGGAACCATCGACGGCCTAGAGCCTGGGCTGCATGGACTCCATGTGCATCAGTATGGGGACCTTACGAGGGACTGCAATAG atgtcctggacttttcatgacactacataaatgccctctgaacttttcagAAAATCTTGGAGCAACTGTTGCCATTCTAGAGGGGTATGGCACCATACAGGGATTGGTCCGTTTTTTGCAACTATCCTCTGAACTATGCTTGATGGAGGGTACAATTCGATGGGTTAGATGGACTGCATGGACTACAAGG---CATCACTACGGTGACCTATCACGTGACTGCAATAGgtgaggagcctctgagaagttgtttagactcctggggttacacctcctgc Alignment from Spaln_nt2Genome AGAATCTGGGAGCAGCAGTGGCCATTCTGGAGGGCTGTGGCTCCATACAGGGGGTGGTCCGCTTCCTACAGCTATCCTCTGAACTCTGCTTGATTGAGGGAACCAT-CGACGGCCTAGAGCCTGGGCTGCATGGACTCCATGTGCATCAGTATGGGGACCTTACGAGGGACTGCAATAG atgtcctggacttttcatgacactacataaatgccctctgaacttttcagAAAATCTTGGAGCAACTGTTGCCATTCTAGAGGGGTATGGCACCATACAGGGATTGGTCCGTTTTTTGCAACTATCCTCTGAACTATGCTTGATGGAGGGTACAATTCGATGGGTTAGA---TGGACTGCATGGACTACAAG-GCATCACTACGGTGACCTATCACGTGACTGCAATAGgtgaggagcctctgagaagttgtttagactcctggggttacacctcctgc Alignment from Pairagon AGAATCTGGGAGCAGCAGTGGCCATTCTGGAGGGCTGTGGCTCCATACAGGGGGTGGTCCGCTTCCTACAGCTATCCTCTGAACTCTGCTTGATTGAGGGAACCA-TCGACGGCCTAGAGCCTGGGCTGCATGGACTCCATGTGCATCAGTATGGGGACCTTACGAGGGACTGCAATAG atgtcctggacttttcatgacactacataaatgccctctgaacttttcagAAAATCTTGGAGCAACTGTTGCCATTCTAGAGGGGTATGGCACCATACAGGGATTGGTCCGTTTTTTGCAACTATCCTCTGAACTATGCTTGATGGAGGGTACAATTCGATGGGTTAGA---TGGACTGCATGGACTACAAG-GCATCACTACGGTGACCTATCACGTGACTGCAATAGgtgaggagcctctgagaagttgtttagactcctggggttacacctcctgc Alignment from Exonerate_protein2genome AGAATCTGGGAGCAGCAGTGGCCATTCTGGAGGGCTGTGGCTCCATACAGGGGGTGGTCCGCTTCCTACAGCTATCCTCTGAACTCTGCTTGATTGAGGGAACCATCGACGGCCTAGAGCCTGGGCTGCATGGACTCCATGTGCATCAGTATGGGGACCTTACGAGGGACTGCAATAG atgtcctggacttttcatgacactacataaatgccctctgaacttttcagAAAATCTTGGAGCAACTGTTGCCATTCTAGAGGGGTATGGCACCATACAGGGATTGGTCCGTTTTTTGCAACTATCCTCTGAACTATGCTTGATGGAGGGTACAATTCGATGGGTTAGATGGACTGCATGGACTACAAGG---CATCACTACGGTGACCTATCACGTGACTGCAATAGgtgaggagcctctgagaagttgtttagactcctggggttacacctcctgc Alignment from Exonerate_coding2genome AGAATCTGGGAGCAGCAGTGGCCATTCTGGAGGGCTGTGGCTCCATACAGGGGGTGGTCCGCTTCCTACAGCTATCCTCTGAACTCTGCTTGATTGAGGGAACCATCGACGGCCTAGAGCCTGGGCTGCATGGACTCCATGTGCATCAGTATGGGGACCTTACGAGGGACTGCAATAGCTGTGGG atgtcctggacttttcatgacactacataaatgccctctgaacttttcagAAAATCTTGGAGCAACTGTTGCCATTCTAGAGGGGTATGGCACCATACAGGGATTGGTCCGTTTTTTGCAACTATCCTCTGAACTATGCTTGATGGAGGGTACAATT--CGATGGGTTAGATGGACTGCATGGACTACA-AGGCATCACTACGGTGACCTATCACGTGACTGCAATAGGTGAGGAgcctctgagaagttgtttagactcctggggttacacctcctgc Alignment from GeneWise AGAATCTGGGAGCAGCAGTGGCCATTCTGGAGGGCTGTGGCTCCATACAGGGGGTGGTCCGCTTCCTACAGCTATCCTCTGAACTCTGCTTGATTGAGGGAACCATCGACGGCCTAGAGCCTGGGCTGCATGGACTCCATGTGCATCAGTATGGGGACCTTACGAGGGACTGCAATAG atgtcctggacttttcatgacactacataaatgccctctgaacttttcagAAAATCTTGGAGCAACTGTTGCCATTCTAGAGGGGTATGGCACCATACAGGGATTGGTCCGTTTTTTGCAACTATCCTCTGAACTATGCTTGATGGAGGGTACAATTCGATGGGTTAGATGGACTGCATGGACTACAAGG---CATCACTACGGTGACCTATCACGTGACTGCAATAGgtgaggagcctctgagaagttgtttagactcctggggttacacctcctgc #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGA-GACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG ctacctgtttgctgtgtacagacaacctccgtttgtgctgaaacctacagACAACCTGTCTCCGTGAGGAGCGAGATGTTCTAGTGAAGCAACGAACATTGTTGGGTGACAGTCTTACATTACTCATTCCAGG-TGAGGAGTTCTTAgtaagttgttctatgccacaagggagctaccctgacagtactgccttttt Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAG-GGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG ctacctgtttgctgtgtacagacaacctccgtttgtgctgaaacctacagACAACCTGTCTCCGTGAGGAGCGAGATGTTCTAGTGAAGCAACGAACATTGTTGGGTGACAGTCTTACATTACTCATTCCAG-GTGAGGAGTTCTTAgtaagttgttctatgccacaagggagctaccctgacagtactgccttttt Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG ctacctgtttgctgtgtacagacaacctccgtttgtgctgaaacctacagACAACCTGTCTCCGTGAGGAGCGAGATGTTCTAGTGAAGCAACGAACATTGTTGGGTGACAGTCTTACATTACTCATTCCAGGTGAGGAGTTCTTAgtaagttgttctatgccacaagggagctaccctgacagtactgccttttt Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGA-GACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG ctacctgtttgctgtgtacagacaacctccgtttgtgctgaaacctacagACAACCTGTCTCCGTGAGGAGCGAGATGTTCTAGTGAAGCAACGAACATTGTTGGGTGACAGTCTTACATTACTCATTCCAGG-TGAGGAGTTCTTAgtaagttgttctatgccacaagggagctaccctgacagtactgccttttt Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGC------------TGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG ctacctgtttgctgtgtacagacaacctccgtttgtgctgaaacctacagACAACCTGTCTCCGTGAGGAGCGAGATGTTCTAGTGAA-----------GCAACGAACATTGTTGGGTGACAGTCTTACATTACTCATTCCAGG-TGAGGAGTTCTTAgtaagttgttctatgccacaagggagctaccctgacagtactgccttttt Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG ctacctgtttgctgtgtacagacaacctccgtttgtgctgaaacctacagACAACCTGTCTCCGTGAGGAGCGAGATGTTCTAGTGAAGCAACGAACATTGTTGGGTGACAGTCTTACATTACTCATTCCAGGTGAGGAGTTCTTAgtaagttgttctatgccacaagggagctaccctgacagtactgccttttt Alignment from Exonerate_coding2genome ctacctgtttgctgtgtacagacaacctccgtttgtgctgaaacctacagacaacctgtctccgtgaggagcgagatgttctagtgaagcaacgaacattgttgggtgacagtcttacattactcattccaggtgaggagttcttagtaagttgttctatgccacaagggagctaccctgacagtactgccttttt Alignment from GeneWise ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG ctacctgtttgctgtgtacagacaacctccgtttgtgctgaaacctacagACAACCTGTCTCCGTGAGGAGCGAGATGTTCTAGTGAAGCAACGAACATTGTTGGGTGACAGTCTTACATTACTCATTCCAGGTGAGGAGTTCTTAgtaagttgttctatgccacaagggagctaccctgacagtactgccttttt #### Cdc42bpg_ID1576_6 --> 1 - 0 Original Alignment gGATGTGAAGCCTGAC-AACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagaGATGTGGAGCCAGACCAATGTTCTA---AGCATGAATGGTCAT---TGCTTAGCTG-TTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from CESAR gGATGTGAAGCCTGAC-AACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagaGATGTGGAGCCAGACCAATGTT---CTAAGCATGAATGGTCAT---TGCTTAGCT-GTTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Spaln_aa2Genome TGACAACATCCTGCTGGACATGAATGGCCACATCCGC------CTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagAGATGTGGAGCCAGACCAATGTTCTAAGCATGAATGGTCATTGCTTAGCTGTTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Spaln_nt2Genome GGGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcag-AGATGTGGAGCCAGAC--CAATGTTCTAAGCATGAATGGTCA---TTGCTTAGCTG-TTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Pairagon GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGAC------------------------------------TTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagAGATGTGGAGC------------------------------------------CAGACCAATGTTCTAAGCATGAATGGTCATTGCTTAGCTGTTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Exonerate_protein2genome GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagAGATGTGGAGCCAGACCAA------TGTTCTAAGCATGAATGGTCATTGCTTAGCTGTTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from Exonerate_coding2genome ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagagatgtggagccagaccaatgttctaagcatgaatggtcattgcttagctgttttggcacctgcctatgcctcaacatcaacaccaaggtaggtacacttagaaattcttcatagataaattaaagacatttagttag Alignment from GeneWise GGATGTGAAGCCTGACAACATCCTGCTGGACATGAATGGCCACATCCGCCTGGCAGACTTTGGCTCCTGCCTGCGTCTCAACAACAATGGCATG ggacacacacatacctataccatagaacgaccagatgggtgtcttctcagAGATGTGGAGCCAGACCAATGT------TCTAAGCATGAATGGTCATTGCTTAGCTGTTTTGGCACCTGCCTATGCCTCAACATCAACACCAAGgtaggtacacttagaaattcttcatagataaattaaagacatttagttag #### Cdc42bpg_ID1578_8 --> 0 - 0 Original Alignment GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAG-GAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGCGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCACA-GCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from CESAR GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAG-GAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGCGAGCAACTAAGCCGTGGTGCACTGGACGACTTC-CACAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Spaln_aa2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGCGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCACAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Spaln_nt2Genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAG-GAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGCGAGCAACTAAGCCGTGGTGCACTGGACGACTTCC-ACAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Pairagon GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAG-GAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGCGAGCAACTAAGCCGTGGTGCACTGGACGACTTCC-ACAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Exonerate_protein2genome GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGCGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCACAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from Exonerate_coding2genome agtcatctttatagttaggtccctccacactcccctttcccctacttcaggaccatctccagtttcctgctgccgtcacagatgtgcctgctagtgcccgtgatctgatctgtcagctgttatgccgccaggagcgagcaactaagccgtggtgcactggacgacttccacagcatgcattctttgagggggttgactgggagaggctcacaaccagcacagcaccatatattcctgagcttcgaggcccaatggacacttcaaaccttgatgtggatgatgacaccctcaaccgctcagtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct Alignment from GeneWise GACCACCTCCAGTTCCCTGCTGATGTGACTGATGTGCCTGCTAGTGCCCAGGACCTGATCCGACAGCTGCTGTGCCGTCAGGAGGAGCGGCTGGGCCGTGGTGGGCTGGACGACTTCCGGAAGCACCCCTTCTTTGAAGGGGTCGATTGGGAGAGGCTTGCAACCAGCACAGCGCCATACATCCCTGAGCTTCGAGGGCCGATGGACACCTCCAACTTCGACGTGGATGATGATACCCTCAACCGTCCA agtcatctttatagttaggtccctccacactcccctttcccctacttcagGACCATCTCCAGTTTCCTGCTGCCGTCACAGATGTGCCTGCTAGTGCCCGTGATCTGATCTGTCAGCTGTTATGCCGCCAGGAGCGAGCAACTAAGCCGTGGTGCACTGGACGACTTCCACAGCATGCATTCTTTGAGGGGGTTGACTGGGAGAGGCTCACAACCAGCACAGCACCATATATTCCTGAGCTTCGAGGCCCAATGGACACTTCAAACCTTGATGTGGATGATGACACCCTCAACCGCTCAgtaagttgcagagaccattatgacacatttgtccaacaatgtactgagct #### Cdc42bpg_ID1581_11 --> 2 - 1 Original Alignment agCCCCTGCATGGCCCA-TTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAg tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagggCATCTTCATAGTCCACCTACAACCACAGGGGTTAGTACATCTTC-TAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAggtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from CESAR agCCCCTGCATGGCCCA-TTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAg tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagggCATCTTCATAGTCCACCTACAACCACAGGGGTTAGTACATCTT-CTAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAggtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Spaln_aa2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACCTACAACCACAGGGGTTAGTACATCTTCTAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Spaln_nt2Genome AGCCCCTGCATGGCCCAT-TACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACCTACAACCACAGGGGTTAGTACATCTTC-TAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Pairagon AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagggcatcttcatagtccacctacaaccacaggggttagtacatcttctaaagAG---------------------------------------------------GTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Exonerate_protein2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACCTACAACCACAGGGGTTAGTACATCTTCTAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from Exonerate_coding2genome tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagggcatcttcatagtccacctacaaccacaggggttagtacatcttctaaagaggttcaggttcttcaggagaaactgacaggtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag Alignment from GeneWise AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG tcctaactgttcgggcactacaattgcacatccccgtctgttcaccacagGGCATCTTCATAGTCCACCTACAACCACAGGGGTTAGTACATCTTCTAAAGAGGTTCAGGTTCTTCAGGAGAAACTGACAGgtaagtctggccagctattaggggtggcttggttccctgtcatgtcccag #### Cdc42bpg_ID1582_12 --> 2 - 0 Original Alignment agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGA-AGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagaaACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGACAGCCCTGTCCCAAACATTCAGTTACAGCAGGAAAAGG-TCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from CESAR agACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGA-AGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagaaACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGACAGCCCTGTCCCAAACATTCAGTTACAGCAGGAAAAG-GTCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Spaln_aa2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGACAGCCCTGTCCCAAACATTCAGTTACAGCAGGAAAAGGTCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Spaln_nt2Genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGA-AGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGACAGCCCTGTCCCAAACATTCAGTTACAGCAGGAAAAGG-TCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Pairagon AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGA-AGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGACAGCCCTGTCCCAAACATTCAGTTACAGCAGGAAAAGG-TCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Exonerate_protein2genome AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGACAGCCCTGTCCCAAACATTCAGTTACAGCAGGAAAAGGTCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from Exonerate_coding2genome aatgttcataatttagggcaatgacggacttggtcatttatctactttagaaaccttgaaggacagtgaggcttctcttgcccaagctgatggccctgatgctagacagccctgtcccaaacattcagttacagcaggaaaaggtcgccttcaacaggtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc Alignment from GeneWise AGACACTGAGGGACAGCAAGGCCTCCCTCTCACAAACTGATGGCCTCCATGCTAGAAGCCCAGCCCCAAACATCCAACTACAACAGGAGAAGGACCGCCTCCAGCAG aatgttcataatttagggcaatgacggacttggtcatttatctactttagAAACCTTGAAGGACAGTGAGGCTTCTCTTGCCCAAGCTGATGGCCCTGATGCTAGACAGCCCTGTCCCAAACATTCAGTTACAGCAGGAAAAGGTCGCCTTCAACAGgtgaccatagtggtgagaattatgcagcgtgtcatttgttcatatatgcc #### Cdc42bpg_ID1583_13 --> 0 - 0 Original Alignment GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGC-CAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCC---CTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atgagagagcccatatgaattcattctatagcccaaacttttgacctcagGAGCTGCCTCAGGCTCAGGTAGCATTGCAG---CAAGACGCTGAATTATGCCCAAGCA---AACCGACAAGAAGAAGTCCTGCAGAGGTTGTGGG-AGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATTAACACTCAGCTGCAAGAAGCATGGGTGGTCCGCAGAGAGgtaaaaaaaagacagtgacacttccatagatgtccttgaatccatgcagc Alignment from CESAR GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGC-CAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atgagagagcccatatgaattcattctatagcccaaacttttgacctcagGAGCTGCCTCAGGCTCAGGTAGCATTGCAG---CAAGACGCTGAATTATGCCCAAGCA---AACCGACAAGAAGAAGTCCTGCAGAGGTTGTGGG-AGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATTAACACTCAGCTGCAAGAAGCATGGGTGGTCCGCAGAGAGgtaaaaaaaagacagtgacacttccatagatgtccttgaatccatgcagc Alignment from Spaln_aa2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atgagagagcccatatgaattcattctatagcccaaacttttgacctcagGAGCTGCCTCAGGCTCAGGTAGCATTGCAG---CAAGACGCTGAATTATGCCCAAGCAAACCGACAAGA---AGAAGTCCTGCAGAGGTTGTGGGAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATTAACACTCAGCTGCAAGAAGCATGGGTGGTCCGCAGAGAGgtaaaaaaaagacagtgacacttccatagatgtccttgaatccatgcagc Alignment from Spaln_nt2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGA---ACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atgagagagcccatatgaattcattctatagcccaaacttttgacctcagGAGCTGCCTCAGGCTCAGGTAGCATTGC---AGCAAGACGCTGAATTATGCCCA-AGCA-AACCGACAAGAAGAAGTCCTGCAGAGGTTGTGGG-AGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATTAACACTCAGCTGCAAGAAGCATGGGTGGTCCGCAGAGAGgtaaaaaaaagacagtgacacttccatagatgtccttgaatccatgcagc Alignment from Pairagon GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAG-------------------------AACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atgagagagcccatatgaattcattctatagcccaaacttttgacctcagGAGCTGCCTCAGGCTCAGGTAGCATT------------------------------GCAGCAAGACGCTGAATTATGCCCAAGCAAACCGACAAGAAGAAGTCCTGCAGAGGTTGTGGG-AGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATTAACACTCAGCTGCAAGAAGCATGGGTGGTCCGCAGAGAGgtaaaaaaaagacagtgacacttccatagatgtccttgaatccatgcagc Alignment from Exonerate_protein2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atgagagagcccatatgaattcattctatagcccaaacttttgacctcagGAGCTGCCTCAGGCTCAGGTAGCATTGCAG---CAAGACGCTGAATTATGCCCAAGCAAACCGACAAGAAGAAGTCCTGCAGAG---GTTGTGGGAGCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATTAACACTCAGCTGCAAGAAGCATGGGTGGTCCGCAGAGAGgtaaaaaaaagacagtgacacttccatagatgtccttgaatccatgcagc Alignment from Exonerate_coding2genome atgagagagcccatatgaattcattctatagcccaaacttttgacctcaggagctgcctcaggctcaggtagcattgcagcaagacgctgaattatgcccaagcaaaccgacaagaagaagtcctgcagaggttgtgggagcacaggatagggaatctgctgcagcaggacagcttcagagcctaattaacactcagctgcaagaagcatgggtggtccgcagagaggtaaaaaaaagacagtgacacttccatagatgtccttgaatccatgcagc Alignment from GeneWise GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTG---AACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG atgagagagcccatatgaattcattctatagcccaaacttttgacctcagGAGCTGCCTCAGGCTCAGGTAGCATTGCAG---CAAGACGCTGAATTATGCCCAAGCAAACCGACAAGAAGAAGTCCTGCAGAGGTTGTGGGA---GCACAGGATAGGGAATCTGCTGCAGCAGGACAGCTTCAGAGCCTAATTAACACTCAGCTGCAAGAAGCATGGGTGGTCCGCAGAGAGgtaaaaaaaagacagtgacacttccatagatgtccttgaatccatgcagc #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGGAAA-GAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtaggATCAGTGTTGGGAAACATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGC-GCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from CESAR gATCAGTGTTGGGAAA-GAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtaggATCAGTGTTGGGAAACATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGC-GCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAACATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGA-GGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAACATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGC-GCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Pairagon GATCAGTGTTGGGAAAGA-GGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAACATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGC-GCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAACATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from Exonerate_coding2genome acttgctatctggaattggcaaaataattgttttccttttttctacgtaggatcagtgttgggaaacatggaggttctatgccatctacaggcagtgaaccagcgctgagtcgagaacaggagtgggtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt Alignment from GeneWise GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG acttgctatctggaattggcaaaataattgttttccttttttctacgtagGATCAGTGTTGGGAAACATGGAGGTTCTATGCCATCTACAGGCAGTGAACCAGCGCTGAGTCGAGAACAGGAGTGGgtgaggatcaagtacgacaaagccgtgattgcgatcactgacttgtgggt #### Cdc42bpg_ID1590_20 --> 1 - 1 Original Alignment cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG-CAG---CAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg tcctgggtgagaattgcaccctcctgggcctcaccgagccccaccctcagcCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTTCCAGCAGCAGGGGGTGGCTGTACTGAAGGAGGAACTTC-GGCTCGAGGACCAGCTggtaggtacccacttgagaacaatcacaacacacgtggggaccagacaaga Alignment from CESAR cCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTG-CAGCAGGAG---GTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGg tcctgggtgagaattgcaccctcctgggcctcaccgagccccaccctcagcCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTTCCAGCAGCAGGGGGTGGCTGTACTGAAGGAGGAACTT-CGGCTCGAGGACCAGCTggtaggtacccacttgagaacaatcacaacacacgtggggaccagacaaga Alignment from Spaln_aa2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCTGCAGCAGGAGGTGGCTGAGCTCCGGGAG---GAACTGCAAGCTCGAGGACCGGGGG tcctgggtgagaattgcaccctcctgggcctcaccgagccccaccctcagCCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTTCCAGCAGCAGGGGGTGGCTGTACTGAAGGAGGAACTTCGGCTCGAGGACCAGCTGgtaggtacccacttgagaacaatcacaacacacgtggggaccagacaaga Alignment from Spaln_nt2Genome CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGCCCT----GCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG tcctgggtgagaattgcaccctcctgggcctcaccgagccccaccctcagCCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTTCCAGCAGCAGGGGGTGGCTGTACTGAAGGAGGAACTTC-GGCTCGAGGACCAGCTGgtaggtacccacttgagaacaatcacaacacacgtggggaccagacaaga Alignment from Pairagon CCGCCTGCAGGAGGCTGAGAAGCAAAGTCAGGC----CCTGCAGCAGGAGGTGGCTGAGCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGG tcctgggtgagaattgcaccctcctgggcctcaccgagccccaccctcagCCACCTGCAGGAAGCTGAGACACAAAGTAAGACACTTCCAGCAGCAGGGGGTGGCTGTACTGAAGGAGGAACTTC-GGCTCGAGGACCAGCTGgtaggtacccacttgagaacaatcacaacacacgtggggaccagacaaga Alignment from Exonerate_protein2genome GCTCCGGGAGGAACTGCAAGCTCGAGGACCGGGGGATGCCAGGCCTTCCACTTCCCTCAT TCCTGGGTGAGAATTGCACCCTCCTGGGCCTCACCGAGCCCCACCCTCAGCCACCTGCAGgaagctgagacacaaagtaagacacttccagcagcagggggtggctgtactgaaggaggaacttcggctcgaggaccagctggtaggtacccacttgagaacaatcacaacacacgtggggaccagacaaga Alignment from Exonerate_coding2genome tcctgggtgagaattgcaccctcctgggcctcaccgagccccaccctcagccacctgcaggaagctgagacacaaagtaagacacttccagcagcagggggtggctgtactgaaggaggaacttcggctcgaggaccagctggtaggtacccacttgagaacaatcacaacacacgtggggaccagacaaga Alignment from GeneWise tcctgggtgagaattgcaccctcctgggcctcaccgagccccaccctcagccacctgcaggaagctgagacacaaagtaagacacttccagcagcagggggtggctgtactgaaggaggaacttcggctcgaggaccagctggtaggtacccacttgagaacaatcacaacacacgtggggaccagacaaga #### Cdc42bpg_ID1594_24 --> 0 - 1 Original Alignment CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGT-CTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACa tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCC-AGGCCTGGGCTGTGACagtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from CESAR CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGT-CTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACa tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCC-AGGCCTGGGCTGTGACagtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Spaln_aa2Genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGT-CTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTcCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCA-GGCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Spaln_nt2Genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTC-TCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCA-GGCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Pairagon CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGT-CTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCA-GGCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Exonerate_protein2genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGT-CTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGG tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAGGCCTGGGctgtgacagtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from Exonerate_coding2genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGT-CTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGG tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAGGCCTGGGctgtgacagtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa Alignment from GeneWise CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA tgacagttcttccaagtcaagagctttatgacagctggggtctttttcagCCTGGTTCACACACCTTGAGACCTCGCAGTTTTCCATCTCCAACTAAGTGTCCTCCGCTGCACTTCGCTGATGTTGGGCCTTGGCCGCCAGGCCTGGGCTGTGACAgtgagtgcatatgtattgtagtccctcattgttgagcacatacatgctaa #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGC-ACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagcaTGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAG-GTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctgtttgcattttttttttctaagGTACGACAGC Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGC-ACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagcaTGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAG-GTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctgaagcccctggtccttacacagGTACGACAGC Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctgtttgcattttttttttctaagGTACGACAGC Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCG-CACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACA-GGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctgtttgcattttttttttctaagGTACGACAGC Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCG-CACAGCCTTGGGGGTGCACCCCGA------AACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTC----------------------------------------GGTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGGT-------CAGCCTATGATGGGTTCTTGTCAGTAGGCTGGGGGGGTTCTGTTTGCATTTTTTTTTTCTAAGGTACGACAGC Alignment from Exonerate_protein2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctgtttgcattttttttttctaagGTACGACAGC Alignment from Exonerate_coding2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctgtttgcattttttttttctaagGTACGACAGC Alignment from GeneWise CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG GTGCCGCGGC agtaacctcaacattatttaattcacatatgtcaactttttctctattagCATGTGGTTATTTCTGT------GCCTGTGCCTCGCAAACCCCTCCTTGCCCAGTGCCCCCTGAACTTCTTCGCCACAGCCTTGGGAGTGCACCCCAAGAAGCGAACAGGTCAGCCTATGATGGGTTCTTGTCAgtaggctgggggggttctgtttgcattttttttttctaagGTACGACAGC #### Cdc42bpg_ID1597_27 --> 1 - 0 Original Alignment gGACCCCCAGTTCTCAGCCACCCCTGTCTTG-GCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgatgagtgtgaacaatcaacatggatcacctcctctgctaccctcacaggGATCCCCAGTTTTCAGTGACCCCTGACTTGCGCCCCAGATGTCATTCATGCCCAATCAAAGG-CCTGCCACACATCTTCAGGgtgagtaagctaggtgatataggtttagcctcaggccccagccagccata Alignment from CESAR gGACCCCCAGTTCTCAGCCACCCCTGTCTTG-GCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgatgagtgtgaacaatcaacatggatcacctcctctgctaccctcacaggGATCCCCAGTTTTCAGTGACCCCTGACTTGCGCCCCAGATGTCATTCATGCCCAATCAAAG-GCCTGCCACACATCTTCAGGgtgagtaagctaggtgatataggtttagcctcaggccccagccagccata Alignment from Spaln_aa2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTG-GCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgatgagtgtgaacaatcaacatggatcacctcctctgctaccctcacagGGATCCCCAGTTTTCAGTGACCCCTGACTTGcGCCCCAGATGTCATTCATGCCCAATCAAAGGC-CTGCCACACATCTTCAGGgtgagtaagctaggtgatataggtttagcctcaggccccagccagccata Alignment from Spaln_nt2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTG-GCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgatgagtgtgaacaatcaacatggatcacctcctctgctaccctcacagGGATCCCCAGTTTTCAGTGACCCCTGACTTGCGCCCCAGATGTCATTCATGCCCAATCAAAGG-CCTGCCACACATCTTCAGGgtgagtaagctaggtgatataggtttagcctcaggccccagccagccata Alignment from Pairagon GGACCCCCAGTTCTCAGCCACCCCTGTCTTG-GCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgatgagtgtgaacaatcaacatggatcacctcctctgctaccctcacagGGATCCCCAGTTTTCAGTGACCCCTGACTTGCGCCCCAGATGTCATTCATGCCCAATCAAAGG-CCTGCCACACATCTTCAGGgtgagtaagctaggtgatataggtttagcctcaggccccagccagccata Alignment from Exonerate_protein2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgatgagtgtgaacaatcaacatggatcacctcctctgctaccctcacagGGATCCCCAGTTTTCAGTGACCCCTGACTTGCGCCCCAGATGTCATTCATGCCCAATCAAAGGCCTGCCACACATCTTCAGGgtgagtaagctaggtgatataggtttagcctcaggccccagccagccata Alignment from Exonerate_coding2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgatgagtgtgaacaatcaacatggatcacctcctctgctaccctcacagGGATCCCCAGTTTTCAGTGACCCCTGACTTGCGCCCCAGATGTCATTCATGCCCAATCAAAGGCCTGCCACACATCTTCAGGgtgagtaagctaggtgatataggtttagcctcaggccccagccagccata Alignment from GeneWise GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgatgagtgtgaacaatcaacatggatcacctcctctgctaccctcacagGGATCCCCAGTTTTCAGTGACCCCTGACTTGCGCCCCAGATGTCATTCATGCCCAATCAAAGGCCTGCCACACATCTTCAGGgtgagtaagctaggtgatataggtttagcctcaggccccagccagccata #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTC-ATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG acaccaataactaattgcagctatttattggtctttccgttctcttgcaggGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTTCATTCCACCACCAACCAACTTAATCCACCTGGTCCATGTGGGGC-TACAGAGGGGAGGTCCAACACTAGGGATGGGACACGTgtactgctggagtaggagatcacctaacctgtcacaaagcttcaatcatg Alignment from CESAR gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAG-TTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG acaccaataactaattgcagctatttattggtctttccgttctcttgcaggGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTTCATTCCACCACCAACCAACTTAATCCACCTGGTCCATG-TGGGGCTACAGAGGGGAGGTCCAACACTAGGGATGGGACACGTgtactgctggagtaggagatcacctaacctgtcacaaagcttcaatcatg Alignment from Spaln_aa2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG acaccaataactaattgcagctatttattggtctttccgttctcttgcagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTTCATTCCACCACCAACCAACTTAATCCACCTGGTCCATGTGGGGCTACAGAGGGGAGGTCCAACACTAGGGATGGGACACGTgtactgctggagtaggagatcacctaacctgtcacaaagcttcaatcatg Alignment from Spaln_nt2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTT-CATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG acaccaataactaattgcagctatttattggtctttccgttctcttgcagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTTCATTCCACCACCAACCAACTTAATCCACCTGGTCCATGTGGGG-CTACAGAGGGGAGGTCCAACACTAGGGATGGGACACGTgtactgctggagtaggagatcacctaacctgtcacaaagcttcaatcatg Alignment from Pairagon GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAG-TTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG acaccaataactaattgcagctatttattggtctttccgttctcttgcagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTTCATTCCACCACCAACCAACTTAATCCACCTGGTCCATGTGGG-GCTACAGAGGGGAGGTCCAACACTAGGGATGGGACACGTgtactgctggagtaggagatcacctaacctgtcacaaagcttcaatcatg Alignment from Exonerate_protein2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG acaccaataactaattgcagctatttattggtctttccgttctcttgcagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTTCATTCCACCACCAACCAACTTAATCCACCTGGTCCATGTGGGGCTACAGAGGGGAGGTCCAACACTAGGGATGGGACACGTgtactgctggagtaggagatcacctaacctgtcacaaagcttcaatcatg Alignment from Exonerate_coding2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG acaccaataactaattgcagctatttattggtctttccgttctcttgcagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTTCATTCCACCACCAACCAACTTAATCCACCTGGTCCATGTGGGGCTACAGAGGGGAGGTCCAACACTAGGGATGGGACACGTgtactgctggagtaggagatcacctaacctgtcacaaagcttcaatcatg Alignment from GeneWise GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG acaccaataactaattgcagctatttattggtctttccgttctcttgcagGGAGATGCTGAAAGACCCCTTTGTGCGGTTCAAATTTCATTCCACCACCAACCAACTTAATCCACCTGGTCCATGTGGGGCTACAGAGGGGAGGTCCAACACTAGGGATGGGACACGTgtactgctggagtaggagatcacctaacctgtcacaaagcttcaatcatg #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCG-TCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGCCATGTTCAGACCTCACAAACTCATTTT-TGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from CESAR ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAG-CGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaCCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGCCATGTTCAGACCTCACAAACTCATTT-TTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Spaln_aa2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGCCATGTTCAGACCTCACAAACTCATTTTTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Spaln_nt2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAG-CGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGCCATGTTCAGACCTCACAAACTCATT-TTTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTC------------------GTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG cagctggcctggtaatgggttatttggcgtgttttattgctttctggtagGACCAAGGACTTTACTAACTCAGCCTTCAGAGTCACCTAAAACACAAGCCATGT-----------------TCAGACCTCACAAACTCATT-TTTGAAACCTGGCAACGGgtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Exonerate_protein2genome cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaccaaggactttactaactcagccttcagagtcacctaaaacacaagccatgttcagacctcacaaactcatttttgaaacctggcaacgggtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from Exonerate_coding2genome cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaccaaggactttactaactcagccttcagagtcacctaaaacacaagccatgttcagacctcacaaactcatttttgaaacctggcaacgggtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt Alignment from GeneWise cagctggcctggtaatgggttatttggcgtgttttattgctttctggtaggaccaaggactttactaactcagccttcagagtcacctaaaacacaagccatgttcagacctcacaaactcatttttgaaacctggcaacgggtgcgcactgacttccctggtctgaaagcagctgcatacatcacaatttt #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTG-CTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gtggagcccaacccctattggggtttaatgtactctgccttgctctgcagGCAATGAAGCCACCAGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCC-ACCCACATATGCTGGTAGTAAAAGTTCCATGGACCGCCTGAAGAGAggtcagtgcattcaagggtaagccatgacaggacagcataattgaaaaagt Alignment from CESAR GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTG-CTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg gtggagcccaacccctattggggtttaatgtactctgccttgctctgcagGCAATGAAGCCACCAGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCCTGTCTGTTATAGAGGAGATGGGCAAGGAAATC-CACCCACATATGCTGGTAGTAAAAGTTCCATGGACCGCCTGAAGAGAggtcagtgcattcaagggtaagccatgacaggacagcataattgaaaaagt Alignment from Spaln_aa2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gtggagcccaacccctattggggtttaatgtactctgccttgctctgcagGCAATGAAGCCACCAGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCACCCACATATGCTGGTAGTAAAAGTTCCATGGACCGCCTGAAGAGAGgtcagtgcattcaagggtaagccatgacaggacagcataattgaaaaagt Alignment from Spaln_nt2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTG-CTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gtggagcccaacccctattggggtttaatgtactctgccttgctctgcagGCAATGAAGCCACCAGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCC-ACCCACATATGCTGGTAGTAAAAGTTCCATGGACCGCCTGAAGAGAGgtcagtgcattcaagggtaagccatgacaggacagcataattgaaaaagt Alignment from Pairagon ---------------------------------------------TACAGGCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTG-CTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG GTGGAGCCCAACCCCTATTGGGGTTTAATGTACTCTGCCTTGCTCTGCAGGCAATGAAGCCACCAGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCA-CCCACATATGCTGGTAGTAAAAGTTCCATGGACCGCCTGAAGAGAGgtcagtgcattcaagggtaagccatgacaggacagcataattgaaaaagt Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gtggagcccaacccctattggggtttaatgtactctgccttgctctgcagGCAATGAAGCCACCAGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCACCCACATATGCTGGTAGTAAAAGTTCCATGGACCGCCTGAAGAGAGgtcagtgcattcaagggtaagccatgacaggacagcataattgaaaaagt Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gtggagcccaacccctattggggtttaatgtactctgccttgctctgcagGCAATGAAGCCACCAGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCACCCACATATGCTGGTAGTAAAAGTTCCATGGACCGCCTGAAGAGAGgtcagtgcattcaagggtaagccatgacaggacagcataattgaaaaagt Alignment from GeneWise GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG gtggagcccaacccctattggggtttaatgtactctgccttgctctgcagGCAATGAAGCCACCAGGTTCCCAGGGCTCTCAGCGCACCTTCACCGACCTGCCTGTCTGTTATAGAGGAGATGGGCAAGGAAATCCACCCACATATGCTGGTAGTAAAAGTTCCATGGACCGCCTGAAGAGAGgtcagtgcattcaagggtaagccatgacaggacagcataattgaaaaagt #### Cep78_ID3983_3 --> 0 - 1 Original Alignment GGACTGAGTAAATCAACCTCT-TTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAa gcccttttggccatctcgataagtagattgtgcgacccttctcctgacagGGATTGAGCAAATCAACCTCTCCTGGTGCACTTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAagtaatgtgatgtattttataactattcttggtgcctctcatatgcatcca Alignment from CESAR GGACTGAGTAAATCAACCTCT-TTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAa gcccttttggccatctcgataagtagattgtgcgacccttctcctgacagGGATTGAGCAAATCAACCTCTCCTGGTGCACTTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAagtaatgtgatgtattttataactattcttggtgcctctcatatgcatcca Alignment from Spaln_aa2Genome GGACTGAGTAAATCAACCTCT-TTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA gcccttttggccatctcgataagtagattgtgcgacccttctcctgacagGGATTGAGCAAATCAACCTCTcCTGGTGCACTTGTCTCTTGCAAATTGCCCAAT-GGAGATGGAGGGTTAGAAAgtaatgtgatgtattttataactattcttggtgcctctcatatgcatcca Alignment from Spaln_nt2Genome GGACTGAGTAAATCAACCTCTT-TGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA gcccttttggccatctcgataagtagattgtgcgacccttctcctgacagGGATTGAGCAAATCAACCTCTCCTGGTGCACTTGTCTCTTGCAAATTGCCCAAT-GGAGATGGAGGGTTAGAAAgtaatgtgatgtattttataactattcttggtgcctctcatatgcatcca Alignment from Pairagon ----------------------------------------------AAAGGGACTGAGTAAATCAACCTCT-TTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA GCCCTTTTGGCCATCTCGATAAGTAGATTGTGCGACCCTTCTCCTGACAGGGATTGAGCAAATCAACCTCTCCTGGTGCACTTGTCTCTTGCAAATTGCCCAA-TGGAGATGGAGGGTTAGAAAgtaatgtgatgtattttataactattcttggtgcctctcatatgcatcca Alignment from Exonerate_protein2genome GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA gcccttttggccatctcgataagtagattgtgcgacccttctcctgacagGGATTGAGCAAATCAACCTCTCCTGGTGCACTTGTCTCTTGCAAATTGCCCAATGGAGATGGAGGGTTAGAAAgtaatgtgatgtattttataactattcttggtgcctctcatatgcatcca Alignment from Exonerate_coding2genome gcccttttggccatctcgataagtagattgtgcgacccttctcctgacagggattgagcaaatcaacctctcctggtgcacttgtctcttgcaaattgcccaatggagatggagggttagaaagtaatgtgatgtattttataactattcttggtgcctctcatatgcatcca Alignment from GeneWise GGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAA gcccttttggccatctcgataagtagattgtgcgacccttctcctgacagGGATTGAGCAAATCAACCTCTCCTGGTGCACTTGTCTCTTGCAAATTGCCCAATGGAGATGGAGGGTTAGAAAgtaatgtgatgtattttataactattcttggtgcctctcatatgcatcca #### Chuk_ID8919_9 --> 1 - 0 Original Alignment tTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAA-TTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATTGATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAG gttgtaaaattaatgtggcacatgggatttctgtctctttggcattctagtCTAATAGTAGAACCAATGGAAAGCTGGCTCCAACTTGATGCTAAACTGGGAGCCACAGCAAAGAGGTGGACCCATAG-GCTCACATTGAAGCAACCTAGGTGTTTTGCCCTAATGAAACAGATCCTTAATCTAAAGgtaagttacttgggtgcagcatatcagtgcaagtagaatgacactgacag Alignment from CESAR tTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAA-TTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATTGATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAG gttgtaaaattaatgtggcacatgggatttctgtctctttggcattctagtCTAATAGTAGAACCAATGGAAAGCTGGCTCCAACTTGATGCTAAACTGGGAGCCACAGCAAAGAGGTGGACCCATA-GGCTCACATTGAAGCAACCTAGGTGTTTTGCCCTAATGAAACAGATCCTTAATCTAAAGgtaagttacttgggtgcagcatatcagtgcaagtagaatgacactgacag Alignment from Spaln_aa2Genome TTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAA-TTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATTGATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAG gttgtaaaattaatgtggcacatgggatttctgtctctttggcattctagTCTAATAGTAGAACCAATGGAAAGCTGGCTCCAAcTTGATGCTAAACTGGGAGCCACAGCAAAGAGGTGGACCCATAGG-CTCACATTGAAGCAACCTAGGTGTTTTGCCCTAATGAAACAGATCCTTAATCTAAAGgtaagttacttgggtgcagcatatcagtgcaagtagaatgacactgacag Alignment from Spaln_nt2Genome TTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAA-TTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATTGATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAG gttgtaaaattaatgtggcacatgggatttctgtctctttggcattctagTCTAATAGTAGAACCAATGGAAAGCTGGCTCCAACTTGATGCTAAACTGGGAGCCACAGCAAAGAGGTGGACCCATAG-GCTCACATTGAAGCAACCTAGGTGTTTTGCCCTAATGAAACAGATCCTTAATCTAAAGgtaagttacttgggtgcagcatatcagtgcaagtagaatgacactgacag Alignment from Pairagon TTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAA-TTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATTGATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAG gttgtaaaattaatgtggcacatgggatttctgtctctttggcattctagTCTAATAGTAGAACCAATGGAAAGCTGGCTCCAACTTGATGCTAAACTGGGAGCCACAGCAAAGAGGTGGACCCATAGG-CTCACATTGAAGCAACCTAGGTGTTTTGCCCTAATGAAACAGATCCTTAATCTAAAGgtaagttacttgggtgcagcatatcagtgcaagtagaatgacactgacag Alignment from Exonerate_protein2genome TTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAA-TTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATT--GATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAG gttgtaaaattaatgtggcacatgggatttctgtctctttggcattctagTCTAATAGTAGAACCAATGGAAAGCTGGCTCCAACTTGATGCTAAACTGGGAGCCACAGCAAAGAGGTGGACCCATAGG---CTCACATTGAAGCAACCTAGGTGTTTTGCCCTAATGAAACAGATCCTTAATCTAAAGgtaagttacttgggtgcagcatatcagtgcaagtagaatgacactgacag Alignment from Exonerate_coding2genome TTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAA-TTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATT--GATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAG gttgtaaaattaatgtggcacatgggatttctgtctctttggcattctagTCTAATAGTAGAACCAATGGAAAGCTGGCTCCAACTTGATGCTAAACTGGGAGCCACAGCAAAGAGGTGGACCCATAGG---CTCACATTGAAGCAACCTAGGTGTTTTGCCCTAATGAAACAGATCCTTAATCTAAAGgtaagttacttgggtgcagcatatcagtgcaagtagaatgacactgacag Alignment from GeneWise TTTAATAGTAGAGCCAATGGAAAGCTGGCTCCAA-TTGATGCTGAATTGGGACCCACAGCAGAGAGGGGGACCTATTGATCTTACTTTGAAGCAGCCAAGATGTTTTGCATTAATGGATCACATTCTCAATTTAAAG gttgtaaaattaatgtggcacatgggatttctgtctctttggcattctagTCTAATAGTAGAACCAATGGAAAGCTGGCTCCAACTTGATGCTAAACTGGGAGCCACAGCAAAGAGGTGGACCCATAGG-CTCACATTGAAGCAACCTAGGTGTTTTGCCCTAATGAAACAGATCCTTAATCTAAAGgtaagttacttgggtgcagcatatcagtgcaagtagaatgacactgacag #### Chuk_ID8921_7 --> 0 - 2 Original Alignment GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCC-ACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTCACTGTGGATTATTGGAGCTTTGGTACCATGG-TTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCtggtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from CESAR GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCC-ACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTCACTGTGGATTATTGGAGCTTTGGTACCATGG-TTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCtggtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTCACTGTGGATTATTGGAGCTTTGGTACCATGGTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Spaln_nt2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGC-CACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTCACTGTGGATTATTGGAGCTTTGGTACCATGGT-TTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Pairagon GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGC-CACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTCACTGTGGATTATTGGAGCTTTGGTACCATGGT-TTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCC-ACTGTGGATTATTGGAGCTTTGGGACCATG--GTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTCACTGTGGATTATTGGAGCTTTGGTACCATGGT---TTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCC-ACTGTGGATTATTGGAGCTTTGGGACCATG--GTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTCACTGTGGATTATTGGAGCTTTGGTACCATGGT---TTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta Alignment from GeneWise GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttctcaaaagtctaagctttatagttccaatttttaactaccttttttagGCACCAGACCTCTTTGAAAATAAGCCATACACAGCTCACTGTGGATTATTGGAGCTTTGGTACCATGGTTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTACAGCCATTTACCTGgtaggtcagtgctatttgttgttggggagaactcccagttacatgaggta #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment ccGCTGGTTTGTCCTCC-ATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa aaccatgtcctgcctaatgctgttttgtccctttcttcttctgcccttagccACAAGTTTGTCATCCCACCCCAGGCCCTGCAGGTCCATCGGGGCCAC-AGCTCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCCTCTACATATGCTGCAGAGAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAagtatgaatcgtggtcactagtgcgttcggccagacacaagtgaaactact Alignment from CESAR ccGCTGGTTTGTCCTCC-ATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa aaccatgtcctgcctaatgctgttttgtccctttcttcttctgcccttagccACAAGTTTGTCATCCCACCCCAGGCCCTGCAGGTCCATCGGGGCCACAG-CTCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCCTCTACATATGCTGCAGAGAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAagtatgaatcgtggtcactagtgcgttcggccagacacaagtgaaactact Alignment from Spaln_aa2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaccatgtcctgcctaatgctgttttgtccctttcttcttctgcccttagCCACAAGTTTGTCATCCCACCCCAGGCCCTGCAGGTCCATCGGGGCCACAGCTCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCCTCTACATATGCTGCAGAGAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtatgaatcgtggtcactagtgcgttcggccagacacaagtgaaactact Alignment from Spaln_nt2Genome CCGCTGGTTTGTCCTCC-ATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaccatgtcctgcctaatgctgttttgtccctttcttcttctgcccttagCCACAAGTTTGTCATCCCACCCCAGGCCCTGCAGGTCCATC-GGGGCCACAGCTCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCCTCTACATATGCTGCAGAGAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtatgaatcgtggtcactagtgcgttcggccagacacaagtgaaactact Alignment from Pairagon CCGCTGGTTTGTCCT-CCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaccatgtcctgcctaatgctgttttgtccctttcttcttctgcccttagCCACAAGTTTGTCATCCCACCCCAGGCCCTGCAGGTCCATC-GGGGCCACAGCTCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCCTCTACATATGCTGCAGAGAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtatgaatcgtggtcactagtgcgttcggccagacacaagtgaaactact Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaccatgtcctgcctaatgctgttttgtccctttcttcttctgcccttagCCACAAGTTTGTCATCCCACCCCAGGCCCTGCAGGTCCATCGGGGCCACAGCTCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCCTCTACATATGCTGCAGAGAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtatgaatcgtggtcactagtgcgttcggccagacacaagtgaaactact Alignment from Exonerate_coding2genome aaccatgtcctgcctaatgctgttttgtccctttcttcttctgcccttagccacaagtttgtcatcccaccccaggccctgcaggtccatcggggccacagctccccgagggccccctggggtttcaactgcctcctctacatatgctgcagagaacagtgataacttccgatgtgagctgattagttacctcacaagtatgaatcgtggtcactagtgcgttcggccagacacaagtgaaactact Alignment from GeneWise CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA aaccatgtcctgcctaatgctgttttgtccctttcttcttctgcccttagCCACAAGTTTGTCATCCCACCCCAGGCCCTGCAGGTCCATCGGGGCCACAGCTCCCCGAGGGCCCCCTGGGGTTTCAACTGCCTCCTCTACATATGCTGCAGAGAACAGTGATAACTTCCGATGTGAGCTGATTAGTTACCTCACAAgtatgaatcgtggtcactagtgcgttcggccagacacaagtgaaactact #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gtGACAACATCAGGACTTATCTCTCAGGGGTT-CAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt agtctgaaactgtgtgtatccaggatgtgtttctttttgtttgctttcaggtGGTAATATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGGA------------CCTGGATCAG-AATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAAagtaaggttcagtggttttcgcatcctcaggatatgtccaaatcgagataa Alignment from CESAR gtGACAACATCAGGACTTATCTCTCAGGGGTT-CAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt agtctgaaactgtgtgtatccaggatgtgtttctttttgtttgctttcaggtGGTAATATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGGA------------CCTGGATCA-GAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAAagtaaggttcagtggttttcgcatcctcaggatatgtccaaatcgagataa Alignment from Spaln_aa2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtgtgtatccaggatgtgtttctttttgtttgctttcagGTGGTAATATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGG------------ACCTGGATCAGAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAAAgtaaggttcagtggttttcgcatcctcaggatatgtccaaatcgagataa Alignment from Spaln_nt2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTC-AGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtgtgtatccaggatgtgtttctttttgtttgctttcagGTGGTAATATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGG---ACCTGG---ATCAG-------AATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAAAgtaaggttcagtggttttcgcatcctcaggatatgtccaaatcgagataa Alignment from Pairagon GTGACAACATCAGGACTTATCTCTCAGGGGTT-CAGGGTCCCCCAGGCCC--------ACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGTCATCAG agtctgaaactgtgtgtatccaggatgtgtttctttttgtttgctttcagGTGGTAATATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGGACCTGGATCAGA---------------------ATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAA----------------------GTCATGAAgttagctacctacaaagtaaggttcagtggttttcgcatcctcaggatatgtccaaatcgagataa Alignment from Exonerate_protein2genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtgtgtatccaggatgtgtttctttttgtttgctttcagGTGGTAATATCAGGACAGATCTGCTAGGAGTT---------CCAGGGGCCCCCTGGACCTGGATCAGA---ATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAAAgtaaggttcagtggttttcgcatcctcaggatatgtccaaatcgagataa Alignment from Exonerate_coding2genome agtctgaaactgtgtgtatccaggatgtgtttctttttgtttgctttcaggtggtaatatcaggacagatctgctaggagttccaggggccccctggacctggatcagaatcactattaagggagagacttttgattactctcaactggcaagtcatgaagttagctacctacaaagtaaggttcagtggttttcgcatcctcaggatatgtccaaatcgagataa Alignment from GeneWise GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT agtctgaaactgtgtgtatccaggatgtgtttctttttgtttgctttcagGTGGTAATATCAGGACAGATCTGCTAGGAGTTCCAGGGGCCCCCTGGACC------------TGGATCAGAATCACTATTAAGGGAGAGACTTTTGATTACTCTCAACTGGCAAGTCATGAAGTTAGCTACCTACAAAgtaaggttcagtggttttcgcatcctcaggatatgtccaaatcgagataa #### Col17a1_ID10288_34 --> 2 - 1 Original Alignment agGGATCATCAACAATCACTGTGCCCGGA-CCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagaaGGATCCTCAACCACCACTGTCCCTGGGCACTCCTGGGCCTTCAGGTGCCATGGATCCTC-TGGGCCTCCAGGGACGCTTagtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from CESAR agGGATCATCAACAATCACTGTGCCCGGA-CCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagaaGGATCCTCAACCACCACTGTCCCTGGGCACTCCTGGGCCTTCAGGTGCCA-TGGATCCTCTGGGCCTCCAGGGACGCTTagtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Spaln_aa2Genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagAAGGATCCTCAACCACCACTGTCCCTGGGCACTCCTGGGCCTTCAGGTGCCATGGATCCTCTGGGCCTCCAGGGACGCTTAgtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Spaln_nt2Genome AGGGATCATCAACAATCACTGTGCCCGGAC-CTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagAAGGATCCTCAACCACCACTGTCCCTGGGCACTCCTGGGCCTTCAGGTGCCATGGAT-CCTCTGGGCCTCCAGGGACGCTTAgtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Pairagon AGGGATCATCAACAATCACTGTGCCCGGAC-CTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagAAGGATCCTCAACCACCACTGTCCCTGGGCACTCCTGGGCCTTCAGGTGCCATGGATCCTCT-GGGCCTCCAGGGACGCTTAgtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Exonerate_protein2genome GATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAGGTCCAGCTGGCCCTGCTG CCTAGTTGAGGATAGTGTAACATGGCATATTCTCATCACCCTCTCTTTAGAAGGATCCTCAACCACCACTGTCCCTGGGCACTCCTGGGCCTTCAGgtgccatggatcctctgggcctccagggacgcttagtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from Exonerate_coding2genome cctagttgaggatagtgtaacatggcatattctcatcaccctctctttagaaggatcctcaaccaccactgtccctgggcactcctgggccttcaggtgccatggatcctctgggcctccagggacgcttagtgagtttttgccaacaaatcaacaataatttacataaaaactgatagga Alignment from GeneWise GCGAACCCGGCGCTCCCGGCAGAGTCATGACTTCA---------GAGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAGGT-- cctagTTGAGGATAGTGTAACATGGCATATTCTCATCACCCTCTCTTTAGAAGGATCCTCAACCACCACTGTCCCTGGGCACTCCTGGGCCTTCAGGTGCCATGGATCCTCTGGGCCTCCAGGGACGCTTAGTGAgtttttgccaacaaatcaacaataatttacataaaaactgatagga #### Col17a1_ID10300_22 --> 2 - 1 Original Alignment gaGATCCTGGCATGGAA-GGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg taactatctgtactggtgactctttcttaccccatctcttctccccaaaggaGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGATTAGCAGGTC-CATGGGGCCCATTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAggtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from CESAR gaGATCCTGGCATGGAA-GGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAg taactatctgtactggtgactctttcttaccccatctcttctccccaaaggaGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGATTAGCAGGTC-CATGGGGCCCATTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAggtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Spaln_aa2Genome GAGATCCTGGCATGGAA-GGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAAcGCACCAATAGGCCAGAGAGGATTAGCAGGTCC-ATGGGGCCCATTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Spaln_nt2Genome GAGATCCTGGCATGGAAGG-ACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGATTAGCAGG-TCCATGGGGCCCATTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Pairagon GAGATCCTGGCATGGAA-GGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGATTAGCAGG-TCCATGGGGCCCATTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Exonerate_protein2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGATTAGCAGGTCCATGGGGCCCATTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from Exonerate_coding2genome GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGATTAGCAGGTCCATGGGGCCCATTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta Alignment from GeneWise GAGATCCTGGCATGGAAGGACCCATAGGCCAGAGAGGACTAGCAGGCCCCATGGGACCTCGTGGTGAACCCGGGCCTCCTGGGTCTGGAGAGAAAGGAGACAGAG taactatctgtactggtgactctttcttaccccatctcttctccccaaagGAGACCCAGGCATGGAACGCACCAATAGGCCAGAGAGGATTAGCAGGTCCATGGGGCCCATTGGTGAACCAGGGCCTCCTGGATCTGGGGAGAAAGGAGACCAAGgtaggtgtcaccatcaaagataacgcagtgacctgcatcttattgttgta #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATTGACAAGGCCTACCCGACAGTG-TGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTC-ACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from CESAR ACGGGCCGCATTGACAAGGCCTACCCGACAGTG-TGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGT-CACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Spaln_aa2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Spaln_nt2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTG-TGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGT-CACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Pairagon ACGGGCCGCATTGACAAGGCCTACCCGACAGT-GTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGT-CACACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Exonerate_protein2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTG-TGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGT--CCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCA---CACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from Exonerate_coding2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTG-TGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGT--CCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCA---CACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag Alignment from GeneWise ACGGGCCGCATTGACAAGGCCTACCCGACA-GTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG atgtctgagccaaaatgcttgagaccagctcgcttttgtttgccttctagACTGGCCATGTGGACAAGGCATTCCCAACAGTCCTGTGGACACACAGGGTCTGTTCTAGATATAGACTGGTGTCA-CACAATGATGAAGTCATTGCCAGTGGAGCAGAAGATTGTACTGTTACTgtgagtaaaacctgttcagtttttattgtttcaagtgcaccaacttccag #### Coro1b_ID353_3 --> 0 - 1 Original Alignment GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGC-GTGGGCATTATCACCTGGCAC---CCCACAGCCCGAAATGTGCTTCTCAGTGCAg aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCCTGGGTATTGCCACTTGGCATCCTCCTACTG-CCAAATTGTGATTCTTGGTGCTggtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from CESAR GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC-GTG---GGCATTATCACCTGGCAC---CCCACAGCCCGAAATGTGCTTCTCAGTGCAg aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCCTGGGTATTGCCACTTGGCATCCTCCTACTGCCAAA-TTGTGATTCTTGGTGCTggtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Spaln_aa2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCAAGCGCGTGGGCATTATCACCTGGCACCCCACAGCC---------CGAAATGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTG---ACCCCATTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCCTGGGTATTGCCACTTGGCATCCTCCTACTGCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Spaln_nt2Genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCA---AGCG----CGTGGGCATTATCACCTGGCACCCCACAGC--CCGAAATGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGA---CCCCATTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCCTGGGTATTGCCACTTGGCATCCTCCTACTGCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Pairagon GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCAAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAA-------------------------------------------------TGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGA---CCCCATTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATAC----------------------------------------AATTAAACGACATCCTGGGTATTGCCACTTGGCATCCTCCTACTGCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Exonerate_protein2genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC----GTGGGCATTATCACCTGGCACCCCACAGCCCGAAAT--GTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCCTGGGTATTGCCACTTGGCATCCTCCTACTGCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from Exonerate_coding2genome GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAGCGC----GTGGGCATTATCACCTGGCACCCCACAGCCCGAAAT--GTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCCTGGGTATTGCCACTTGGCATCCTCCTACTGCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc Alignment from GeneWise GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCAAGCGCGTGGGCATTATCACCTGGCACCCCACAGCC---------CGAAATGTGCTTCTCAGTGCAG aatagtaccctttcttgatgattgaccccacctgttgctgcatcctctagATCTGGCAGATCCCAGAGAATGGTTTGACC---CCATTGACAGAGCCTGTAGTTGTGCCTGAGGGGCATACAATTAAACGACATCCTGGGTATTGCCACTTGGCATCCTCCTACTGCCAAATTGTGATTCTTGGTGCTGgtgagcttattatgcctagaccatgctctctacactaatgtccgttcagc #### Coro1b_ID354_4 --> 2 - 0 Original Alignment gtTGTGACAATGTGGTACTTATCTGGAAT-GTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA GA atttagttcataataaactcatttgcactttcttgcccttctctctgcagggTGTGATAATGTGCTACTTATTTGGAATCGTGGATGCCGCCGAAGACCTGTACCGTTTGG-CAGTTTGCATCCCGACCTTGCTTATAATGTCAGTTGGAACCACATTGGAAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtgagaacaaatgagtatcctgttttcagctgtccctctcttgggcagGA Alignment from CESAR gtTGTGACAATGTGGTACTTATCTGGAAT-GTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA GA atttagttcataataaactcatttgcactttcttgcccttctctctgcagggTGTGATAATGTGCTACTTATTTGGAATCGTGGATGCCGCCGAAGACCTGTACCGTTTG-GCAGTTTGCATCCCGACCTTGCTTATAATGTCAGTTGGAACCACATTGGAAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtgagaacaaatgagtatcctgttttatggcaccttctttctcttcagGA Alignment from Spaln_aa2Genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA GA atttagttcataataaactcatttgcactttcttgcccttctctctgcagGGTGTGATAATGTGCTACTTATTTGGAATCGTGGATGCCGCCGAAGACCTGTACCGTTTGGCAGTTTGCATCCCGACCTTGCTTATAATGTCAGTTGGAACCACATTGGAAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtgagaacaaatgagtatcctgttttcagctgtccctctcttgggcagGA Alignment from Spaln_nt2Genome GTTGTGACAATGTGGTACTTATCTGGAAT-GTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA GA atttagttcataataaactcatttgcactttcttgcccttctctctgcagGGTGTGATAATGTGCTACTTATTTGGAATCGTGGATGCCGCCGAAGACCTGTACCGTTTGG-CAGTTTGCATCCCGACCTTGCTTATAATGTCAGTTGGAACCACATTGGAAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtgagaacaaatgagtatcctgttttcagctgtccctctcttgggcagGA Alignment from Pairagon GTTGTGACAATGTGGTACTTATCTGGAAT-GTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA GA atttagttcataataaactcatttgcactttcttgcccttctctctgcagGGTGTGATAATGTGCTACTTATTTGGAATCGTGGATGCCGCCGAAGACCTGTACCGTTTGG-CAGTTTGCATCCCGACCTTGCTTATAATGTCAGTTGGAACCACATTGGAAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtgagaacaaatgagtatcctgttttcagctgtccctctcttgggcagGA Alignment from Exonerate_protein2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA GA atttagttcataataaactcatttgcactttcttgcccttctctctgcagGGTGTGATAATGTGCTACTTATTTGGAATCGTGGATGCCGCCGAAGACCTGTACCGTTTGGCAGTTTGCATCCCGACCTTGCTTATAATGTCAGTTGGAACCACATTGGAAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtgagaacaaatgagtatcctgttttcagctgtccctctcttgggcagGA Alignment from Exonerate_coding2genome GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA GA atttagttcataataaactcatttgcactttcttgcccttctctctgcagGGTGTGATAATGTGCTACTTATTTGGAATCGTGGATGCCGCCGAAGACCTGTACCGTTTGGCAGTTTGCATCCCGACCTTGCTTATAATGTCAGTTGGAACCACATTGGAAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAgtgagaacaaatgagtatcctgttttcagctgtccctctcttgggcagGA Alignment from GeneWise GTTGTGACAATGTGGTACTTATCTGGAATGTGGGCACTGCAGAGGAGCTGTACCGTCTGGACAGCTTGCACCCCGACCTCATCTACAACGTGAGCTGGAACCACAATGGCAGCCTCTTTTGCTCAGCTTGCAAGGACAAGAGCGTCCGAATCATCGATCCTAGGCGGGGCACCCTGGTGGCA------------------------------------------------GA atttagttcataataaactcatttgcactttcttgcccttctctctgcagGGTGTGATAATGTGCTACTTATTTGGAATCGTGGATGCCGCCGAAGACCTGTACCGTTTGGCAGTTTGCATCCCGACCTTGCTTATAATGTCAGTTGGAACCACATTGGAAGCTTCTTTTGTTCAGCCTGCAAAGACAAGAGTGTTCGGATCACTGATCCTAGGCGGGATACCTTGGTTGCAGTGAGAACAAATGAGTATCCTGTTTTCAGCTGTCCCTCTCTTGGGCAGGA #### Coro1b_ID357_7 --> 0 - 2 Original Alignment GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCC-CAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag gatactaagggacattcctttaattacttgtcacgtgcattattccacagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATGAACCC---CACATCCAGTTCTTGATCACATTTGCCAGCAAAGAACCCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCA-CAAGTGTGAAATAGCCcggtaacaacaatcagtggttgtacatcagttatctcagtcttagttgaaac Alignment from CESAR GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAA-CCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag gatactaagggacattcctttaattacttgtcacgtgcattattccacagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATGAA---CCCCACATCCAGTTCTTGATCACATTTGCCAGCAAAGAACCCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTC-ACAAGTGTGAAATAGCCcggtaacaacaatcagtggttgtacatcagttatctcagtcttagttgaaac Alignment from Spaln_aa2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCC-CAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG gatactaagggacattcctttaattacttgtcacgtgcattattccacagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATGAA---CCCCACATCCAGTTCTTGATCACATTTGCCAGCAAAGAACCCcCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCAC-AAGTGTGAAATAGCCCGgtaacaacaatcagtggttgtacatcagttatctcagtcttagttgaaac Alignment from Spaln_nt2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAA-CCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG gatactaagggacattcctttaattacttgtcacgtgcattattccacagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATGAA---CCCCACATCCAGTTCTTGATCACATTTGCCAGCAAAGAACCCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCA-CAAGTGTGAAATAGCCCGgtaacaacaatcagtggttgtacatcagttatctcagtcttagttgaaac Alignment from Pairagon GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAA-CCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG gatactaagggacattcctttaattacttgtcacgtgcattattccacagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATGAACCCC---ACATCCAGTTCTTGATCACATTTGCCAGCAAAGAACCCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCA-CAAGTGTGAAATAGCCCGgtaacaacaatcagtggttgtacatcagttatctcagtcttagttgaaac Alignment from Exonerate_protein2genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG gatactaagggacattcctttaattacttgtcacgtgcattattccacagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATGAA---CCCCACATCCAGTTCTTGATCACATTTGCCAGCAAAGAACCCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCACAAGTGTGAAATAGCCCGgtaacaacaatcagtggttgtacatcagttatctcagtcttagttgaaac Alignment from Exonerate_coding2genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG gatactaagggacattcctttaattacttgtcacgtgcattattccacagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATGAA---CCCCACATCCAGTTCTTGATCACATTTGCCAGCAAAGAACCCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCACAAGTGTGAAATAGCCCGgtaacaacaatcagtggttgtacatcagttatctcagtcttagttgaaac Alignment from GeneWise GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG gatactaagggacattcctttaattacttgtcacgtgcattattccacagGGTGATTCTAGTATCCGGTACTTTGAAAACACAGATGAACCC---CACATCCAGTTCTTGATCACATTTGCCAGCAAAGAACCCCCAAAGGGGTATGGGCAGCATGCTGGAGAGGGGCCTGGCAGTCACAAGTGTGAAATAGCCCGgtaacaacaatcagtggttgtacatcagttatctcagtcttagttgaaac #### Crtac1_ID8462_10 --> 2 - 0 Original Alignment ggGGCGTAGTGACCGACTTCGATGGTGATGGGATG-CTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagggGGTGTGGTGACTGATTTTGATGGGGATGGGATGCCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGC-CTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from CESAR ggGGCGTAGTGACCGACTTCGATGGTGATGGGATG-CTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagggGGTGTGGTGACTGATTTTGATGGGGATGGGATGCCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGC-CTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Spaln_aa2Genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Spaln_nt2Genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATG-CTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCC-TTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Pairagon GGGGCGTAGTGACCGACTTCGATGGTGATGGGATG-CTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCC-TTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Exonerate_protein2genome GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from Exonerate_coding2genome ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagggggtgtggtgactgattttgatggggatgggatgcctagatttgatcttatcacatggaaggtccatagctcagccttgtccattttctgtggtaatcaggtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga Alignment from GeneWise GGGGCGTAGTGACCGACTTCGATGGTGATGGGATGCTGGATCTCATCTTGTCACATGGAGAGTCCATGGCTCAGCCACTGTCTGTCTTCCGGGGAAATCAG ccctccttacccaaaaagtgatagcctgactgactctttgtttgaaacagGGGGTGTGGTGACTGATTTTGATGGGGATGGGATGCCTAGATTTGATCTTATCACATGGAAGGTCCATAGCTCAGCCTTGTCCATTTTCTGTGGTAATCAGgtaagtaacacttttacccctacatgagaatgcaggtactacaggacaga #### Csf2ra_ID13431_9 --> 2 - 2 Original Alignment agGCTGAGGACACGCGAGTGCCC-GGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGag caacaggcagccagattcctgagtgccaggctaaaaacttcttaacttagatGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCTGTCTTAC-ATGTGCATTAGTACTGGGAGTGACTTGCAGGaggtatgtctaagggcccaaatgatgaataggttatgcagacagttggctta Alignment from CESAR agGCTGAGGACACGCGAGTGCCC-GGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGag caacaggcagccagattcctgagtgccaggctaaaaacttcttaacttagatGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCTGTCTTA-CATGTGCATTAGTACTGGGAGTGACTTGCAGGaggtatgtctaagggcccaaatgatgaataggttatgcagacagttggctta Alignment from Spaln_aa2Genome AGGCTGAGGACACGCGAGTGCCCGGT---GCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaggcagccagattcctgagtgccaggctaaaaacttcttaacttagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCTGT---CTTACATGTGCATTAGTACTGGGAGTGACTTGCAGGAGgtatgtctaagggcccaaatgatgaataggttatgcagacagttggctta Alignment from Spaln_nt2Genome AGGCTGAGGACACGCGAGTGCC-CGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaggcagccagattcctgagtgccaggctaaaaacttcttaacttagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCTGTCTTAC-ATGTGCATTAGTACTGGGAGTGACTTGCAGGAGgtatgtctaagggcccaaatgatgaataggttatgcagacagttggctta Alignment from Pairagon AGGCTGAGGACACGCGAGTGCC-CGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCC--------------TACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaggcagccagattcctgagtgccaggctaaaaacttcttaacttagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCTGTCTTACATGTGCATTAGTACTG---------------GGAGTGACTTGCAGGAGgtatgtctaagggcccaaatgatgaataggttatgcagacagttggctta Alignment from Exonerate_protein2genome AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaggcagccagattcctgagtgccaggctaaaaacttcttaacttagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCTGTCTTACATGTGCATTAGTACTGGGAGTGACTTGCAGGAGgtatgtctaagggcccaaatgatgaataggttatgcagacagttggctta Alignment from Exonerate_coding2genome caacaggcagccagattcctgagtgccaggctaaaaacttcttaacttagatgcagatgacatgcgggtgcctcggcacactcctctacacagtaactgcttgtgctgtcttacatgtgcattagtactgggagtgacttgcaggaggtatgtctaagggcccaaatgatgaataggttatgcagacagttggctta Alignment from GeneWise AGGCTGAGGACACGCGAGTGCCCGGTGCGCTCCTGTATGCAGTGACAGCCTGCGCAGTCCTACTGTGCGCGCTGGCGCTCGGAGTGACGTGCAGGAG caacaggcagccagattcctgagtgccaggctaaaaacttcttaacttagATGCAGATGACATGCGGGTGCCTCGGCACACTCCTCTACACAGTAACTGCTTGTGCTGTCTTACATGTGCATTAGTACTGGGAGTGACTTGCAGGAGgtatgtctaagggcccaaatgatgaataggttatgcagacagttggctta #### Csf2ra_ID13432_8 --> 0 - 1 Original Alignment GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGC-CCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCACTTTCCCTAGTCCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTG-TACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTggtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from CESAR GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCC-GCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCg ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCACTTTCCCTAGTCCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGT-GTACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTggtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Spaln_aa2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCACTTTCCCTAGTCCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGTACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Spaln_nt2Genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCC-GCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCACTTTCCCTAGTCCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTG-TACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Pairagon GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAG-CCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCACTTTCCCTAGTCCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTG-TACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Exonerate_protein2genome GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGC-CCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGC--GACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCACTTTCCCTAGTCCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGT---ACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from Exonerate_coding2genome ggcccacaaagatatgttctcactcccacttttcttttttttttttttaggccctggttgttgaggagacccgcctcactttccctagtccctgctccccacggatggcacagggtcaaagtccgagcaggtgtactaggatgaagcactgggggaaatgggtgcagcctcttggtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca Alignment from GeneWise GTGCTCGTCGTGGAGGAGACCCGCCTCGCCTTCCCCAGCCCCGCCCCCCACGGAGGTCACAAGGTCAAGGTGCGCGCGGGCGACACGAGGATGAAGCACTGGGGCGAATGGAGTCCCGCCCATCCTCTCG ggcccacaaagatatgttctcactcccacttttcttttttttttttttagGCCCTGGTTGTTGAGGAGACCCGCCTCACTTTCCCTAGTCCCTGCTCCCCACGGATGGCACAGGGTCAAAGTCCGAGCAGGTGTACTAGGATGAAGCACTGGGGGAAATGG------GTGCAGCCTCTTGgtaaaccaattgttttgttttcatacaaatgatatatctattgttcaaca #### Csf2ra_ID13436_4 --> 2 - 2 Original Alignment gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac tgatagaggtagtgttgaattgcagccatttcactttgtccctttctcaggcACTGCAGGCACTGGGGCGGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGG-GCCAGCTGCCCCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtactttgtaaacacccaggtgtctgtctgcagcacattgccactatctt Alignment from CESAR gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCac tgatagaggtagtgttgaattgcagccatttcactttgtccctttctcaggcACTGCAGGCACTGGGGCGGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAG-AGGGCCAGCTGCCCCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAacgtactttgtaaacacccaggtgtctgtctgcagcacattgccactatctt Alignment from Spaln_aa2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcagccatttcactttgtccctttctcagGCACTGCAGGCACTGGGGCGGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGCCAGCTGCCCCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtactttgtaaacacccaggtgtctgtctgcagcacattgccactatctt Alignment from Spaln_nt2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcagccatttcactttgtccctttctcagGCACTGCAGGCACTGGGGCGGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGA-GGGCCAGCTGCCCCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtactttgtaaacacccaggtgtctgtctgcagcacattgccactatctt Alignment from Pairagon GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGA-GCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcagccatttcactttgtccctttctcagGCACTGCAGGCACTGGGGCGGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGA-GGGCCAGCTGCCCCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtactttgtaaacacccaggtgtctgtctgcagcacattgccactatctt Alignment from Exonerate_protein2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcagccatttcactttgtccctttctcagGCACTGCAGGCACTGGGGCGGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGCCAGCTGCCCCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtactttgtaaacacccaggtgtctgtctgcagcacattgccactatctt Alignment from Exonerate_coding2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcagccatttcactttgtccctttctcagGCACTGCAGGCACTGGGGCGGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGCCAGCTGCCCCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtactttgtaaacacccaggtgtctgtctgcagcacattgccactatctt Alignment from GeneWise GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCAC tgatagaggtagtgttgaattgcagccatttcactttgtccctttctcagGCACTGCAGGCACTGGGGCGGAGAACCTAATCTGTGAGATTCGACGCTTCACGCTTTCTTTCCTGTGCTTGGCGAGAGGGCCAGCTGCCCCTGCAGATGTCCAGCACTCACTGCAGGTCCTTAACTCAACgtactttgtaaacacccaggtgtctgtctgcagcacattgccactatctt #### Csf2ra_ID13437_3 --> 0 - 1 Original Alignment CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg atagaatgctctgcgaattaccttaaccgccccttcttctctctcctcagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCATG-TGTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGggtaaggatagatgtcgtgcactccaggttacgcgtactagctatcatatc Alignment from CESAR CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg atagaatgctctgcgaattaccttaaccgccccttcttctctctcctcagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCAT-GTGTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGggtaaggatagatgtcgtgcactccaggttacgcgtactagctatcatatc Alignment from Spaln_aa2Genome CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctctgcgaattaccttaaccgccccttcttctctctcctcagCCCTTTGGTTGCCGCcTGCTGGTTCAGAAGGATGATGGCACTGCACCATGT-GTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtaaggatagatgtcgtgcactccaggttacgcgtactagctatcatatc Alignment from Spaln_nt2Genome CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctctgcgaattaccttaaccgccccttcttctctctcctcagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCA-TGTGTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtaaggatagatgtcgtgcactccaggttacgcgtactagctatcatatc Alignment from Pairagon CCCTTCGGTTGCCG-CTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctctgcgaattaccttaaccgccccttcttctctctcctcagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCAT-GTGTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtaaggatagatgtcgtgcactccaggttacgcgtactagctatcatatc Alignment from Exonerate_protein2genome CCCTTCGGTTGCCGC-TGCTGGTTCAGGAGGATGATGGCGCTGCACCAC--GGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctctgcgaattaccttaaccgccccttcttctctctcctcagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGT---GTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtaaggatagatgtcgtgcactccaggttacgcgtactagctatcatatc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCCTTCGGTTGC-CGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG atagaatgctctgcgaattaccttaaccgccccttcttctctctcctcagCCCTTTGGTTGCCGCCTGCTGGTTCAGAAGGATGATGGCACTGCACCATGT-GTAACACTAGACGTCAATGGCACAGTTGGAGGTGCAGCTGCACATTGGAAGCTCAGCTTTGTTAATGAGGgtaaggatagatgtcgtgcactccaggttacgcgtactagctatcatatc #### Ctsf_ID674_2 --> 0 - 0 Original Alignment GCCGGCCAGGGC-TCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCCTCACTCTTTTCTCTGGAATCCACACTAGATG-GCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from CESAR GCCGGCCAGGGC-TCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCCTCACTCTTTTCTCTGGAATCCACACTAGAT-GGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Spaln_aa2Genome GGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcaggccggccagGGCCTCACTCTTTTCTCTGGAATCCACACTAGATGG-CCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Spaln_nt2Genome GCCGGCCAGGGC-TCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCCTCACTCTTTTCTCTGGAATCCACACTAGATG-GCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Pairagon GCCGGCCAGGG-CTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCCTCACTCTTTTCTCTGGAATCCACACTAGATG-GCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Exonerate_protein2genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCCTCACTCTTTTCTCTGGAATCCACACTAGATGGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from Exonerate_coding2genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCCTCACTCTTTTCTCTGGAATCCACACTAGATGGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt Alignment from GeneWise GCCGGCCAGGGC---TCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG ctaaaaataataaggggaaaggcagcattgggagacatgacccttttcagGCCGGCCAGGGCCTCACTCTTTTCTCTGGAATCCACACT---AGATGGCCCCCTTGCAATGACCCTTTGGTGTGCTCTCTCCCTGAGACAAAGAAGACTGTGgtctggtctccctgagacaaagaagactatggtgatgtagtggttacatt #### Ctsf_ID682_10 --> 2 - 1 Original Alignment gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAAC-TTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa cgtcctttatagcagtccatgaggttgtcaaccctgccctgtctccacagggGGTTTGGAGACGGAAGATGACTATGGCTATCAGGATCATGTTCAGACCTGTAACCTTCTCAGCACAGATGGCAAAAGTCTATGTCAATG-TTTGGTGGAGCTGAGTCAAAATGAAAATagtaagtaagggctaccctaagtaacttagctcttactccccctcccctct Alignment from CESAR gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAAC-TTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa cgtcctttatagcagtccatgaggttgtcaaccctgccctgtctccacagggGGTTTGGAGACGGAAGATGACTATGGCTATCAGGATCATGTTCAGACCTGTAACCTTCTCAGCACAGATGGCAAAAGTCTATGTCAAT-GTTTGGTGGAGCTGAGTCAAAATGAAAATagtaagtaagggctaccctaagtaacttagctccgttcttacctgtctttg Alignment from Spaln_aa2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA cgtcctttatagcagtccatgaggttgtcaaccctgccctgtctccacagGGGGTTTGGAGACGGAAGATGACTATGGCTATCAGGATCATGTTCAGACCTGTAACCTTCTCAGCACAGATGGCAAAAGTCTATGTCAATGTTTGGTGGAGCTGAGTCAAAATGAAAATAgtaagtaagggctaccctaagtaacttagctcttactccccctcccctct Alignment from Spaln_nt2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAAC-TTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA cgtcctttatagcagtccatgaggttgtcaaccctgccctgtctccacagGGGGTTTGGAGACGGAAGATGACTATGGCTATCAGGATCATGTTCAGACCTGTAACCTTCTCAGCACAGATGGCAAAAGTCTATGTCAATG-TTTGGTGGAGCTGAGTCAAAATGAAAATAgtaagtaagggctaccctaagtaacttagctcttactccccctcccctct Alignment from Pairagon GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAA-CTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA cgtcctttatagcagtccatgaggttgtcaaccctgccctgtctccacagGGGGTTTGGAGACGGAAGATGACTATGGCTATCAGGATCATGTTCAGACCTGTAACCTTCTCAGCACAGATGGCAAAAGTCTATGTCAATG-TTTGGTGGAGCTGAGTCAAAATGAAAATAgtaagtaagggctaccctaagtaacttagctcttactccccctcccctct Alignment from Exonerate_protein2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA cgtcctttatagcagtccatgaggttgtcaaccctgccctgtctccacagGGGGTTTGGAGACGGAAGATGACTATGGCTATCAGGATCATGTTCAGACCTGTAACCTTCTCAGCACAGATGGCAAAAGTCTATGTCAATGTTTGGTGGAGCTGAGTCAAAATGAAAATAgtaagtaagggctaccctaagtaacttagctcttactccccctcccctct Alignment from Exonerate_coding2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAAC-TTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA cgtcctttatagcagtccatgaggttgtcaaccctgccctgtctccacagGGGGTTTGGAGACGGAAGATGACTATGGCTATCAGGATCATGTTCAGACCTGTAACCTTCTCAGCACAGATGGCAAAAGTCTATGTCAAT-GTTTGGTGGAGCTGAGTCAAAATGAAAATAgtaagtaagggctaccctaagtaacttagctcttactccccctcccctct Alignment from GeneWise GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA cgtcctttatagcagtccatgaggttgtcaaccctgccctgtctccacagGGGGTTTGGAGACGGAAGATGACTATGGCTATCAGGATCATGTTCAGACCTGTAACCTTCTCAGCACAGATGGCAAAAGTCTATGTCAATGTTTGGTGGAGCTGAGTCAAAATGAAAATAgtaagtaagggctaccctaagtaacttagctcttactccccctcccctct #### Ctsw_ID1017_9 --> 0 - 0 Original Alignment CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGAC-CCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTG-TTTTGGTAAAAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from CESAR CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGAC-CCTCGGCAAGTGGACCACTCTGTCTTGCTG--GTGGGC---TTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGTTTTGGTAAAAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Spaln_aa2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT------CGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGTTTTGGTAAAAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Spaln_nt2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT-CGGCAAGTGGACCACTCTGTCTTGCTGGTGG-----GCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGTTTTGGTAAAAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Pairagon CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT-CGGCAAGTGGACCACTCTGTCTTGCTGGTG-----GGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGTTTTGGTAAAAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Exonerate_protein2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT------CGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGTTTTGGTAAAAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from Exonerate_coding2genome CGTGCATGGACCTATCACCGTGACC----ATCAACATGAAACTACTCCAGCATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT------CGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG AAATCAATCCAGAGATCTAATTACACTGCTTGAACTCTTTGATACTTTAGTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGTTTTGGTAAAAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta Alignment from GeneWise CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCT------CGGCAAGTGGACCACTCTGTCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG aaatcaatccagagatctaattacactgcttgaactctttgatactttagTATTATCAGAAAGGTGTCATCAAAGCCACACCCAGTTTTTGTGACCCCACATCAAGAAGACCACCCTGTTCTGCTATTGTTAGTTGTTTTGGTAAAAGGGATGAGGGCATGCAAATGGGGACAGTCTTAACACATTCTCATAAACGTTGTCATTCCTTCTCCTTCTGGGTCTTGAAGAACTCTTGGGGGGCCCACTGGGGTGAGAAAgtaaccccaggaacataatgagtcatagaaaagtgataaagcaaatccta #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACC-AAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagagGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGC-TCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaatttttc Alignment from CESAR agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACC-AAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagagGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTG-CTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaattattt Alignment from Spaln_aa2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGCTGC-------- accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTAAGTGCCTTAGCTTGgtttgtgtgaatggaactcaaggacaatttttc Alignment from Spaln_nt2Genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGG-TAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGG-AGAAGA--TCCCCAGAATGGACCCCAAATATGACCCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCT-CGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaatttttc Alignment from Pairagon AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGA-CCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGG-AGAAGA--TCCCCAGAATGGACCCCAAATATGACCCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTG-CTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaatttttc Alignment from Exonerate_protein2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGgtaagtgccttagcttggtttgtgtgaatggaactcaaggacaatttttc Alignment from Exonerate_coding2genome AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGC accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTAAGTGCCTTAGCTTGGTTTGTGTGAATGGAACTCAAGGACAATTTTTC Alignment from GeneWise AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAGGGAAGC---------TG accacactgttaccacactgctgggacctacgtgtttatttcccccacagAGGAGCAGTTTGGGCAATTATATGGGAGA---AGATCCCCAGAATGGACCCCAAATATGACCCAAGAGGGTGGAGTCAAACACATGGGGGGAGTCTGTGCTCGAACCTGTGATTGGTGTAAAGCAAAAAACATTATCTCATCAATTGAGAACCAGGTAAGTGCCTTAGCTTGgtttgtgtgaatggaactcaaggacaatttttc #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAG-GCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tctactggctcttatctaactcaaatgactccccatcctttgtttcccagagTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGCGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTG-CGAGCTTGGCGAGACACCTTTCAGTGACTTCAACagtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from CESAR agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAG-GCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tctactggctcttatctaactcaaatgactccccatcctttgtttcccagagTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGCGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTG-CGAGCTTGGCGAGACACCTTTCAGTGACTTCAACagtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Spaln_aa2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGCGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCGAGCTTGGCGAGACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Spaln_nt2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAG-GCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGCGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGC-GAGCTTGGCGAGACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Pairagon AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAG-GCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCA----------------------------------------------------- tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGCGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGC-GAGCTTGGCGAGACACCTTTCAGTGACTTCAACAGTGAGCGGGTTTGTGTGGCAAGATGCCCTCTTCATTATCTGTGTGTTCAC Alignment from Exonerate_protein2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGCGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCGAGCTTGGCGAGACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from Exonerate_coding2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGCGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCGAGCTTGGCGAGACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac Alignment from GeneWise AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tctactggctcttatctaactcaaatgactccccatcctttgtttcccagAGTACACTCATCATCTGAGCATCTTTGCCCACAATCTAGCTCAGCGCACAGAGGCTCCAGCAGGAAGATTTGGGTACTGCGAGCTTGGCGAGACACCTTTCAGTGACTTCAACAgtgagcgggtttgtgtggcaagatgccctcttcattatctgtgtgttcac #### Cwf19l1_ID8941_3 --> 0 - 1 Original Alignment CTGCTGTTGTGT-GTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAg tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTCGTGGGAAACTTCTTTGGCTCTGCTCAGGATG-TGGGTGGGATGAATATAAGACTGGCAACAAGAAAggtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from CESAR CTGCTGTTGTGT-GTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAg tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTCGTGGGAAACTTCTTTGGCTCTGCTCAGGATGTG-GGTGGGATGAATATAAGACTGGCAACAAGAAAggtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Spaln_aa2Genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTCGTGGGAAACTTCTTTGGCTCTGCTCAGGATGTGGGTGGGATGAATATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Spaln_nt2Genome CTGCTGTTGTGT-GTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTCGTGGGAAACTTCTTTGGCTCTGCTCAGGATG-TGGGTGGGATGAATATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Pairagon CTGCTGTTGTGT-GTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTCGTGGGAAACTTCTTTGGCTCTGCTCAGGATG-TGGGTGGGATGAATATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Exonerate_protein2genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTCGTGGGAAACTTCTTTGGCTCTGCTCAGGATGTGGGTGGGATGAATATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from Exonerate_coding2genome CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAGCTCC tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTCGTGGGAAACTTCTTTGGCTCTGCTCAGGATGTGGGTGGGATGAATATAAGACTGGCAACAAGAAAGGTAAgtgagtattggtaagattggctacacattgctttaaataagatttg Alignment from GeneWise CTGCTGTTGTGTGTAGGAAACTTTTTTGGCTCTGCCCAGGATGCTGAGTGGGAGGAGTATAAGACCGGCAACAAGAAAG tcagtagagagtaagtccatagagaaggctgctgtcttttgtccccacagTTGTTATTATGTCGTGGGAAACTTCTTTGGCTCTGCTCAGGATGTGGGTGGGATGAATATAAGACTGGCAACAAGAAAGgtaagtgagtattggtaagattggctacacattgctttaaataagatttg #### Cyp26a1_ID7415_3 --> 0 - 0 Original Alignment GTGATTATGCAGGCCTTCAGC-CGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTA atcaggcacaaagcataggttgacaaacggctttccttttaaatttttagGTGATAATGCATGCATTCAGCCAGGGAAGCACTCCAGTGTTATGTCCCTGTCATAGCTG-GGAAGTCAGCAGTTGCTTGGAACAGTGGCTATGCTGTGGTGAACATGGTCTCCTTGCGTATCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGTTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTAGAGTCTTTTGAGGAAATGACCCGTAATCTTGTTTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTTCCGTgtaccgtagagccttttctgggttccagGGTGTT---TCTTGTAATATAA Alignment from CESAR GTGATTATGCAGGCCTTCAGC-CGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTA atcaggcacaaagcataggttgacaaacggctttccttttaaatttttagGTGATAATGCATGCATTCAGCCAGGGAAGCACTCCAGTGTTATGTCCCTGTCATAGCT-GGGAAGTCAGCAGTTGCTTGGAACAGTGGCTATGCTGTGGTGAACATGGTCTCCTTGCGTATCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGTTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTAGAGTCTTTTGAGGAAATGACCCGTAATCTTGTTTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTTCCGTgtaaccttaattcctactttaattttagGGTGTT---TCTTGTAATATAA Alignment from Spaln_aa2Genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG-------------------GGCGTGAAG------GCGCGGAACCTTATAC atcaggcacaaagcataggttgacaaacggctttccttttaaatttttagGTGATAATGCATGCATTCAGCCAGGGAAGCACTCCAGTGTTATGTCCCTGTCATAGCTGGGAAGTCAGCAGTTGCTTGGAACAGTGGCTATGCTGTGGTGAACATGGTCTCCTTGCGTATCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGTTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTAGAGTCTTTTGAGGAAATGACCCGTAATCTTGTTTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTTCCGTGTACCGTAGAGCCTTTTCtGGGTTCCAGGGTGTTTCTTGTAATATAATAC Alignment from Spaln_nt2Genome GTGATTATGCAGGCCTTCAGCC-GCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGGGGCGTGAAGGCGCGGAACCTTATACAC---------------------------- atcaggcacaaagcataggttgacaaacggctttccttttaaatttttagGTGATAATGCATGCATTCAGCCAGGGAAGCACTCCAGTGTTATGTCCCTGTCATAGCTG-GGAAGTCAGCAGTTGCTTGGAACAGTGGCTATGCTGTGGTGAACATGGTCTCCTTGCGTATCCTGAGGTGAAGCGCCTTATGTT---CATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGTTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTAGAGTCTTTTGAGGAAATGACCCGTAATCTTGTTTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTTC-----CGTGTA-CCGTAGAGCCTTTTCTGGGTTCCAGGGTGTTTCTTGTAATATAATA Alignment from Pairagon GTGATTATGCAGGCCTTCAGCC-GCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGGGGCGTGAAGGCGCGGAACCTT----------------------------------------------ATAC atcaggcacaaagcataggttgacaaacggctttccttttaaatttttagGTGATAATGCATGCATTCAGCCAGGGAAGCACTCCAGTGTTATGTCCCTGTCATAGCTG-GGAAGTCAGCAGTTGCTTGGAACAGTGGCTATGCTGTGGTGAACATGGTCTCCTTGCGTATCCTGAGGTGAAGCGCCTTATGTT---CATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGTTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTAGAGTCTTTTGAGGAAATGACCCGTAATCTTGTTTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTTCCG---------------------TGTACCGTAGAGCCTTTTCTGGGTTCCAGGGTGTTTCTTGTAATATAATAC Alignment from Exonerate_protein2genome GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCG GCCTGTACCGGGGCGTGAAGGCGCGGAACC atcaggcacaaagcataggttgacaaacggctttccttttaaatttttagGTGATAATGCATGCATTCAGCCAGGGAAGCACTCCAGTGTTATGTCCCTGTCATAGCTGGGAAGTCAGCAGTTGCTTGGAACAGTGGCTATGCTGTGGTGAACATGGTCTCCTTGCGTATCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGTTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTAGAGTCTTTTGAGGAAATGACCCGTAATCTTGTTTCCCTTCCCATTGATGTCCCATTCAGTGgtctgttccgtgtaccgtagagccttttctgGG---TTCCAGGGTGTTTCTTGT---AATA Alignment from Exonerate_coding2genome atcaggcacaaagcataggttgacaaacggctttccttttaaatttttaggtgataatgcatgcattcagccagggaagcactccagtgttatgtccctgtcatagctgggaagtcagcagttgcttggaacagtggctatgctgtggtgaacatggtctccttgcgtatcctgaggtgaagcgccttatgttcattgctatgcgaatcctgctaggctgtcagcaaggttcagcaggaagtggggaggatgaacagcagctagtagagtcttttgaggaaatgacccgtaatcttgtttcccttcccattgatgtcccattcagtggtctgttccgtgtaccgtagagccttttctgggttccagggtgtttcttgtaatataatac Alignment from GeneWise GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG GGCGTGAAGGCGCGGAACCTTA atcaggcacaaagcataggttgacaaacggctttccttttaaatttttagGTGATAATGCATGCATTCAGCCAGGGAAGCACTCCAGTGTTATGTCCCTGTCATAGCTGGGAAGTCAGCAGTTGCTTGGAACAGTGGCTATGCTGTGGTGAACATGGTCTCCTTGCGTATCCTGAGGTGAAGCGCCTTATGTTC---ATTGCTATGCGAATCCTGCTAGGCTGTCAGCAAGGTTCAGCAGGAAGTGGGGAGGATGAACAGCAGCTAGTAGAGTCTTTTGAGGAAATGACCCGTAATCTTGTTTCCCTTCCCATTGATGTCCCATTCAGTGGTCTGTTCCGTgtaccgtagagccttttctgggttccagGGTGTTTCTTGT---AATATAA #### Cyp2c50_ID7862_3 --> 2 - 1 Original Alignment gcATTATATTTAGTAAAGGAAATGTATGG-AAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagggATTATATTCAGTAAGGGAAATGTATGGCAAAAATATAAGACATTTTGCACTTACCACTCTGC-AAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATggtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from CESAR gcATTATATTTAGTAAAGGAAATGTATGG-AAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagggATTATATTCAGTAAGGGAAATGTATGGCAAAAATATAAGACATTTTGCACTTACCACTCTGC-AAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATggtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Spaln_aa2Genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGCAAAAATATAAGACATTTTGCACTTACCACTCTGCAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Spaln_nt2Genome GCATTATATTTAGTAAAGGAAATGTATGG-AAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGCAAAAATATAAGACATTTTGCACTTACCACTCTGC-AAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Pairagon GCATTATATTTAGTAAAGGAAATGTATGG-AAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGCAAAAATATAAGACATTTTGCACTTACCACTCTGC-AAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Exonerate_protein2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGCAAAAATATAAGACATTTTGCACTTACCACTCTGCAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from Exonerate_coding2genome GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGCAAAAATATAAGACATTTTGCACTTACCACTCTGCAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc Alignment from GeneWise GCATTATATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCACGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG aggggagtacgagtccatagcagctaggcaaccctggccttttctttcagGGATTATATTCAGTAAGGGAAATGTATGGCAAAAATATAAGACATTTTGCACTTACCACTCTGCAAATTTAGGCATTGGAAAACGAAGCATTGAAGACCAGCTTCAGGAGGAAGCCCGTTGGCCTGTTGAGGAGCTTAGGAAGACCAATGgtgagttgaagtgcagagtcagaacctaatgtgattttaatccagttttc #### Cyp2c54_ID7855_3 --> 2 - 1 Original Alignment gcATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTC-ATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctagccctgctgtattgccaggcggcttcatatgtcccatgtccttgcaggcATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCTCACTGCATGACATTGTGGAATTTAGGTATGGGAAAAA-GAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCCTGTGGAAGAACTGAGAAAGAGCAATggtaagtggaacaagggtgtggctaccaactgggttgcacaaattctgact Alignment from CESAR gcATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTC-ATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATg ctagccctgctgtattgccaggcggcttcatatgtcccatgtccttgcaggcATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCTCACTGCATGACATTGTGGAATTTAGGTATGGGAAAAA-GAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCCTGTGGAAGAACTGAGAAAGAGCAATggtaagtggaacaagggtgtggctaccaactgggttgcacaaattctgact Alignment from Spaln_aa2Genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctagccctgctgtattgccaggcggcttcatatgtcccatgtccttgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCTCACTGCATGACATTGTGGAATTTAGGTATGGGAAAAAGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCCTGTGGAAGAACTGAGAAAGAGCAATGgtaagtggaacaagggtgtggctaccaactgggttgcacaaattctgact Alignment from Spaln_nt2Genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACT-CATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctagccctgctgtattgccaggcggcttcatatgtcccatgtccttgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCTCACTGCATGACATTGTGGAATTTAGGTATGGGAAAAA-GAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCCTGTGGAAGAACTGAGAAAGAGCAATGgtaagtggaacaagggtgtggctaccaactgggttgcacaaattctgact Alignment from Pairagon GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACT-CATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctagccctgctgtattgccaggcggcttcatatgtcccatgtccttgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCTCACTGCATGACATTGTGGAATTTAGGTATGGGAAAAA-GAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCCTGTGGAAGAACTGAGAAAGAGCAATGgtaagtggaacaagggtgtggctaccaactgggttgcacaaattctgact Alignment from Exonerate_protein2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctagccctgctgtattgccaggcggcttcatatgtcccatgtccttgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCTCACTGCATGACATTGTGGAATTTAGGTATGGGAAAAAGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCCTGTGGAAGAACTGAGAAAGAGCAATGgtaagtggaacaagggtgtggctaccaactgggttgcacaaattctgact Alignment from Exonerate_coding2genome GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctagccctgctgtattgccaggcggcttcatatgtcccatgtccttgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCTCACTGCATGACATTGTGGAATTTAGGTATGGGAAAAAGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCCTGTGGAAGAACTGAGAAAGAGCAATGgtaagtggaacaagggtgtggctaccaactgggttgcacaaattctgact Alignment from GeneWise GCATTGGATTTAGTAATGGAAGTGTATGGAAAAACACGAGGCACTTCTCACTCATGACTCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG ctagccctgctgtattgccaggcggcttcatatgtcccatgtccttgcagGCATTGGATTTAGCAATGGAACCGTATGGAAGAACACCAGGCACTTCTCACTGCATGACATTGTGGAATTTAGGTATGGGAAAAAGAGTATTGAGGACCGTGTTCAAGAGGAAGCACGTTGCCCTGTGGAAGAACTGAGAAAGAGCAATGgtaagtggaacaagggtgtggctaccaactgggttgcacaaattctgact #### Cyp2c54_ID7856_2 --> 0 - 1 Original Alignment TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG----GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGCGAAGTCCTAGCAGACCAAGGGGATATTTTTGCTGGAAGGG-TAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGggtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from CESAR TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG----GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGCGAAGTCCTAGCAGACCAAGGGGATATTTTTGCTGGAA-GGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGggtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Spaln_aa2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAA---GCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGCGAAGTCCTAGCAGACCAAGGGGATATTTTTGCTGGAAGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Spaln_nt2Genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGA----AGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGCGAAGTCCTAGCAGACCAAGGGGATATTTTTGCTGGAA-GGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Pairagon TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAG----GAAGCTCTGGTTGACCATGGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGCGAAGTCCTAGCAGACCAAGGGGATATTTTTGCTGGAA-GGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Exonerate_protein2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCAT---GGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGCGAAGTCCTAGCAGACCAAGGGGATATTTTTGCTGGAAGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from Exonerate_coding2genome TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCAT---GGGGATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGCGAAGTCCTAGCAGACCAAGGGGATATTTTTGCTGGAAGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa Alignment from GeneWise TTATCAAGAGTTTATGGTCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGG---GATGTCTTTGCTGGAAGGGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG aggatgggtgacattatatggttacttccagtggggtatgtattccacagTTATCACGAGTTTATGGTCCATTTTATACTTTATATCTAGGGAGGAAGCCAACTGTTGTTTTACATGGGTATGAGGCTGTGAAGGAGCGAAGTCCTAGCAGACCAAGGGGATATTTTTGCTGGAAGGGTAGTCTCCCATTTTTTGGTAAAGCTACCAATGGAATGGgtaatttctggggtgtgtaccatgcatggttgcagtacaatgatatccaa #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAG-AAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACAACAAGAATTTAACACTAAGATTCAGGCAGAAAA-AAGAAAGAGGTCAAAAAAGggtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from CESAR AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAG-AAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACAACAAGAATTTAACACTAAGATTCAGGCAGAAAA-AAGAAAGAGGTCAAAAAAGggtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Spaln_aa2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACAACAAGAATTTAACACTAAGATTCAGGCAGAAAAAAGAAAGAGGTCAAAAAAGGgtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Spaln_nt2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAA-AATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACAACAAGAATTTAACACTAAGATTCAGGCAG-AAAAAAGAAAGAGGTCAAAAAAGGgtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Pairagon AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAG-AAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACAACAAGAATTTAACACTAAGATTCAGGCAG-AAAAAAGAAAGAGGTCAAAAAAGGgtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Exonerate_protein2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACAACAAGAATTTAACACTAAGATTCAGGCAGAAAAAAGAAAGAGGTCAAAAAAGGgtctgggtagcctaggaatgtcgttaggaatgttggcttacatttaaatt Alignment from Exonerate_coding2genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAATTGAAGAATGAAAAGGAA ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACAACAAGAATTTAACACTAAGATTCAGGCAGAAAAAAGAAAGAGGTCAAAAAAGGGTCTGGGTAGCCTAGGAATGTCGttaggaatgttggcttacatttaaatt Alignment from GeneWise AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGGCAAATTGAAGAATGAAAAGGAATCTCACAG ttaacctcaagtgatgcccatcttctgcttggagtcctttcccctcctagAAGTTTCAAGAATTGCATAAAAAAAACTCGGAACAACAAGAATTTAACACTAAGATTCAGGCAGAAAAAAGAAAGAGGTCAAAAAAGGGTCTGGGTAGCCTAGGAATGTCGTTAGGAATgttggcttacatttaaatt #### Dagla_ID2755_15 --> 1 - 0 Original Alignment gATTGGCCTTTCC-CAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaccttcagccttgccttctaggGTTGGCCTTTCCCCAACTAGAGGGATTTTGCAGGCAGCTTTTAGATGTCTTGC-ACGGAGTACTAAACCTAAAgtgagtactggtcagaactaaagaaccaaaaaatgcctgtctagatgcgg Alignment from CESAR gATTGGCCTTTCC-CAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaccttcagccttgccttctaggGTTGGCCTTTCCCCAACTAGAGGGATTTTGCAGGCAGCTTTTAGATGTCTTGC-ACGGAGTACTAAACCTAAAgtgagtactggtcagaactaaagaaccaaaaaatgcctgtctagatgcgg Alignment from Spaln_aa2Genome GATTGGCCTTTCC-CAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaccttcagccttgccttctagGGTTGGCCTTTCCcCAACTAGAGGGATTTTGCAGGCAGCTTTTAGATGTCTTGCA-CGGAGTACTAAACCTAAAgtgagtactggtcagaactaaagaaccaaaaaatgcctgtctagatgcgg Alignment from Spaln_nt2Genome GATTGGCCTTTCCC-AGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaccttcagccttgccttctagGGTTGGCCTTTCCCCAACTAGAGGGATTTTGCAGGCAGCTTTTAGATGTCTTGCA-CGGAGTACTAAACCTAAAgtgagtactggtcagaactaaagaaccaaaaaatgcctgtctagatgcgg Alignment from Pairagon GATTGGCCTTT-CCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaccttcagccttgccttctagGGTTGGCCTTTCCCCAACTAGAGGGATTTTGCAGGCAGCTTTTAGATGTCTTGCA-CGGAGTACTAAACCTAAAgtgagtactggtcagaactaaagaaccaaaaaatgcctgtctagatgcgg Alignment from Exonerate_protein2genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaccttcagccttgccttctagGGTTGGCCTTTCCCCAACTAGAGGGATTTTGCAGGCAGCTTTTAGATGTCTTGCACGGAGTACTAAACCTAAAgtgagtactggtcagaactaaagaaccaaaaaatgcctgtctagatgcgg Alignment from Exonerate_coding2genome GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaccttcagccttgccttctagGGTTGGCCTTTCCCCAACTAGAGGGATTTTGCAGGCAGCTTTTAGATGTCTTGCACGGAGTACTAAACCTAAAgtgagtactggtcagaactaaagaaccaaaaaatgcctgtctagatgcgg Alignment from GeneWise GATTGGCCTTTCCCAGCTGGAAGGTTTCCGTCGGCAGCTTCTGGATGTCCTGCAGCGGAGCACCAAGCCCAAA ggacagagatgttggtaaagaaggaaacaaccttcagccttgccttctagGGTTGGCCTTTCCCCAACTAGAGGGATTTTGCAGGCAGCTTTTAGATGTCTTGCACGGAGTACTAAACCTAAAgtgagtactggtcagaactaaagaaccaaaaaatgcctgtctagatgcgg #### Dak_ID2899_14 --> 0 - 2 Original Alignment CTCTATGGCCTG-TTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGaa gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGCTTCCTCACTGCTTCAGCCCAACCTCTG------AAAA-TGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGaagtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from CESAR CTCTATGGCCTG-TTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGaa gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGCTTCCTCACTGCTTCAGCCCAACCTCTGA-A------AATGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGaagtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Spaln_aa2Genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGCTTCCTCACTGCTTCAGCCCAACC------TCTGAAAATGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Spaln_nt2Genome CTCTATGGCCTG-TTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGCTTCCTCACTGCTTCAGCCCAACCTCTGAA-------AATGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Pairagon CTCTATGGCCTG-TTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTGCTTCCTCACTGCTTCAGCCCAACCTCTGAA-------AATGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Exonerate_protein2genome CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTG---CTTCCTCACTGCTTCAGCCCA---ACCTCTGAAAATGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from Exonerate_coding2genome gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagctacatggattgcttcctcactgcttcagcccaacctctgaaaatgacctgccaacctggtctgctgccatggatgctggcctagactccatgcagaagtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc Alignment from GeneWise CTCTATGGCCTGTTCCTGACTGCAGCTGCCCAGCCTCTCAAGGCCAAGACTGACCTCCCAACCTGGTCTGCTGCCATGGATGCCGGCTTAGAGTCCATGCAGAA gccttaccacagctagtacaaatttattgggctaagtgctatctcctcagCTACATGGATTG---CTTCCTCACTGCTTCAGCCCAACC---TCTGAAAATGACCTGCCAACCTGGTCTGCTGCCATGGATGCTGGCCTAGACTCCATGCAGAAgtaagacactctttttgcctcacaacaaaaagtgaggttgtgctatatgc #### Dak_ID2900_13 --> 2 - 0 Original Alignment ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACC-AGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaactaaagtggcttgtggttcagataggcacacgcccctacccccagccATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGC-GCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaagagaacagtttttaggactatcataggaagccttaccacagctag Alignment from CESAR ccATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACC-AGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaactaaagtggcttgtggttcagataggcacacgcccctacccccagccATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTG-CGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaagagaacagtttttaggactatcataggaagccttaccacagctag Alignment from Spaln_aa2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaactaaagtggcttgtggttcagataggcacacgcccctacccccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaagagaacagtttttaggactatcataggaagccttaccacagctag Alignment from Spaln_nt2Genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAA-CCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaactaaagtggcttgtggttcagataggcacacgcccctacccccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGC-GCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaagagaacagtttttaggactatcataggaagccttaccacagctag Alignment from Pairagon CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAA-CCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaactaaagtggcttgtggttcagataggcacacgcccctacccccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGC-GCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaagagaacagtttttaggactatcataggaagccttaccacagctag Alignment from Exonerate_protein2genome CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaactaaagtggcttgtggttcagataggcacacgcccctacccccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaagagaacagtttttaggactatcataggaagccttaccacagctag Alignment from Exonerate_coding2genome agaaactaaagtggcttgtggttcagataggcacacgcccctacccccagccatccaggggtggttgaaagagggcccatcactgacccagcccaacccagctactctccagattgcctgtcctgcgctggagaggatgggagcttcatctggggcagtaaagagaacagtttttaggactatcataggaagccttaccacagctag Alignment from GeneWise CCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG agaaactaaagtggcttgtggttcagataggcacacgcccctacccccagCCATCCAGGGGTGGTTGAAAGAGGGCCCATCACTGACCCAGCCCAACCCAGCTACTCTCCAGATTGCCTGTCCTGCGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaagagaacagtttttaggactatcataggaagccttaccacagctag #### Dak_ID2901_12 --> 2 - 1 Original Alignment gtGTAACATCAAAGCAGATG-GCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAg acacatgcatagggaatatagaggttcaacctttgggttttatatctcaggtGTAACATCAAAGCAGGTACGCCTTGGTA---TATCGGATATGTGCCA-CCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGA------GATTCCATGCACAGCCGCGCTTCTAAGggtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from CESAR gtGTAACATCAAAGCAGATG-GCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAg acacatgcatagggaatatagaggttcaacctttgggttttatatctcaggtGTAACATCAAAGCAGGTACGCCTTGGTA---TATCGGATATGTGCCA-CCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGAGAT------TCCATGCACAGCCGCGCTTCTAAGggtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Spaln_aa2Genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTACGCCTTGGTATATCGGATATGTGC---CACCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGAGAT------TCCATGCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Spaln_nt2Genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTACGCCT--TGGTATATCGGATATGTGCCA-CCTCATAGGGTCTGAAGAACACCTGAATGC---AGAGAGAGCTGCTGGTGATGGAGA------TTCCATGCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Pairagon GTGTAACATCAAAGCAG------------ATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTACGCCTTGGTAT--------------ATCGGATATGTGCCA-CCTCATAGGGTCTGAAGAACACCTGAATGC---AGAGAGAGCTGCTGGTGATGGAGA------TTCCATGCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Exonerate_protein2genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTACGCCTTGGTATATCGGATATGTGC---CACCTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGAGAT------TCCATGCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from Exonerate_coding2genome acacatgcatagggaatatagaggttcaacctttgggttttatatctcaggtgtaacatcaaagcaggtacgccttggtatatcggatatgtgccacctcatagggtctgaagaacacctgaatgcagagagagctgctggtgatggagattccatgcacagccgcgcttctaagggtaggatttcttcttctagccacacagaccaatcattggaccttgctatc Alignment from GeneWise GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG acacatgcatagggaatatagaggttcaacctttgggttttatatctcagGTGTAACATCAAAGCAGGTACGCCTTGGTATATCGGATATGTGCCAC---CTCATAGGGTCTGAAGAACACCTGAATGCA---GAGAGAGCTGCTGGTGATGGAGAT------TCCATGCACAGCCGCGCTTCTAAGGgtaggatttcttcttctagccacacagaccaatcattggaccttgctatc #### Dak_ID2904_9 --> 2 - 1 Original Alignment gcTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gagtgtctaggcatgctacaagcatgatccctgccccatcccctctttaggtTCATTAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCTGGGAACTAGGTATCACTG-TGATGCTGCCATTCATTTGCTTggtgagtaaccccatcaggcatccatatggaaaccctctaacgcctatgct Alignment from CESAR gcTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGg gagtgtctaggcatgctacaagcatgatccctgccccatcccctctttaggtTCATTAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCTGGGAACTAGGTATCACTG-TGATGCTGCCATTCATTTGCTTggtgagtaaccccatcaggcatccatatggaaaccctctaacgcctatgct Alignment from Spaln_aa2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gagtgtctaggcatgctacaagcatgatccctgccccatcccctctttagGTTCATTAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCTGGGAACTAGGTATCACTGTGATGCTGCCATTCATTTGCTTGgtgagtaaccccatcaggcatccatatggaaaccctctaacgcctatgct Alignment from Spaln_nt2Genome GCTCTTCAGTGGTGCTGATAGTCAACAATC-TGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gagtgtctaggcatgctacaagcatgatccctgccccatcccctctttagGTTCATTAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCTGGGAACTAGGTATCACTG-TGATGCTGCCATTCATTTGCTTGgtgagtaaccccatcaggcatccatatggaaaccctctaacgcctatgct Alignment from Pairagon GCTCTTCAGTGGTGCTGATAGTCAACAAT-CTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gagtgtctaggcatgctacaagcatgatccctgccccatcccctctttagGTTCATTAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCTGGGAACTAGGTATCACTG-TGATGCTGCCATTCATTTGCTTGgtgagtaaccccatcaggcatccatatggaaaccctctaacgcctatgct Alignment from Exonerate_protein2genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gagtgtctaggcatgctacaagcatgatccctgccccatcccctctttagGTTCATTAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCTGGGAACTAGGTATCACTGTGATGCTGCCATTCATTTGCTTGgtgagtaaccccatcaggcatccatatggaaaccctctaacgcctatgct Alignment from Exonerate_coding2genome GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gagtgtctaggcatgctacaagcatgatccctgccccatcccctctttagGTTCATTAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCTGGGAACTAGGTATCACTGTGATGCTGCCATTCATTTGCTTGgtgagtaaccccatcaggcatccatatggaaaccctctaacgcctatgct Alignment from GeneWise GCTCTTCAGTGGTGCTGATAGTCAACAATCTGGGTGGCCTGTCTTTCCTGGAACTGGGCATCATAGCTGATGCTGCCATACGCTTGCTGG gagtgtctaggcatgctacaagcatgatccctgccccatcccctctttagGTTCATTAGTGGTACTGATAGTGAATAATCCTTGGTGGTCTGTCCTTCTGGGAACTAGGTATCACTGTGATGCTGCCATTCATTTGCTTGgtgagtaaccccatcaggcatccatatggaaaccctctaacgcctatgct #### Ddb1_ID2917_2 --> 2 - 0 Original Alignment gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCG-GAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacaggcCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCACGAGGGTGTGCGCCCAGTAAAAGAAGTTGGAATGT-TGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from CESAR gaCACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCG-GAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacaggcCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCACGAGGGTGTGCGCCCAGTAAAAGAAGTTGGAATG-TTGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Spaln_aa2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCACGAGGGTGTGCGCCCAGTAAAAGAAGTTGGAATGTTGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Spaln_nt2Genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCG-GAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCACGAGGGTGTGCGCCCAGTAAAAGAAGTTGGAATGT-TGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Pairagon GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCG-GAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCACGAGGGTGTGCGCCCAGTAAAAGAAGTTGGAATGT-TGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Exonerate_protein2genome GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCACGAGGGTGTGCGCCCAGTAAAAGAAGTTGGAATGTTGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from Exonerate_coding2genome ACCGGACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccACAGGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCACGAGGGTGTGCGCCCAGTAAAAGAAGTTGGAATGTTGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag Alignment from GeneWise GACACTTTACTTCAGCGGAAGATCTGAACCTGTTGATTGCTAAAAACACAAGATTAGAGATCTATGTGGTCACTGCGGAGGGTCTTCGGCCAGTCAAAGAGGTGGGAATGTACGGGAAGATTGCAGTCATGGAGCTCTTCAGGCCCAAG tttttacatgaacagctcatctattgcagaaggtgtccttttgtccacagGCCACTTTACCCCAGCGGAAGACCTGAACCTGCTGATTGCTAAGAACACAAGATTAGAAATTTATGTGGTGACTGCACGAGGGTGTGCGCCCAGTAAAAGAAGTTGGAATGTTGGTAAGATTGCAGTTATGGAACTATTCAGGCCCAAGgtatgttactgtgatggtgcaagaaacaatatagaaggaggggtgctcag #### Ddb1_ID2924_9 --> 0 - 0 Original Alignment CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAAT-TTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATCGTGGGCCCTATTATAGATATGTTTGTTGTGGACC-GGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from CESAR CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAAT-TTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATCGTGGGCCCTATTATAGATATGTTTGTTGTGGAC-CGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Spaln_aa2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATCGTGGGCCCTATTATAGATATGTTTGTTGTGGACCGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Spaln_nt2Genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCC-ATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATCGTGGGCCCTATTATAGATATGTTTGTTGTGGACC-GGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Pairagon CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATT-TAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATCGTGGGCCCTATTATAGATATGTTTGTTGTGGACC-GGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Exonerate_protein2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATCGTGGGCCCTATTATAGATATGTTTGTTGTGGACCGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from Exonerate_coding2genome CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATCGTGGGCCCTATTATAGATATGTTTGTTGTGGACCGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta Alignment from GeneWise CTCAATGTCGACAGCAACGAACAAGGCTCCTATGTAGTGGCCATGGAAACCTTTACCAATTTAGGACCCATTGTGGATATGTGTGTGGTGGACCTGGAGAGGCAGGGACAGGGTCAG tgtctgtttattcaagtctttagtctaatgggacctgggccatcccacagCTCAATGTTGATAGCAATGAACAAGGGTCCTATGTAGTGGCAATGGAAACATTCACTAATCGTGGGCCCTATTATAGATATGTTTGTTGTGGACCGGAGAGGCAGGGACAGGGGCAGgtgagtggcattcctaaagaggggaagaccaggagatataaacatcttta #### Ddb1_ID2929_14 --> 1 - 1 Original Alignment cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTC-TCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg tgtcaggcacttgtttctttgtttattgtgttttctttacttttgggcagtCACACAGAAATGGAACATGAAGTAGCATGTCTGGACACTACCCCGTTAGGGGATAGCAATGGTCTCCTCCCTGCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCATCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAggtaaaccttttgtttatcctcaagacaacagcccagtcagggtgaacaag Alignment from CESAR cCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTC-TCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg tgtcaggcacttgtttctttgtttattgtgttttctttacttttgggcagtCACACAGAAATGGAACATGAAGTAGCATGTCTGGACACTACCCCGTTAGGGGATAGCAATGGTCTCCTCCCTGCTTTGTGCCATTGGACTTTGGACAGATATC-TAGCTCGTATCTTGAGGCTCCCATCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAggtaaaccttttgtttatcctcaagacaacagcccagtcagggtgaacaag Alignment from Spaln_aa2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtcaggcacttgtttctttgtttattgtgttttctttacttttgggcagTCACACAGAAATGGAACATGAAGTAGCATGTCTGGACACTACCCCGTTAGGGGATAGCAATGGTCTCCTCCCTGCTTTGTGCCATTGGACTTTGGACAGATATCTAGCTCGTATCTTGAGGCTCCCATCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaaaccttttgtttatcctcaagacaacagcccagtcagggtgaacaag Alignment from Spaln_nt2Genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTC-TCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtcaggcacttgtttctttgtttattgtgttttctttacttttgggcagTCACACAGAAATGGAACATGAAGTAGCATGTCTGGACACTACCCCGTTAGGGGATAGCAATGGTCTCCTCCCTGCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCATCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaaaccttttgtttatcctcaagacaacagcccagtcagggtgaacaag Alignment from Pairagon -----------------------------------------------CAGCCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCT-CTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG TGTCAGGCACTTGTTTCTTTGTTTATTGTGTTTTCTTTACTTTTGGGCAGTCACACAGAAATGGAACATGAAGTAGCATGTCTGGACACTACCCCGTTAGGGGATAGCAATGGTCTCCTCCCTGCTTTGTGCCATTGGACTTTGGACAGATATCT-AGCTCGTATCTTGAGGCTCCCATCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaaaccttttgtttatcctcaagacaacagcccagtcagggtgaacaag Alignment from Exonerate_protein2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtcaggcacttgtttctttgtttattgtgttttctttacttttgggcagTCACACAGAAATGGAACATGAAGTAGCATGTCTGGACACTACCCCGTTAGGGGATAGCAATGGTCTCCTCCCTGCTTTGTGCCATTGGACTTTGGACAGATATCTAGCTCGTATCTTGAGGCTCCCATCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaaaccttttgtttatcctcaagacaacagcccagtcagggtgaacaag Alignment from Exonerate_coding2genome CCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCT---CTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tgtcaggcacttgtttctttgtttattgtgttttctttacttttgggcagTCACACAGAAATGGAACATGAAGTAGCATGTCTGGACACTACCCCGTTAGGGGATAGCAATGGT--CTCCTCCCTGCTTTGTGCCATTGGACTTTGGACAGATATCTA-GCTCGTATCTTGAGGCTCCCATCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaaaccttttgtttatcctcaagacaacagcccagtcagggtgaacaag Alignment from GeneWise ------------------------------------------------AGCCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACA------GACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG TGTCAGGCACTTGTTTCTTTGTTTATTGTGTTTTCTTTACTTTTGGGCAGTCACACAGAAATGGAACATGAAGTAGCATGTCTGGACACTACCCCGTTAGGGGATAGCAATGGTCTCCTCCCT------GCTTTGTGCCATTGGACTTTGGACAGATATCTAGCTCGTATCTTGAGGCTCCCATCCTTTGAATTATTACATAAGGAGATGCTGGGTGGAGgtaaaccttttgtttatcctcaagacaacagcccagtcagggtgaacaag #### Ddb1_ID2930_15 --> 2 - 1 Original Alignment agATCATTCCTCGATCCATCCTGATGACCACTTTT-GAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg ctatagtgcttattccatggtcaccctattccacccttttcttgttgcagagATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGCAGACGGGG-TCTTTTCTACTTTGGGCTCAATATTGAGACAggtagccccgtagatgatttgaatgcagatcccagggaggtatgggacctt Alignment from CESAR agATCATTCCTCGATCCATCCTGATGACCACTTTT-GAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg ctatagtgcttattccatggtcaccctattccacccttttcttgttgcagagATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGCAGACGGG-GTCTTTTCTACTTTGGGCTCAATATTGAGACAggtagccccgtagatgatttgaatgcagatcccagggaggtatgggacctt Alignment from Spaln_aa2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ctatagtgcttattccatggtcaccctattccacccttttcttgttgcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGCAGACGGGGTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtagccccgtagatgatttgaatgcagatcccagggaggtatgggacctt Alignment from Spaln_nt2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTT-GAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ctatagtgcttattccatggtcaccctattccacccttttcttgttgcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGCAGAC-GGGGTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtagccccgtagatgatttgaatgcagatcccagggaggtatgggacctt Alignment from Pairagon AGATCATTCCTCGATCCATCCTGATGACCA-CTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ctatagtgcttattccatggtcaccctattccacccttttcttgttgcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGCAGACGGGG-TCTTTTCTACTTTGGGCTCAATATTGAGACAGgtagccccgtagatgatttgaatgcagatcccagggaggtatgggacctt Alignment from Exonerate_protein2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ctatagtgcttattccatggtcaccctattccacccttttcttgttgcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGCAGACGGGGTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtagccccgtagatgatttgaatgcagatcccagggaggtatgggacctt Alignment from Exonerate_coding2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ctatagtgcttattccatggtcaccctattccacccttttcttgttgcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGCAGACGGGGTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtagccccgtagatgatttgaatgcagatcccagggaggtatgggacctt Alignment from GeneWise AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG ctatagtgcttattccatggtcaccctattccacccttttcttgttgcagAGATCATTCCTCGATCCATATTGATGACCACCTTTCGAAGGTGGCCACTACCTCCTTTGTGCCTTGGCAGACGGGGTCTTTTCTACTTTGGGCTCAATATTGAGACAGgtagccccgtagatgatttgaatgcagatcccagggaggtatgggacctt #### Ddb1_ID2931_16 --> 2 - 2 Original Alignment gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACA-TTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag aattccaccctattttattttatttccctcgtgcttccctggtgtttcaggtTTATTGAGCGACCGTAAAAAGGTAACATTGGGCACCCAGCCCACTGTGCTGAGGACACTTCCGTTCTCTTTCTACCACCAACGTCTTTGCTT-CTCTGACCGGCCCACTGTGATCTATAGCAGTAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCGGATGGCTATCCTGACaggtaagtgttcctaggtgtcgcaagagaggttacatatcattttttgattc Alignment from CESAR gtTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACA-TTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACag aattccaccctattttattttatttccctcgtgcttccctggtgtttcaggtTTATTGAGCGACCGTAAAAAGGTAACATTGGGCACCCAGCCCACTGTGCTGAGGACACTTCCGTTCTCTTTCTACCACCAACGTCTTTGCT-TCTCTGACCGGCCCACTGTGATCTATAGCAGTAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCGGATGGCTATCCTGACaggtaagtgttcctaggtgtcgcaagagaggttacatatcattttttgattc Alignment from Spaln_aa2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG aattccaccctattttattttatttccctcgtgcttccctggtgtttcagGTTTATTGAGCGACCGTAAAAAGGTAACATTGGGCACCCAGCCCACTGTGCTGAGGACACTTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTCTCTGACCGGCCCACTGTGATCTATAGCAGTAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCGGATGGCTATCCTGACAGgtaagtgttcctaggtgtcgcaagagaggttacatatcattttttgattc Alignment from Spaln_nt2Genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACA-TTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG aattccaccctattttattttatttccctcgtgcttccctggtgtttcagGTTTATTGAGCGACCGTAAAAAGGTAACATTGGGCACCCAGCCCACTGTGCTGAGGACACTTCCGTTCTCTTTCTACCACCAACGTCTTTGCTT-CTCTGACCGGCCCACTGTGATCTATAGCAGTAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCGGATGGCTATCCTGACAGgtaagtgttcctaggtgtcgcaagagaggttacatatcattttttgattc Alignment from Pairagon GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACA-TTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG aattccaccctattttattttatttccctcgtgcttccctggtgtttcagGTTTATTGAGCGACCGTAAAAAGGTAACATTGGGCACCCAGCCCACTGTGCTGAGGACACTTCCGTTCTCTTTCTACCACCAACGTCTTTGCTT-CTCTGACCGGCCCACTGTGATCTATAGCAGTAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCGGATGGCTATCCTGACAGgtaagtgttcctaggtgtcgcaagagaggttacatatcattttttgattc Alignment from Exonerate_protein2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG aattccaccctattttattttatttccctcgtgcttccctggtgtttcagGTTTATTGAGCGACCGTAAAAAGGTAACATTGGGCACCCAGCCCACTGTGCTGAGGACACTTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTCTCTGACCGGCCCACTGTGATCTATAGCAGTAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCGGATGGCTATCCTGACAGgtaagtgttcctaggtgtcgcaagagaggttacatatcattttttgattc Alignment from Exonerate_coding2genome GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATT---CCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG aattccaccctattttattttatttccctcgtgcttccctggtgtttcagGTTTATTGAGCGACCGTAAAAAGGTAACATTGGGCACCCAGCCCACTGTGCTGAGGACA--CTTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTC-TCTGACCGGCCCACTGTGATCTATAGCAGTAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCGGATGGCTATCCTGACAGgtaagtgttcctaggtgtcgcaagagaggttacatatcattttttgattc Alignment from GeneWise GTTTACTGAGTGACCGTAAAAAGGTGACTTTGGGCACCCAGCCCACGGTGTTGAGGACATTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTGCTCTGACCGGCCCACTGTCATCTATAGCAGCAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAGGTGAACTATATGTGTCCTCTCAACTCAGATGGCTATCCTGACAG aattccaccctattttattttatttccctcgtgcttccctggtgtttcagGTTTATTGAGCGACCGTAAAAAGGTAACATTGGGCACCCAGCCCACTGTGCTGAGGACACTTCCGTTCTCTTTCTACCACCAACGTCTTTGCTTCTCTGACCGGCCCACTGTGATCTATAGCAGTAATCACAAGTTGGTCTTCTCCAATGTCAACCTCAAGGAAGTGAACTATATGTGTCCTCTCAACTCGGATGGCTATCCTGACAGgtaagtgttcctaggtgtcgcaagagaggttacatatcattttttgattc #### Ddb1_ID2932_17 --> 1 - 2 Original Alignment tCTGGCATTGGCC-AATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag tcattggagttgtacatcatggtggggatttactcagttgccttttatagtCTGGCATTGGCCCAACAACAGTACCCTCACAATTGGTACCATAG-TGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCCCCTaggtttttttacacctgagatttacacctaagaagtggggatggagctgggt Alignment from CESAR tCTGGCATTGGCC-AATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag tcattggagttgtacatcatggtggggatttactcagttgccttttatagtCTGGCATTGGCCCAACAACAGTACCCTCACAATTGGTACCATA-GTGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCCCCTaggtttttttacacctgagatttacacctaagaagtggggatggagctgggt Alignment from Spaln_aa2Genome TG---GCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tcattggagttgtacatcatggtggggatttactcagttgccttttatagTCTGGCATTGGCCCAACAACAGTACCCTCACAATTGGTACCATAGT-GAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCCCCTAGgtttttttacacctgagatttacacctaagaagtggggatggagctgggt Alignment from Spaln_nt2Genome TCTGGCATTGGCC-AATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tcattggagttgtacatcatggtggggatttactcagttgccttttatagTCTGGCATTGGCCCAACAACAGTACCCTCACAATTGGTACCATAG-TGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCCCCTAGgtttttttacacctgagatttacacctaagaagtggggatggagctgggt Alignment from Pairagon TCTGGCATTGG-CCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGT--------------------------------------------------------- tcattggagttgtacatcatggtggggatttactcagttgccttttatagTCTGGCATTGGCCCAACAACAGTACCCTCACAATTGGTACCATAG-TGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCCCCTAGGTTTTTTTACACCTGAGATTTACACCTAAGAAGTGGGGATGGAGCTGGGT Alignment from Exonerate_protein2genome TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tcattggagttgtacatcatggtggggatttactcagttgccttttatagTCTGGCATTGGCCCAACAACAGTACCCTCACAATTGGTACCATAGTGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCCCCTAGgtttttttacacctgagatttacacctaagaagtggggatggagctgggt Alignment from Exonerate_coding2genome TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tcattggagttgtacatcatggtggggatttactcagttgccttttatagTCTGGCATTGGCCCAACAACAGTACCCTCACAATTGGTACCATAGTGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCCCCTAGgtttttttacacctgagatttacacctaagaagtggggatggagctgggt Alignment from GeneWise TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tcattggagttgtacatcatggtggggatttactcagttgccttttatagTCTGGCATTGGCCCAACAACAGTACCCTCACAATTGGTACCATAGTGAAATGCAGAAGCTCCACATCCGGACAGTCCCCCTCTATGAGTCCCCTAGgtttttttacacctgagatttacacctaagaagtggggatggagctgggt #### Ddb1_ID2934_19 --> 0 - 1 Original Alignment GCCCTGTCCAGCAGCGTCAGC-TCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAA---GAAGTGGAGGTGCACAACCTCCTCATCATTGACCAGCACACCTTTGAAg ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTCTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTC-TGAAATGTCCTTTGGAGAAGAAGAC---GAGGTCCACAATCTCCTTATCAATGACCAACATACATTTGAGtgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from CESAR GCCCTGTCCAGCAGCGTCAGC-TCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATCATTGACCAGCACACCTTTGAAg ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTCTCCAGCAAACTTTTCTCCATCAGTACAGCCCCT-CTGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATGACCAACATACATTTGAGtgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Spaln_aa2Genome GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATCATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTCTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCTGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Spaln_nt2Genome GCCCTGTCCAGCAGCGTCAG-CTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATCATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTCTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTC-TGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Pairagon GCCCTGTCCAGCAGCGTCAG-CTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATCATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTCTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTC-TGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Exonerate_protein2genome GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATCATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTCTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCTGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from Exonerate_coding2genome GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATCATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTCTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCTGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg Alignment from GeneWise GCCCTGTCCAGCAGCGTCAGCTCCAGCAAACTTTTCTCCAGCAGTACGGCTCCTCACGAGACCTCCTTTGGAGAAGAAGTGGAGGTGCACAACCTCCTCATCATTGACCAGCACACCTTTGAAG ctcgaattgacttatccagattttttgacatagcccctccccctccccagGCTCTGTCTAGCAGTATCAGTCTCCAGCAAACTTTTCTCCATCAGTACAGCCCCTCTGAAATGTCCTTTGGAGAAGAAGACGAGGTCCACAATCTCCTTATCAATGACCAACATACATTTGAGTgtaaacaatgaccctttggggttaaaggcttggttgtagatctacaggtg #### Ddb1_ID2935_20 --> 2 - 1 Original Alignment tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGC-ACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagtgCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTCACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCA-GCAAGGTCATATTGTGGTTTTCCAATATTCTGATggtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from CESAR tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGC-ACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagtgCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTCACAGCCATGGTGTATCCAGAAGAGGCAGAGC-CCAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATggtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Spaln_aa2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTCACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Spaln_nt2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTG-TGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTCACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCA-GCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Pairagon TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTG-TGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTCACAGCCATGGTGTATCCAGAAGAGGCAGAGCCC-AGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Exonerate_protein2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTCACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from Exonerate_coding2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTCACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt Alignment from GeneWise TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG acagccagaacttaggagatagcagatccctgacctctgcttctgtgcagTGCTTCATGCCCACCAATTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGTAAGTTGGTTAAGGATCCCAACACTTACTTCATTGTTGGTCACAGCCATGGTGTATCCAGAAGAGGCAGAGCCCAGCAAGGTCATATTGTGGTTTTCCAATATTCTGATGgtaagttgatgaatttgaggctccttttttatttttagagacctgtttgt #### Dkk1_ID6483_2 --> 0 - 1 Original Alignment CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTAC-TGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg tcaactgtgggatcaactgacctatcttacgacaatttctctgtttgtagCCATTCCCTTGTGTTATAGATGAGGATTGTGGTTCTGATAAACATCAGTCCCAGTCCCAGCTGTGGAGCGGCT---G-TGAT------CAGATCTGCTTGGCTTGCCGAAGACACAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATcgtagtggtaccccagtatctattgacaagttctatatctatgtaggtgta Alignment from CESAR CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCC-AGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTA--CAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATg tcaactgtgggatcaactgacctatcttacgacaatttctctgtttgtagCCATTCCCTTGTGTTATAGATGAGGATTGTGGTTCTGATAAACATCAGTCCCAGTCCCAGCTGTGGAGCGGCT------------GTGATCAGATCTGCTTGGCTTGCCGAAGACACAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATcgtagtggtaccccagtatctattgacaagttctatatctatgtaggtgta Alignment from Spaln_aa2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG tcaactgtgggatcaactgacctatcttacgacaatttctctgtttgtagCCATTCCCTTGTGTTATAGATGAGGATTGTGGTTCTGATAAACAT---------CAGTCCCAGTCCCAGCTGTGGAGCGGCTGTGATCAGATCTGCTTGGCTTGCCGAAGACACAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtagtggtaccccagtatctattgacaagttctatatctatgtaggtgta Alignment from Spaln_nt2Genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTA-CTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG tcaactgtgggatcaactgacctatcttacgacaatttctctgtttgtagCCATTCCCTTGTGTTATAGATGAGGATTGTGGTTCTGATAAACATCAGTCCCAGTCCCAGCTGTGGAG----------CGGCTGTGATCAGATCTGCTTGGCTTGCCGAAGACACAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtagtggtaccccagtatctattgacaagttctatatctatgtaggtgta Alignment from Pairagon CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGA-----------CGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG tcaactgtgggatcaactgacctatcttacgacaatttctctgtttgtagCCATTCCCTTGTGTTATAGATGAGGATTGTGGTTCTGATAAACATCAGTC----------CCAGTCCCAGCTGTGGAGCGGCTG----------TGATCAGATCTGCTTGGCTTGCCGAAGACACAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtagtggtaccccagtatctattgacaagttctatatctatgtaggtgta Alignment from Exonerate_protein2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG tcaactgtgggatcaactgacctatcttacgacaatttctctgtttgtagCCATTCCCTTGTGTTATAGATGAGGATTGTGGTTCTGATAAACAT---------CAGTCCCAGTCCCAGCTGTGGAGCGGCTGTGATCAGATCTGCTTGGCTTGCCGAAGACACAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtagtggtaccccagtatctattgacaagttctatatctatgtaggtgta Alignment from Exonerate_coding2genome CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG tcaactgtgggatcaactgacctatcttacgacaatttctctgtttgtagCCATTCCCTTGTGTTATAGATGAGGATTGTGGTTCTGATAAACAT---------CAGTCCCAGTCCCAGCTGTGGAGCGGCTGTGATCAGATCTGCTTGGCTTGCCGAAGACACAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtagtggtaccccagtatctattgacaagttctatatctatgtaggtgta Alignment from GeneWise CCCTACCCTTGCGCTGAAGATGAGGAGTGCGGCTCTGACGAGTACTGCTCCAGCCCCAGCCGCGGGGCAGCCGGCGTCGGAGGTGTACAGATCTGTCTGGCTTGCCGAAAGCGCAGGAAGCGCTGCATGAGGCACGCTATGTGCTGCCCCGGGAACTACTGCAAAAATG tcaactgtgggatcaactgacctatcttacgacaatttctctgtttgtagCCATTCCCTTGTGTTATAGATGAGGATTGTGGTTCTGATAAACAT---------CAGTCCCAGTCCCAGCTGTGGAGCGGCTGTGATCAGATCTGCTTGGCTTGCCGAAGACACAGAAAGTGTTGTGTAAGGCATGCCATGTGTTGCCCTGAGAACCACTGCAAGAATCgtagtggtaccccagtatctattgacaagttctatatctatgtaggtgta #### Dock8_ID5396_17 --> 1 - 0 Original Alignment gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCC-AAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgcttcagatcacggttgcttgcattcttttctttctttccaaaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGTGCAAGCTGACTGTGAATCATCATCTTCTCTTCA-TTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCTGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtagtttccaaccttccaacttaggttcacatgcgttagc Alignment from CESAR gTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCC-AAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgcttcagatcacggttgcttgcattcttttctttctttccaaaggTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGTGCAAGCTGACTGTGAATCATCATCTTCTCTTC-ATTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCTGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtagtttccaaccttccaacttaggttcacatgcgttagc Alignment from Spaln_aa2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgcttcagatcacggttgcttgcattcttttctttctttccaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGTGCAAGCTGACTGTGAATCATCATCTTCTCTTCATTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCTGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtagtttccaaccttccaacttaggttcacatgcgttagc Alignment from Spaln_nt2Genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGC-CAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgcttcagatcacggttgcttgcattcttttctttctttccaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGTGCAAGCTGACTGTGAATCATCATCTTCTCTTCA-TTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCTGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtagtttccaaccttccaacttaggttcacatgcgttagc Alignment from Pairagon GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGC-CAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgcttcagatcacggttgcttgcattcttttctttctttccaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGTGCAAGCTGACTGTGAATCATCATCTTCTCTTCA-TTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCTGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtagtttccaaccttccaacttaggttcacatgcgttagc Alignment from Exonerate_protein2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgcttcagatcacggttgcttgcattcttttctttctttccaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGTGCAAGCTGACTGTGAATCATCATCTTCTCTTCATTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCTGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtagtttccaaccttccaacttaggttcacatgcgttagc Alignment from Exonerate_coding2genome GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgcttcagatcacggttgcttgcattcttttctttctttccaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGTGCAAGCTGACTGTGAATCATCATCTTCTCTTCATTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCTGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtagtttccaaccttccaacttaggttcacatgcgttagc Alignment from GeneWise GTCTCCTGACTTTTACGAAGAAGTGAAAATTAAGCTCCCTGCCAAGCTCACAGTGAATCATCACCTCCTCTTCACCTTCTACCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCCGGAGAAAGCCTTCTGGGGTACTCG gcctgtgcttcagatcacggttgcttgcattcttttctttctttccaaagGTCTCCTGACTTTTATGAAGAAGTGAAAATCAAGCTACCAGTGCAAGCTGACTGTGAATCATCATCTTCTCTTCATTTCTATCACATCAGCTGTCAGCAGAAGCAAGGGGCCTCTGGAGAGAGCCTTCTGGGGTACTCAgtaagttctggtagtttccaaccttccaacttaggttcacatgcgttagc #### Dock8_ID5413_32 --> 0 - 1 Original Alignment GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGA-GACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg ttgcagaagagacctagtaaactcaaagctttatcttactttgctttaagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCC-TGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgggttcccaacactgtaaccttaacttatgtaagctttgttaatccat Alignment from CESAR GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGA-GACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAg ttgcagaagagacctagtaaactcaaagctttatcttactttgctttaagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTC-CTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAggtgggttcccaacactgtaaccttaacttatgtaagctttgttaatccat Alignment from Spaln_aa2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG ttgcagaagagacctagtaaactcaaagctttatcttactttgctttaagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgggttcccaacactgtaaccttaacttatgtaagctttgttaatccat Alignment from Spaln_nt2Genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGA-GACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG ttgcagaagagacctagtaaactcaaagctttatcttactttgctttaagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCC-TGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgggttcccaacactgtaaccttaacttatgtaagctttgttaatccat Alignment from Pairagon GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGA-GACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG ttgcagaagagacctagtaaactcaaagctttatcttactttgctttaagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCC-TGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgggttcccaacactgtaaccttaacttatgtaagctttgttaatccat Alignment from Exonerate_protein2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG ttgcagaagagacctagtaaactcaaagctttatcttactttgctttaagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgggttcccaacactgtaaccttaacttatgtaagctttgttaatccat Alignment from Exonerate_coding2genome GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG ttgcagaagagacctagtaaactcaaagctttatcttactttgctttaagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgggttcccaacactgtaaccttaacttatgtaagctttgttaatccat Alignment from GeneWise GGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCAAGAGACGTCAAGGCCAAGCTGGAAGAGGCCCTGCTCCGTGGGGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAG ttgcagaagagacctagtaaactcaaagctttatcttactttgctttaagGGAAAGCAGAGTTCTGACAAAGTCAGTAACCAGGTCCTGCAGAAGTCTAGACGATGTCAAGGCCAAACTGGAAGAGGCCCTGCTCCTGGTGAAGGAGCCCGTGGGGAGATGATGCGCCGTCGCATTCCAGgtgggttcccaacactgtaaccttaacttatgtaagctttgttaatccat #### Dpf2_ID1305_8 --> 2 - 1 Original Alignment ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTC-TGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg ataacaaagtggggctcagcaaaaaagagccttctctcacttctgaccagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGC-TGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtaagtaacttactatacaccccatgccaaaggcttgactctatattgtt Alignment from CESAR ccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTC-TGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAg ataacaaagtggggctcagcaaaaaagagccttctctcacttctgaccagccAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAG-CTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAggtaagtaacttactatacaccccatgccaaaggcttgactctatattgtt Alignment from Spaln_aa2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTC-TGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaagtggggctcagcaaaaaagagccttctctcacttctgaccagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCcTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCT-GAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaacttactatacaccccatgccaaaggcttgactctatattgtt Alignment from Spaln_nt2Genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTT-CTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaagtggggctcagcaaaaaagagccttctctcacttctgaccagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAG-CTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaacttactatacaccccatgccaaaggcttgactctatattgtt Alignment from Pairagon CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTT-CTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaagtggggctcagcaaaaaagagccttctctcacttctgaccagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAG-CTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaacttactatacaccccatgccaaaggcttgactctatattgtt Alignment from Exonerate_protein2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTC-TGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAG--CCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaagtggggctcagcaaaaaagagccttctctcacttctgaccagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCT---GAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaacttactatacaccccatgccaaaggcttgactctatattgtt Alignment from Exonerate_coding2genome CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTC-TGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAG--CCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaagtggggctcagcaaaaaagagccttctctcacttctgaccagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCT---GAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaacttactatacaccccatgccaaaggcttgactctatattgtt Alignment from GeneWise CCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCTGCCTAGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCCCGAGGAGCTAGTGTCCTGTTCCGACTGTGGCCGCTCAG ataacaaagtggggctcagcaaaaaagagccttctctcacttctgaccagCCAAGAAAGGACCTGATGGATTGGCCCTGCCTAACAACTACTGTGACTTCCTGCCTTGGAGACTCAAAAATCAACAAGAAGACAGGGCAGCTGAGGAGCTAGTGTCCTGTTCTGACTGTGGCCGCTCAGgtaagtaacttactatacaccccatgccaaaggcttgactctatattgtt #### Drap1_ID984_6 --> 0 - 2 Original Alignment GATGAGTCTGAGGATACAGATACTGATGGG-GAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag tttttagcatattttgtgcccctaaattacttcattctgtttctcttaagGATAAGTCTGAGGATATGGATACAGATGGACGAGGAGGAGACACCCCAGCTCCCACCTCAGGCCAGTCACC-CCTTGCTCACTATCAGaggtaagttttacttaggaagtgtaccagttttctctctctgatactgtcgt Alignment from CESAR GATGAGTCTGAGGATACAGATACTGATGGG-GAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag tttttagcatattttgtgcccctaaattacttcattctgtttctcttaagGATAAGTCTGAGGATATGGATACAGATGGACGAGGAGGAGACACCCCAGCTCCCACCTCAGGCCAGTCACCCC-TTGCTCACTATCAGaggtaagttttacttaggaagtgtaccagttttctctctctgatactgtcgt Alignment from Spaln_aa2Genome GATGAGTCTGAGGATACAGATACTGATGGG-GAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG tttttagcatattttgtgcccctaaattacttcattctgtttctcttaagGATAAGTCTGAGGATATGGATACAGATGGAcGAGGAGGAGACACCCCAGCTCCCACCTCAGGCCAGTCACCCCTT-GCTCACTATCAGAGgtaagttttacttaggaagtgtaccagttttctctctctgatactgtcgt Alignment from Spaln_nt2Genome GATGAGTCTGAGGATACAGATACTGATGGG-GAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG tttttagcatattttgtgcccctaaattacttcattctgtttctcttaagGATAAGTCTGAGGATATGGATACAGATGGACGAGGAGGAGACACCCCAGCTCCCACCTCAGGCCAGTCACCC-CTTGCTCACTATCAGAGgtaagttttacttaggaagtgtaccagttttctctctctgatactgtcgt Alignment from Pairagon GATGAGTCTGAGGATACAGATACTGATGGG-GAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG tttttagcatattttgtgcccctaaattacttcattctgtttctcttaagGATAAGTCTGAGGATATGGATACAGATGGACGAGGAGGAGACACCCCAGCTCCCACCTCAGGCCAGTCACCC-CTTGCTCACTATCAGAGgtaagttttacttaggaagtgtaccagttttctctctctgatactgtcgt Alignment from Exonerate_protein2genome GATGAGTCTGAGGATACAGATACTGATGGG-GAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCT--CCTGCCCACTTTCAGAG tttttagcatattttgtgcccctaaattacttcattctgtttctcttaagGATAAGTCTGAGGATATGGATACAGATGGACGAGGAGGAGACACCCCAGCTCCCACCTCAGGCCAGTCACCCCTT---GCTCACTATCAGAGgtaagttttacttaggaagtgtaccagttttctctctctgatactgtcgt Alignment from Exonerate_coding2genome AGGATGAGTCTGAGGATACAGATACTGATGGG-GAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCT--CCTGCCCACTTTCAGAG tttttagcatattttgtgcccctaaattacttcattctgtttctcttaAGGATAAGTCTGAGGATATGGATACAGATGGACGAGGAGGAGACACCCCAGCTCCCACCTCAGGCCAGTCACCCCTT---GCTCACTATCAGAGgtaagttttacttaggaagtgtaccagttttctctctctgatactgtcgt Alignment from GeneWise GATGAGTCTGAGGATACAGATACTGATGGG-GAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAGC-- tttttagcatattttgtgcccctaaattacttcattctgtttctcttaagGATAAGTCTGAGGATATGGATACAGATGGACGAGGAGGAGACACCCCAGCTCCCACCTCAGGCCAGTCACCCCTTGCTCACTATCAGAGGTAAgttttacttaggaagtgtaccagttttctctctctgatactgtcgt #### Drap1_ID987_3 --> 2 - 2 Original Alignment ccCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAG-AAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACct gttattctgaggtggagttattccacaccagtggtgcttctctgttgcagcaCAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGCAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGA-AATGATCAACTCTCACttgtaagcattcccaacctgctagcgtgcttaacagtatggggatgttccag Alignment from CESAR ccCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAG-AAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACct gttattctgaggtggagttattccacaccagtggtgcttctctgttgcagcaCAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGCAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAG-AAATGATCAACTCTCACttgtaagcattcccaacctgctagcgtgcttaacagtatggggatgttccag Alignment from Spaln_aa2Genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAG-AAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT gttattctgaggtggagttattccacaccagtggtgcttctctgttgcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGcAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGAA-ATGATCAACTCTCACTTgtaagcattcccaacctgctagcgtgcttaacagtatggggatgttccag Alignment from Spaln_nt2Genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAG-AAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT gttattctgaggtggagttattccacaccagtggtgcttctctgttgcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGCAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGA-AATGATCAACTCTCACTTgtaagcattcccaacctgctagcgtgcttaacagtatggggatgttccag Alignment from Pairagon CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAG-AAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT gttattctgaggtggagttattccacaccagtggtgcttctctgttgcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGCAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGA-AATGATCAACTCTCACTTgtaagcattcccaacctgctagcgtgcttaacagtatggggatgttccag Alignment from Exonerate_protein2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT gttattctgaggtggagttattccacaccagtggtgcttctctgttgcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGCAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGAAATGATCAACTCTCACTTgtaagcattcccaacctgctagcgtgcttaacagtatggggatgttccag Alignment from Exonerate_coding2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT gttattctgaggtggagttattccacaccagtggtgcttctctgttgcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGCAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGAAATGATCAACTCTCACTTgtaagcattcccaacctgctagcgtgcttaacagtatggggatgttccag Alignment from GeneWise CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT gttattctgaggtggagttattccacaccagtggtgcttctctgttgcagCACAGGCACTTGAGCTTTTCTTAGAGTCCTTGCTTAAGCAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAGAAATGATCAACTCTCACTTgtaagcattcccaacctgctagcgtgcttaacagtatggggatgttccag #### Eef1g_ID2562_4 --> 2 - 0 Original Alignment taAGCAATGAGGAGCTGCGAGGAAGT-ACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagtgAGCAATGAGGAACTGCGAGGAAGCCGCACCAGAGGCAGCAGCTCAGATAGCACAGT-GGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from CESAR taAGCAATGAGGAGCTGCGAGGAAGT-ACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagtgAGCAATGAGGAACTGCGAGGAAGCCGCACCAGAGGCAGCAGCTCAGATAGCACAGT-GGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Spaln_aa2Genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCCGCACCAGAGGCAGCAGCTCAGATAGCACAGTGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Spaln_nt2Genome TAAGCAATGAGGAGCTGCGAGGAAGTA-CGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCCGCACCAGAGGCAGCAGCTCAGATAGCACAGT-GGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Pairagon TAAGCAATGAGGAGCTGCGAGGAAG-TACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCCGCACCAGAGGCAGCAGCTCAGATAGCACAGT-GGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Exonerate_protein2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCCGCACCAGAGGCAGCAGCTCAGATAGCACAGTGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from Exonerate_coding2genome TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCCGCACCAGAGGCAGCAGCTCAGATAGCACAGTGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt Alignment from GeneWise TAAGCAATGAGGAGCTGCGAGGAAGTACGCCAGAGGCGGCAGCTCAGGTGGTGCAGTGGGTCAGCTTTGCTGACAGTGACATCGTTCCTCCAGCTAGTACCTGGGTGTTCCCCACCTTGGGCATTATGCACCACAACAAACAG cctgagactaagttgttatgtactaaatgactctgtgcttgtcttgtcagTGAGCAATGAGGAACTGCGAGGAAGCCGCACCAGAGGCAGCAGCTCAGATAGCACAGTGGTTAGCTTTACAGACAGTGACATCGCTCCACCAGCAAGTACCTGGGTATTCCCCACCTTGGGAATCATGCACCACAACAAACAGgtatgctaattatcagttgagaatggtaagtacacattttgtgagtcatt #### Efemp2_ID1032_5 --> 2 - 1 Original Alignment acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGT-GTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gatacatccaagttggttggctaggctacaacctctgcctctcctcacagacATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCGTTCCGATGTCAAT-TGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGggtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from CESAR acATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGT-GTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGg gatacatccaagttggttggctaggctacaacctctgcctctcctcacagacATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCGTTCCGATGTCAA-TTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGggtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Spaln_aa2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCGTTCCGATGTCAATTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Spaln_nt2Genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGT-GTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCGTTCCGATGTCAAT-TGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Pairagon ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGT-GTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCGTTCCGATGTCAAT-TGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Exonerate_protein2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCGTTCCGATGTCAATTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from Exonerate_coding2genome ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCGTTCCGATGTCAATTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg Alignment from GeneWise ACATAGATGAGTGTCGTTACCGCTATTGCCAGCATCGATGTGTGAACCTGCCGGGCTCTTTTCGATGCCAGTGTGAGCCAGGCTTCCAGTTGGGACCTAACAACCGCTCTTGTGTGG gatacatccaagttggttggctaggctacaacctctgcctctcctcacagACATTGATGAGTGCCGTTACCACTATTGCCAGCATCGATGTCGTGATCCTACCAGGCTCGTTCCGATGTCAATTGAGCCAGGTTTCCAATTAGGCCCTAACATTCGTTCTTGTGTGGgtaaaacagcgtgtcccaaaggtctttaacctttgagtggaaccactatg #### Efemp2_ID1034_7 --> 2 - 1 Original Alignment atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCA-GGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagatATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCACGGCCAATTCTCCTGCCACTGTCCACAGGGCT-CCAGCTGCTGGCAACTAGGCTCTGCCAAggtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from CESAR atATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCA-GGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAg tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagatATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCACGGCCAATTCTCCTGCCACTGTCCACAGGGC-TCCAGCTGCTGGCAACTAGGCTCTGCCAAggtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from Spaln_aa2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCACGGCCAATTCTCCTGCCACTGTCCACAGGGCTCCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from Spaln_nt2Genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGC-CGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCACGGCCAATTCTCCTGCCACTGTCCACAGGGCTC-CAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from Pairagon ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCA-GGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAGATATT--------------------------------------------- tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCACGGCCAATTCTCCTGCCACTGTCCACAGGGCT-CCAGCTGCTGGCAACTAGGCTCTGCCAAGGTATTTAGCTTGGGCCAACAACCAACAGAATTCCAGCTCTCACTATGAGT Alignment from Exonerate_protein2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCACGGCCAATTCTCCTGCCACTGTCCACAGGGCTCCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from Exonerate_coding2genome ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCACGGCCAATTCTCCTGCCACTGTCCACAGGGCTCCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt Alignment from GeneWise ATATCGATGAGTGCGGCTACTCCAGTTACCTCTGCCAGTACCGCTGTGTCAACGAGCCAGGCCGATTCTCCTGTCACTGCCCACAAGGCTACCAGCTGCTGGCTACAAGGCTCTGCCAAG tctcaaatttcctccatggccaatgactgactgtatggcctttctttcagATATTGATGAGTGTGGCTACTCCAGCTATCTTGGGCAATACCGCTGTATTAATGAACCACGGCCAATTCTCCTGCCACTGTCCACAGGGCTCCAGCTGCTGGCAACTAGGCTCTGCCAAGgtatttagcttgggccaacaaccaacagaattccagctctcactatgagt #### Efemp2_ID1036_9 --> 1 - 0 Original Alignment cCGCTGCCTCTGCCCTGCCTCCAATCCCCTTTGTCGAGAGCAGCCTTCATCCATT-GTGCACCGCTACATGAGCATCACCTCAGAGCGAAGTGTGCCTGCTGACGTGTTTCAGATCCAGGCAACCTCTGTCTACCCTGGTGCCTACAATGCCTTTCAGATCCGTTCTGGAAACACACAGGGGGACTTCTACATTAGG catggtaactaaggccttacctttactttctcttccctctgtgttaacagtCGTTGCCTCTGCCCTGCTTCTATCCCCCTCTGTCGAGATCAGCCTACATCTATTCGTCCACCATTATATGAGTATCACTTCAGAACACA-TGTCCCTGATGACATTTTCCAAATTCAGGCAACCTCTGTGTACCCTGGGGCATACAATGCTTTTCAGATCTGCTCTGGCATCACCCAGGGGGAATTCTATATTAGGgtaagttcacattgcatttggtgtttgctaaacaactttgggacatatgg Alignment from CESAR cCGCTGCCTCTGCCCTGCCTCCAATCCCCTTTGTCGAGAGCAGCCTTCATCCATT-GTGCACCGCTACATGAGCATCACCTCAGAGCGAAGTGTGCCTGCTGACGTGTTTCAGATCCAGGCAACCTCTGTCTACCCTGGTGCCTACAATGCCTTTCAGATCCGTTCTGGAAACACACAGGGGGACTTCTACATTAGG catggtaactaaggccttacctttactttctcttccctctgtgttaacagtCGTTGCCTCTGCCCTGCTTCTATCCCCCTCTGTCGAGATCAGCCTACATCTATTCGTCCACCATTATATGAGTATCACTTCAGAACAC-ATGTCCCTGATGACATTTTCCAAATTCAGGCAACCTCTGTGTACCCTGGGGCATACAATGCTTTTCAGATCTGCTCTGGCATCACCCAGGGGGAATTCTATATTAGGgtaagttcacattgcatttggtgtttgctaaacaactttgggacatatgg Alignment from Spaln_aa2Genome CCGCTGCCTCTGCCCTGCCTCCAATCCCCTTTGTCGAGAGCAGCCTTCATCCATTGTGCACCGCTACATGAGCATCACCTCAGAGCGAAGTGTGCCTGCTGACGTGTTTCAGATCCAGGCAACCTCTGTCTACCCTGGTGCCTACAATGCCTTTCAGATCCGTTCTGGAAACACACAGGGGGACTTCTACATTAGG catggtaactaaggccttacctttactttctcttccctctgtgttaacagTCGTTGCCTCTGCCCTGCTTCTATCCCCCTCTGTCGAGATCAGCCTACATCTATTCGTCCACCATTATATGAGTATCACTTCAGAACACATGTCCCTGATGACATTTTCCAAATTCAGGCAACCTCTGTGTACCCTGGGGCATACAATGCTTTTCAGATCTGCTCTGGCATCACCCAGGGGGAATTCTATATTAGGgtaagttcacattgcatttggtgtttgctaaacaactttgggacatatgg Alignment from Spaln_nt2Genome CCGCTGCCTCTGCCCTGCCTCCAATCCCCTTTGTCGAGAGCAGCCTTCATCCATT-GTGCACCGCTACATGAGCATCACCTCAGAGCGAAGTGTGCCTGCTGACGTGTTTCAGATCCAGGCAACCTCTGTCTACCCTGGTGCCTACAATGCCTTTCAGATCCGTTCTGGAAACACACAGGGGGACTTCTACATTAGG catggtaactaaggccttacctttactttctcttccctctgtgttaacagTCGTTGCCTCTGCCCTGCTTCTATCCCCCTCTGTCGAGATCAGCCTACATCTATTCGTCCACCATTATATGAGTATCACTTCAGAAC-ACATGTCCCTGATGACATTTTCCAAATTCAGGCAACCTCTGTGTACCCTGGGGCATACAATGCTTTTCAGATCTGCTCTGGCATCACCCAGGGGGAATTCTATATTAGGgtaagttcacattgcatttggtgtttgctaaacaactttgggacatatgg Alignment from Pairagon CCGCTGCCTCTGCCCTGCCTCCAATCCCCTTTGTCGAGAGCAGCCTTCATCCATT-GTGCACCGCTACATGAGCATCACCTCAGAGCGAAGTGTGCCTGCTGACGTGTTTCAGATCCAGGCAACCTCTGTCTACCCTGGTGCCTACAATGCCTTTCAGATCCGTTCTGGAAACACACAGGGGGACTTCTACATTAGG catggtaactaaggccttacctttactttctcttccctctgtgttaacagTCGTTGCCTCTGCCCTGCTTCTATCCCCCTCTGTCGAGATCAGCCTACATCTATTCGTCCACCATTATATGAGTATCACTTCAGAAC-ACATGTCCCTGATGACATTTTCCAAATTCAGGCAACCTCTGTGTACCCTGGGGCATACAATGCTTTTCAGATCTGCTCTGGCATCACCCAGGGGGAATTCTATATTAGGgtaagttcacattgcatttggtgtttgctaaacaactttgggacatatgg Alignment from Exonerate_protein2genome CCGCTGCCTCTGCCCTGCCTCCAATCCCCTTTGTCGAGAGCAGCCTTCATCCATTGTGCACCGCTACATGAGCATCACCTCAGAGCGAAGTGTGCCTGCTGACGTGTTTCAGATCCAGGCAACCTCTGTCTACCCTGGTGCCTACAATGCCTTTCAGATCCGTTCTGGAAACACACAGGGGGACTTCTACATTAGG catggtaactaaggccttacctttactttctcttccctctgtgttaacagTCGTTGCCTCTGCCCTGCTTCTATCCCCCTCTGTCGAGATCAGCCTACATCTATTCGTCCACCATTATATGAGTATCACTTCAGAACACATGTCCCTGATGACATTTTCCAAATTCAGGCAACCTCTGTGTACCCTGGGGCATACAATGCTTTTCAGATCTGCTCTGGCATCACCCAGGGGGAATTCTATATTAGGgtaagttcacattgcatttggtgtttgctaaacaactttgggacatatgg Alignment from Exonerate_coding2genome CCGCTGCCTCTGCCCTGCCTCCAATCCCCTTTGTCGAGAGCAGCCTTCATCCATTGTGCACCGCTACATGAGCATCACCTCAGAGCGAAGTGTGCCTGCTGACGTGTTTCAGATCCAGGCAACCTCTGTCTACCCTGGTGCCTACAATGCCTTTCAGATCCGTTCTGGAAACACACAGGGGGACTTCTACATTAGG catggtaactaaggccttacctttactttctcttccctctgtgttaacagTCGTTGCCTCTGCCCTGCTTCTATCCCCCTCTGTCGAGATCAGCCTACATCTATTCGTCCACCATTATATGAGTATCACTTCAGAACACATGTCCCTGATGACATTTTCCAAATTCAGGCAACCTCTGTGTACCCTGGGGCATACAATGCTTTTCAGATCTGCTCTGGCATCACCCAGGGGGAATTCTATATTAGGgtaagttcacattgcatttggtgtttgctaaacaactttgggacatatgg Alignment from GeneWise CCGCTGCCTCTGCCCTGCCTCCAATCCCCTTTGTCGAGAGCAGCCTTCATCCATTGTGCACCGCTACATGAGCATCACCTCAGAGCGAAGTGTGCCTGCTGACGTGTTTCAGATCCAGGCAACCTCTGTCTACCCTGGTGCCTACAATGCCTTTCAGATCCGTTCTGGAAACACACAGGGGGACTTCTACATTAGG catggtaactaaggccttacctttactttctcttccctctgtgttaacagTCGTTGCCTCTGCCCTGCTTCTATCCCCCTCTGTCGAGATCAGCCTACATCTATTCGTCCACCATTATATGAGTATCACTTCAGAACACATGTCCCTGATGACATTTTCCAAATTCAGGCAACCTCTGTGTACCCTGGGGCATACAATGCTTTTCAGATCTGCTCTGGCATCACCCAGGGGGAATTCTATATTAGGgtaagttcacattgcatttggtgtttgctaaacaactttgggacatatgg #### Ehbp1l1_ID1217_18 --> 2 - 2 Original Alignment agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTG-GAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat tttttcatagtaggccagaaaggagcacttatttatttatttattcatagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGGCTTGTGTCTTTAGTGAACCAGAGGG-AGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGgtgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from CESAR agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTG-GAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat tttttcatagtaggccagaaaggagcacttatttatttatttattcatagaaTGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGGCTTGTGTCTTTAGTGAACCAGAGGG-AGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGgtgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Spaln_aa2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Spaln_nt2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTG-TTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGA-GAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Pairagon AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCT-GTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGA-GAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Exonerate_protein2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGAT tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGGTgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from Exonerate_coding2genome tttttcatagtaggccagaaaggagcacttatttatttatttattcatagaatggcatacaacagttgcacagcagcactgtgaacaactcctccttcgaggggcttgtgtctttagtgaaccagagggagagctagttggggatttagatcagaaggagcaggtgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc Alignment from GeneWise AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGG tttttcatagtaggccagaaaggagcacttatttatttatttattcatagAATGGCATACAACAGTTGCACAGCAGCACTGTGAACAACTCCTCCTTCGAGGGGCTTGTGTCTTTAGTGAACCAGAGGGAGAGCTAGTTGGGGATTTAGATCAGAAGGAGCAGgtgcaagtacatgcccaagtacaaaccttgaggatagcacctataaagaccc #### Ehbp1l1_ID1220_15 --> 0 - 1 Original Alignment CAACGGTTCCAGGACACA-AGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACACAGCCAGTATGTGTGTGCAGAGCAACAAGCCCTTG-GCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAggtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from CESAR CAACGGTTCCAGGACACA-AGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACACAGCCAGTATGTGTGTGCAGAGCAACAAGCCCTT-GGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAggtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Spaln_aa2Genome CAACGGTTCCAGGACACA-AGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACAcAGCCAGTATGTGTGTGCAGAGCAACAAGCCCTTGG-CAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Spaln_nt2Genome CAACGGTTCCAGGACACA-AGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACACAGCCAGTATGTGTGTGCAGAGCAACAAGCCCTTG-GCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Pairagon CAACGGTTCCAGGACACA-AGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACACAGCCAGTATGTGTGTGCAGAGCAACAAGCCCTTG-GCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Exonerate_protein2genome CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACACAGCCAGTATGTGTGTGCAGAGCAACAAGCCCTTGGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from Exonerate_coding2genome CTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTGCAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTG--GAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttagGTGAGGCAACCTGTCCTCCCACCTGCCCACACCTGCCTAGCATCGGTTACAGGACACACAGCCAGTATGTGTGTGCAGAGCAACAAGCCCTTGG---CAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca Alignment from GeneWise CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG tgaggtttaggtgaggcaacctgtcctcccacctgcccacacctgcctagCATCGGTTACAGGACACACAGCCAGTATGTGTGTGCAGAGCAACAAGCCCTTGGCAGGAACAGGGACAGGTTGATGGCAGGGCCCCTGAAGTGCAGAGACAATTTCGGAGCCTGATGGAATCAGgtatgcccccctagtttcatctgtgcttaaaacccaatacaattgagaca #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTG-CCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCAGTGGGTGTCATT------CATCATGCAGGTCCCCTACCCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCA-GTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCTGTC---CTTCTACAAGAAGGCCGTGCCatgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTG-CCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCAGTGGGTGTC------ATTCATCATGCAGGTCCCCTACCCTGGCCAGATCTCACTTCAATTGCGGCAGAAGC-CCAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCatgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Spaln_aa2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCAGTGGGTGTC------ATTCATCATGCAGGTCCCCTACCCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCATgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCC-TGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCAGTGGGTGTCA------TTCATCATGCAGGTCCCCTACCCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCC-AGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCATgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGT-----------------------------------------ACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCAGTGGGTGTCATTCATCATGCAGGTCCCCTACCCTGGC----------------------------------------------CAGATCTCACTTCAATTGCGGCAGAAGCCC-AGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCATgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Exonerate_protein2genome tacaacagcccatcttcacatttctcccccctctctccgcccatcttcaggagtcaaaaggacagcggaaagttttagctgcagtgggtgtcattcatcatgcaggtcccctaccctggccagatctcacttcaattgcggcagaagcccagtccatcaaagttgtacacgctgagcttaccctcacactcgctgtccttctacaagaaggccgtgccatgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from Exonerate_coding2genome tacaacagcccatcttcacatttctcccccctctctccgcccatcttcaggagtcaaaaggacagcggaaagttttagctgcagtgggtgtcattcatcatgcaggtcccctaccctggccagatctcacttcaattgcggcagaagcccagtccatcaaagttgtacacgctgagcttaccctcacactcgctgtccttctacaagaaggccgtgccatgcaagcgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCC------AC tacaacagcccatcttcacatttctcccccctctctccgcccatcttcagGAGTCAAAAGGACAGCGGAAAGTTTTAGCTGCAGTGGGTGTC------ATTCATCATGCAGGTCCCCTACCCTGGCCAGATCTCACTTCAATTGCGGCAGAAGCCCAGTCCATCAAAGTTGTACACGCTGAGCTTACCCTCACACTCGCT---GTCCTTCTACAAGAAGGCCGTGCCATGCAAGCgtacctttgtgcaggcagttttacagtgaggctgggcagcatgc #### Eif1ad_ID949_2 --> 0 - 1 Original Alignment GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCA-CAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAg acaatgcaaatacatcataatgagtgattgccatgctcttctgtggccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACAGCTCCAGGGGCAACGCTTCCTGGTCAGCATGC-CTCCAAATACCGTAAGAACATCTGGATCAAGAGAggtatgatgtttttgctttctcaactaccaaacatgataccactctgtccc Alignment from CESAR GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCA-CAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAg acaatgcaaatacatcataatgagtgattgccatgctcttctgtggccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACAGCTCCAGGGGCAACGCTTCCTGGTCAGCATGC-CTCCAAATACCGTAAGAACATCTGGATCAAGAGAggtatgatgtttttgctttctcaactaccaaacatgataccactctgtccc Alignment from Spaln_aa2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaatacatcataatgagtgattgccatgctcttctgtggccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACAGCTCCAGGGGCAACGCTTCCTGGTCAGCATGCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtatgatgtttttgctttctcaactaccaaacatgataccactctgtccc Alignment from Spaln_nt2Genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCA-CAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaatacatcataatgagtgattgccatgctcttctgtggccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACAGCTCCAGGGGCAACGCTTCCTGGTCAGCATG-CCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtatgatgtttttgctttctcaactaccaaacatgataccactctgtccc Alignment from Pairagon GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGC-ACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaatacatcataatgagtgattgccatgctcttctgtggccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACAGCTCCAGGGGCAACGCTTCCTGGTCAGCATG-CCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtatgatgtttttgctttctcaactaccaaacatgataccactctgtccc Alignment from Exonerate_protein2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaatacatcataatgagtgattgccatgctcttctgtggccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACAGCTCCAGGGGCAACGCTTCCTGGTCAGCATGCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtatgatgtttttgctttctcaactaccaaacatgataccactctgtccc Alignment from Exonerate_coding2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaatacatcataatgagtgattgccatgctcttctgtggccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACAGCTCCAGGGGCAACGCTTCCTGGTCAGCATGCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtatgatgtttttgctttctcaactaccaaacatgataccactctgtccc Alignment from GeneWise GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG acaatgcaaatacatcataatgagtgattgccatgctcttctgtggccagGTCCTCAGGACCCCAGGGAACAATTTGCATGAGGTGGAAACAGCTCCAGGGGCAACGCTTCCTGGTCAGCATGCCTCCAAATACCGTAAGAACATCTGGATCAAGAGAGgtatgatgtttttgctttctcaactaccaaacatgataccactctgtccc #### Eif1ad_ID950_3 --> 2 - 2 Original Alignment ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAG-ATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagggGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGCATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGC-AAAGGAGGGCCAAtggtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from CESAR ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAG-ATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACtg aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagggGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGCATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGC-AAAGGAGGGCCAAtggtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Spaln_aa2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGCATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Spaln_nt2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAG-ATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGCATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCA-AAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Pairagon GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAG-ATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACTG aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGCATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCA-AAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Exonerate_protein2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAG-ATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACT aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGCATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from Exonerate_coding2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAG-ATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCACT aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGCATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga Alignment from GeneWise GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAG-ATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCAC- aatgatgcatcatgctgctctacacaaaaagctcttgtaattgtttatagGGGACTTTCTCATTGTTGAACCTTTTGAAGGTGGTGAGAAAGTCAAGGCAGAGCATTTTGTTTGTACTCTGCAAGAACCATGTCCACACCCTGCAAAGGAGGGCCAATGgtgagccagtctccctgtgcccctgctcagtgaagtagttaggttgtcga #### Eif3a_ID13317_13 --> 0 - 0 Original Alignment GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAA-CAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG gcaagtccctaatgccatagaaatttacgacacatgtgcactcgctgcagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACCAGGTAGAACAGTTGGAAAAGGAAAAGAAAGAACTTC-AGAACGCCTCAAGACACAAGAAGAGAAGgtgagggtggatcactgataagttctataagtaaagtagatcaaaaggaa Alignment from CESAR GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAA-CAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG gcaagtccctaatgccatagaaatttacgacacatgtgcactcgctgcagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACCAGGTAGAACAGTTGGAAAAGGAAAAGAAAGAACTTC-AGAACGCCTCAAGACACAAGAAGAGAAGgtgagggtggatcactgataagttctataagtaaagtagatcaaaaggaa Alignment from Spaln_aa2Genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAA-CAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG gcaagtccctaatgccatagaaatttacgacacatgtgcactcgctgcagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAAcCAGGTAGAACAGTTGGAAAAGGAAAAGAAAGAACTTCAGAA-CGCCTCAAGACACAAGAAGAGAAGgtgagggtggatcactgataagttctataagtaaagtagatcaaaaggaa Alignment from Spaln_nt2Genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAA-CAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG gcaagtccctaatgccatagaaatttacgacacatgtgcactcgctgcagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACCAGGTAGAACAGTTGGAAAAGGAAAAGAAAGAACTTCA-GAACGCCTCAAGACACAAGAAGAGAAGgtgagggtggatcactgataagttctataagtaaagtagatcaaaaggaa Alignment from Pairagon GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAA-CAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG gcaagtccctaatgccatagaaatttacgacacatgtgcactcgctgcagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACCAGGTAGAACAGTTGGAAAAGGAAAAGAAAGAACTTCA-GAACGCCTCAAGACACAAGAAGAGAAGgtgagggtggatcactgataagttctataagtaaagtagatcaaaaggaa Alignment from Exonerate_protein2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG gcaagtccctaatgccatagaaatttacgacacatgtgcactcgctgcagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACCAGGTAGAACAGTTGGAAAAGGAAAAGAAAGAACTTCAGAACGCCTCAAGACACAAGAAGAGAAGgtgagggtggatcactgataagttctataagtaaagtagatcaaaaggaa Alignment from Exonerate_coding2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG gcaagtccctaatgccatagaaatttacgacacatgtgcactcgctgcagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACCAGGTAGAACAGTTGGAAAAGGAAAAGAAAGAACTTCAGAACGCCTCAAGACACAAGAAGAGAAGgtgagggtggatcactgataagttctataagtaaagtagatcaaaaggaa Alignment from GeneWise GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG gcaagtccctaatgccatagaaatttacgacacatgtgcactcgctgcagGACTTTGAAGAACTGGATCAGGATTTTATAATGGCCAAACCAGGTAGAACAGTTGGAAAAGGAAAAGAAAGAACTTCAGAACGCCTCAAGACACAAGAAGAGAAGgtgagggtggatcactgataagttctataagtaaagtagatcaaaaggaa #### Eif3a_ID13320_10 --> 0 - 0 Original Alignment GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTG-TGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from CESAR GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTT-GTGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Spaln_aa2Genome GTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGTGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Spaln_nt2Genome GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTG-TGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Pairagon GTGGCACAGATTTATCAGAGCATTGAGTTT-TCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTG-TGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Exonerate_protein2genome GTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGTGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from Exonerate_coding2genome GTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGTGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct Alignment from GeneWise GTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAG tctctactaatgcttttgtgctaaaaccttgttgctattttgttttctagGTGGCACAGATTTATCAGAGCATTGAGTTTCTCCCGTTTAACTTCTTTAGTGCCTTTTGTTGTGCTTTTCAACTGGAGCGGGCAATAGTAGATGCAGCCCGGCACTGTGACCTGCAGgtaagatttacagatatggtttgcattgtatgacctgtaaaattagttct #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAG-GGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC gtaaggtgagtaagtagaattatcccaatttgatgtgtttgtccctctagcAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAACGGGAGCAGCAAAGAACCTACTGGAATCCAATTAC-AGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATacgttaatatactaatttctgttgtagaCCCCGAAGAAATTCTTTGTCCTCA Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAG-GGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac gCCCCGAAGAAATTCTTCCTCCTCC gtaagatgagtaagtagaattatcccaatttgatgtgtttgtccctctagcAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAACGGGAGCAGCAAAGAACCTACTGGAATCCAA-TTACAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATacgtgaatgtccttttcctttgtatagaCCCCGAAGAAATTCTTTGTCCTCA Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCT gtaaggtgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAACGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATACgttaatatactaatttctgttgtagaccccgaagA---------AATTCT Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGG-GCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCCTCCTCC gtaaggtgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAACGGGAGCAGCAAAGAACCTACTGGAATCCAAT-TACAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGA----------ATgttcagatacgttaatatactaatttctgttgtagACCCCGAAGAAATTCTTTGTCCTCA Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAG-GGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG-------------------------CCCCGAAGAAATTCTTCCTCCTCC gtaaggtgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAACGGGAGCAGCAAAGAACCTACTGGAATCCAAT-TACAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATACGTTAATATACTAATTTCTGTTGTAGACCCCGAAGAAATTCTTTGTCCTCA Alignment from Exonerate_protein2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC GCCCCGAAGAAATTCTTCC gtaaggtgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAACGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATACgttaatatactaatttctgttgtagaccccgAAGAAATTCTTTGTCCTCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACACG---------------------------CCCCGAAGAAATTCTTCCTCCT gtaaggtgagtaagtagaattatcccaatttgatgtgtttgtccctctagCAGCATAACAGTCCCACCGGGGCGGCCACCAATCAGTAGTCCTTCCCTGCTTACAAAAGGCACACAAACTAAAGAAGAGTTGGAGATTGTTCCTTCCTCTGGACCACCTGGTCTAAGCAATGGCCCACCAGCTCTACAACGGGAGCAGCAAAGAACCTACTGGAATCCAATTACAGGTGGTTGCCGCAGCAGTAGTGGATCAGGCTCACCAGGGCCTCCAGGAATCCTCAGGCCGGTGCAGCCGCTTGAATGTTCAGATACGTTAATATACT--AATTTCTGTTGTAGACCCCGAAGAAATTCTTTGTCCT #### Eml3_ID2506_5 --> 1 - 1 Original Alignment cCGGGGGAACAAAGAC-CCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAg ccatcactagcgatggacacaggtttcaaaatattctccttttgtttaagtCGGGGGAATAAAGACCCCCCTGTCCAGTCCTGGGGGTCCTGGCT-TCGGAGGAGCAATTATAATTTAggtgggttaaggagggaacatggcattaacacagactagtaatggcattaa Alignment from CESAR cCGGGGGAACAAAGACCCT-CTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAg ccatcactagcgatggacacaggtttcaaaatattctccttttgtttaagtCGGGGGAATAAAGACCCCCCTGTCCAGTCCTGGGGGTCCTGGC-TTCGGAGGAGCAATTATAATTTAggtgggttaaggagggaacatggcattaacacagactagtaatggcattaa Alignment from Spaln_aa2Genome CCGGGGGAACAAAGACCCT-CTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG ccatcactagcgatggacacaggtttcaaaatattctccttttgtttaagTCGGGGGAATAAAGACCCCcCTGTCCAGTCCTGGGGGTCCTGGCTT-CGGAGGAGCAATTATAATTTAGgtgggttaaggagggaacatggcattaacacagactagtaatggcattaa Alignment from Spaln_nt2Genome CCGGGGGAACAAAGACCCTC-TGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG ccatcactagcgatggacacaggtttcaaaatattctccttttgtttaagTCGGGGGAATAAAGACCCCCCTGTCCAGTCCTGGGGGTCCTGGCT-TCGGAGGAGCAATTATAATTTAGgtgggttaaggagggaacatggcattaacacagactagtaatggcattaa Alignment from Pairagon CCGGGGGAACAAAGA-CCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG ccatcactagcgatggacacaggtttcaaaatattctccttttgtttaagTCGGGGGAATAAAGACCCCCCTGTCCAGTCCTGGGGGTCCTGGCT-TCGGAGGAGCAATTATAATTTAGgtgggttaaggagggaacatggcattaacacagactagtaatggcattaa Alignment from Exonerate_protein2genome CCGGGGGAACAAAGACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG ccatcactagcgatggacacaggtttcaaaatattctccttttgtttaagTCGGGGGAATAAAGACCCCCCTGTCCAGTCCTGGGGGTCCTGGCTTCGGAGGAGCAATTATAATTTAGgtgggttaaggagggaacatggcattaacacagactagtaatggcattaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCGGGGGAACAAAGACCCTCTGTCCAGTCCTGGGGGTCCCGGATCTCGGAGGAGCAATTATAACTTAG ccatcactagcgatggacacaggtttcaaaatattctccttttgtttaagTCGGGGGAATAAAGACCCCCCTGTCCAGTCCTGGGGGTCCTGGCTTCGGAGGAGCAATTATAATTTAGgtgggttaaggagggaacatggcattaacacagactagtaatggcattaa #### Eml3_ID2508_7 --> 1 - 2 Original Alignment tTATGGGTACAGG-GGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagtTATGGATATAGACGGTCAGGATTCTTGCTCAAATTTATTTGTGCTAC-CCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCAGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGAtggtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from CESAR tTATGGGTACAGG-GGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGAtg ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagtTATGGATATAGACGGTCAGGATTCTTGCTCAAATTTATTTGTGCTA-CCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCAGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGAtggtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Spaln_aa2Genome AT---GGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGACGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACC-CCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCAGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Spaln_nt2Genome TTATGGGTACAGG-GGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGACGGTCAGGATTCTTGCTCAAATTTATTTGTGCTAC-CCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCAGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Pairagon TTATGGGTACAGG-GGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGACGGTCAGGATTCTTGCTCAAATTTATTTGTGCTAC-CCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCAGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Exonerate_protein2genome TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGACGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCAGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTATGGGTACAGGGGTCGTGATTCTCGCTCTAATCTATTTGTGCTGCGCTCTGGGGAGGTGGTCTACTTTATTGCCTGTGTAGTGGTGCTGTACCGGCCTGGGGGAGGCCCAGGGGGTCCTGGAGGTGGCGGCCAGAGACATTACCGGGGTCACACAGACTGCGTTCGATG ttacttctgctaacccccccccatagcctcatgtgtgcttatgattgcagTTATGGATATAGACGGTCAGGATTCTTGCTCAAATTTATTTGTGCTACCCCTGGTGATGTTGTCTACTTTATTGCCTGTGTAGTCGTACTGTACCGGCCAGGAGGAGGTCCAGGCGGGCCAGGAGGTGGTAGCCAGAGACATTATCGGGGCCACACAGACTGTATTCGATGgtaaggaccgtcatagtggtaaacacttgattcatgttgacttcaaggaa #### Eml3_ID2509_8 --> 1 - 0 Original Alignment cCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atcacagagtgtgattggtgattttatgtgtttgttgtggcatcttgcagtCTTGCTGTACACCCTGATCGGAGTTCATGTAGCTTCAGGGCCGACAGCTGGCG-GGACAAGGATGGAAAGgtagaggccagcatgcagatggcaataagatcattgatcaagtttcctat Alignment from CESAR cCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atcacagagtgtgattggtgattttatgtgtttgttgtggcatcttgcagtCTTGCTGTACACCCTGATCGGAGTTCATGTAGCTTCAGGGCCGACAGCTGGC-GGGACAAGGATGGAAAGgtagaggccagcatgcagatggcaataagatcattgatcaagtttcctat Alignment from Spaln_aa2Genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atcacagagtgtgattggtgattttatgtgtttgttgtggcatcttgcagTCTTGCTGTACACCCTGATCGGAGTTCATGTAGCTTCAGGGCCGACAGCTGGCGGGACAAGGATGGAAAGgtagaggccagcatgcagatggcaataagatcattgatcaagtttcctat Alignment from Spaln_nt2Genome CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atcacagagtgtgattggtgattttatgtgtttgttgtggcatcttgcagTCTTGCTGTACACCCTGATCGGAGTTCATGTAGCTTCAGGGCCGACAGCTGGCGG-GACAAGGATGGAAAGgtagaggccagcatgcagatggcaataagatcattgatcaagtttcctat Alignment from Pairagon CCTTGCTGTTCACCCTGAT-GGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atcacagagtgtgattggtgattttatgtgtttgttgtggcatcttgcagTCTTGCTGTACACCCTGATCGGAGTTCATGTAGCTTCAGGGCCGACAGCTGGCG-GGACAAGGATGGAAAGgtagaggccagcatgcagatggcaataagatcattgatcaagtttcctat Alignment from Exonerate_protein2genome CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGAAAG atcacagagtgtgattggtgattttatgtgtttgttgtggcatcttgcagTCTTGCTGTACACCCTGATCGGAGTTCATGTAGCTTCAGGGCCGACAGCTGGCGGGACAAGGATGGAAAGgtagaggccagcatgcagatggcaataagatcattgatcaagtttcctat Alignment from Exonerate_coding2genome atcacagagtgtgattggtgattttatgtgtttgttgtggcatcttgcagtcttgctgtacaccctgatcggagttcatgtagcttcagggccgacagctggcgggacaaggatggaaaggtagaggccagcatgcagatggcaataagatcattgatcaagtttcctat Alignment from GeneWise CCTTGCTGTTCACCCTGATGGTGTTCGTGTAGCCTCAGGACAGACAGCTGGAGTGGACAAGGATGGA----------------------------------------------------- atcacagagtgtgattggtgattttatgtgtttgttgtggcatcttgcagTCTTGCTGTACACCCTGATCGGAGTTCATGTAGCTTCAGGGCCGACAGCTGGCGGGACAAGGATGGAAAGGTAGAGGCCAGCATGCAGATGGCAATAAGATCATTGATCAAGTTTCCTAT #### Eml3_ID2512_11 --> 0 - 0 Original Alignment AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCAC-TTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tggcttcagggctcaaacaggtgtaccaaagcgtggctttctctccccagAGTACAAATGACTCTGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCACCTTTTGGAATTGGAGTGGTGGTACAGGGG-TCCTGGAAATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtgagacgggtaagatagacaaacgcatggtataatcacaacatactgcg Alignment from CESAR AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCAC-TTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tggcttcagggctcaaacaggtgtaccaaagcgtggctttctctccccagAGTACAAATGACTCTGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCACCTTTTGGAATTGGAGTGGTGGTACAGGG-GTCCTGGAAATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtgagacgggtaagatagacaaacgcatggtataatcacaacatactgcg Alignment from Spaln_aa2Genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tggcttcagggctcaaacaggtgtaccaaagcgtggctttctctccccagAGTACAAATGACTCTGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCACCTTTTGGAATTGGAGTGGTGGTACAGGGGTCCTGGAAATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtgagacgggtaagatagacaaacgcatggtataatcacaacatactgcg Alignment from Spaln_nt2Genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCA-CTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tggcttcagggctcaaacaggtgtaccaaagcgtggctttctctccccagAGTACAAATGACTCTGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCACCTTTTGGAATTGGAGTGGTGGTACA-GGGGTCCTGGAAATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtgagacgggtaagatagacaaacgcatggtataatcacaacatactgcg Alignment from Pairagon AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCA-CTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tggcttcagggctcaaacaggtgtaccaaagcgtggctttctctccccagAGTACAAATGACTCTGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCACCTTTTGGAATTGGAGTGGTGGTACAGGGG-TCCTGGAAATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtgagacgggtaagatagacaaacgcatggtataatcacaacatactgcg Alignment from Exonerate_protein2genome AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tggcttcagggctcaaacaggtgtaccaaagcgtggctttctctccccagAGTACAAATGACTCTGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCACCTTTTGGAATTGGAGTGGTGGTACAGGGGTCCTGGAAATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtgagacgggtaagatagacaaacgcatggtataatcacaacatactgcg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGTACAAATGACTCAGTCCTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGCTGTATTGTCACCAGTGGGAAATCGCATGTCCACTTTTGGAACTGGAGCGGTGGGACAGGGGCTCCCGGGAATGGGCTCCTCGCCCGGAAGCAGGGTGTTTTTGGG tggcttcagggctcaaacaggtgtaccaaagcgtggctttctctccccagAGTACAAATGACTCTGTACTCGCTGTTGGCTTCAGCCCTCGTGACAGCAGTTGTATTGTTACTAGTGGAAAATCACATGTTCACCTTTTGGAATTGGAGTGGTGGTACAGGGGTCCTGGAAATGGAATCCTTGCACGGAAGCAGGATGTTCTTGGGgtgagacgggtaagatagacaaacgcatggtataatcacaacatactgcg #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACA-AAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG tggatgtggagacatgggaaatagataatgtctctcattttctgaaacagGTGCCAGAACATTTGGGTTCAGTAAGTGTGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACACAAGAATGCCTTGCTCAGAGCAGATCTTGCCCAAG-TTTCTCTCCAGTGATCCAGgtgtgtaccctgtaagacactgagggagggaccatcagtgtttccccagc Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACA-AAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG tggatgtggagacatgggaaatagataatgtctctcattttctgaaacagGTGCCAGAACATTTGGGTTCAGTAAGTGTGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACACAAGAATGCCTTGCTCAGAGCAGATCTTGCCC-AAGTTTCTCTCCAGTGATCCAGgtgtgtaccctgtaagacactgagggagggaccatcagtgtttccccagc Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG tggatgtggagacatgggaaatagataatgtctctcattttctgaaacagGTGCCAGAACATTTGGGTTCAGTAAGTGTGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACACAAGAATGCCTTGCTCAGAGCAGATCTTGCCCAAGTTTCTCTCCAGTGATCCAGgtgtgtaccctgtaagacactgagggagggaccatcagtgtttccccagc Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACA-AAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG tggatgtggagacatgggaaatagataatgtctctcattttctgaaacagGTGCCAGAACATTTGGGTTCAGTAAGTGTGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACACAAGAATGCCTTGCTCAGAGCAGATCTTGCCCAA-GTTTCTCTCCAGTGATCCAGgtgtgtaccctgtaagacactgagggagggaccatcagtgtttccccagc Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACA-AAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG tggatgtggagacatgggaaatagataatgtctctcattttctgaaacagGTGCCAGAACATTTGGGTTCAGTAAGTGTGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACACAAGAATGCCTTGCTCAGAGCAGATCTTGCCCAA-GTTTCTCTCCAGTGATCCAGgtgtgtaccctgtaagacactgagggagggaccatcagtgtttccccagc Alignment from Exonerate_protein2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG tggatgtggagacatgggaaatagataatgtctctcattttctgaaacagGTGCCAGAACATTTGGGTTCAGTAAGTGTGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACACAAGAATGCCTTGCTCAGAGCAGATCTTGCCCAAGTTTCTCTCCAGTGATCCAGgtgtgtaccctgtaagacactgagggagggaccatcagtgtttccccagc Alignment from Exonerate_coding2genome tggatgtggagacatgggaaatagataatgtctctcattttctgaaacaggtgccagaacatttgggttcagtaagtgtgattgctgatggacttggagctgaactactggtggggaccacacaagaatgccttgctcagagcagatcttgcccaagtttctctccagtgatccaggtgtgtaccctgtaagacactgagggagggaccatcagtgtttccccagc Alignment from GeneWise ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG tggatgtggagacatgggaaatagataatgtctctcattttctgaaacagGTGCCAGAACATTTGGGTTCAGTAAGTGTGATTGCTGATGGACTTGGAGCTGAACTACTGGTGGGGACCACACAAGAATGCCTTGCTCAGAGCAGATCTTGCCCAAGTTTCTCTCCAGTGATCCAGgtgtgtaccctgtaagacactgagggagggaccatcagtgtttccccagc #### Eno4_ID12834_6 --> 0 - 0 Original Alignment GAGCAGCCGTCAACATTCTCTATGCCTTTGCTGATGGGATCTGTACTGAGCTGTGGGAAGTCGTCACCT-GGGAAGCTACATTTAATGAAAGAAGTGATTTGTATTCCCAGTCCTGGATTAACAGCCAAACAA gcatatgtagagatagagctctcataaggccctctccactaatcctgtagGAGCAACCATCAGCGTACTCTATGCCATTGCTGATGGGATCTATACTTAGTTGTGGTAAGTCTTCCCCTCGGTCGGATACATTTGATGAGAGGGGTAATTTGCATTCCAA-TCCTGGATTGACAGCTAAACAAgtgaatgatataaaaaaccatggcttcaaacagatatacagtcacactgc Alignment from CESAR GAGCAGCCGTCAACATTCTCTATGCCTTTGCTGATGGGATCTGTACTGAGCTGTGGGAAGTCGTCACCT-GGGAAGCTACATTTAATGAAAGAAGTGATTTGTATTCCCAGTCCTGGATTAACAGCCAAACAA gcatatgtagagatagagctctcataaggccctctccactaatcctgtagGAGCAACCATCAGCGTACTCTATGCCATTGCTGATGGGATCTATACTTAGTTGTGGTAAGTCTTCCCCTCGGTCGGATACATTTGATGAGAGGGGTAATTTGCATTC-CAATCCTGGATTGACAGCTAAACAAgtgaatgatataaaaaaccatggcttcaaacagatatacagtcacactgc Alignment from Spaln_aa2Genome GAGCAGCCGTCAACATTCTCTATGCCTTTGCTGATGGGATCTGTACTGAGCTGTGGGAAGTCGTCACCTGGGAAGCTACATTTAATGAAAGAAGTGATTTGTATTCCCAGTCCTGGATTAACAGCCAAACAA gcatatgtagagatagagctctcataaggccctctccactaatcctgtagGAGCAACCATCAGCGTACTCTATGCCATTGCTGATGGGATCTATACTTAGTTGTGGTAAGTCTTCCCCTCGGTCGGATACATTTGATGAGAGGGGTAATTTGCATTCCAATCCTGGATTGACAGCTAAACAAgtgaatgatataaaaaaccatggcttcaaacagatatacagtcacactgc Alignment from Spaln_nt2Genome GAGCAGCCGTCAACATTCTCTATGCCTTTGCTGATGGGATCTGTACTGAGCTGTGGGAAGTCGTCACCTGGGAAGC-TACATTTAATGAAAGAAGTGATTTGTATTCCCAGTCCTGGATTAACAGCCAAACAA gcatatgtagagatagagctctcataaggccctctccactaatcctgtagGAGCAACCATCAGCGTACTCTATGCCATTGCTGATGGGATCTATACTTAGTTGTGGTAAGTCTTCCCCTCGGTCGGATACATTTGATGAGAGGGGTAATTTGCATT-CCAATCCTGGATTGACAGCTAAACAAgtgaatgatataaaaaaccatggcttcaaacagatatacagtcacactgc Alignment from Pairagon GAGCAGCCGTCAACATTCTCTATGCCTTTGCTGATGGGATCTGTACTGAGCTGTGGGAAGTCGTCACCTGGG-AAGCTACATTTAATGAAAGAAGTGATTTGTATTCCCAGTCCTGGATTAACAGCCAAACAA gcatatgtagagatagagctctcataaggccctctccactaatcctgtagGAGCAACCATCAGCGTACTCTATGCCATTGCTGATGGGATCTATACTTAGTTGTGGTAAGTCTTCCCCTCGGTCGGATACATTTGATGAGAGGGGTAATTTGCATT-CCAATCCTGGATTGACAGCTAAACAAgtgaatgatataaaaaaccatggcttcaaacagatatacagtcacactgc Alignment from Exonerate_protein2genome GAGCAGCCGTCAACATTCTCTATGCCTTTGCTGATGGGATCTGTACTGAGCTGTGGGAAGTCGTCACCT-GGGAAGCTACATTTAATGAAAGAAGTGATTTGTATTCCC--AGTCCTGGATTAACAGCCAAACAA gcatatgtagagatagagctctcataaggccctctccactaatcctgtagGAGCAACCATCAGCGTACTCTATGCCATTGCTGATGGGATCTATACTTAGTTGTGGTAAGTCTTCCCCTCGGTCGGATACATTTGATGAGAGGGGTAATTTGCATTCCAAT---CCTGGATTGACAGCTAAACAAgtgaatgatataaaaaaccatggcttcaaacagatatacagtcacactgc Alignment from Exonerate_coding2genome GAGCAGCCGTCAACATTCTCTATGCCTTTGCTGATGGGATCTGTACTGAGCTGTGGGAAGTCGTCACCT-GGGAAGCTACATTTAATGAAAGAAGTGATTTGTATTCCCAGTCCTGGAT gcatatgtagagatagagctctcataaggccctctccactaatcctgtagGAGCAACCATCAGCGTACTCTATGCCATTGCTGATGGGATCTATACTTAGTTGTGGTAAGTCTTCCCCTCGGTCGGATACATTTGATGAGAGGGGTAATTTGCATTCCAATCCTGGATTgacagctaaacaagtgaatgatataaaaaaccatggcttcaaacagatatacagtcacactgc Alignment from GeneWise GAGCAGCCGTCAACATTCTCTATGCCTTTGCTGATGGGATCTGTACTGAGCTGTGGGAAGTCGTCACCTGGGAAGCTACATTTAATGAAAGAAGTGATTTGTATTCCCAGTCCTGGATTAACAGCCAAACAA gcatatgtagagatagagctctcataaggccctctccactaatcctgtagGAGCAACCATCAGCGTACTCTATGCCATTGCTGATGGGATCTATACTTAGTTGTGGTAAGTCTTCCCCTCGGTCGGATACATTTGATGAGAGGGGTAATTTGCATTCCAATCCTGGATTGACAGCTAAACAAgtgaatgatataaaaaaccatggcttcaaacagatatacagtcacactgc #### Exosc1_ID8337_2 --> 2 - 0 Original Alignment gcGAACGTCTGTGTAAC-TTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG catttttgcatattatgttgcaggcacctagagcgttttatttcttccaggtGAACATCTGTGCAACCTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGC-TGGCTACATATCCTCATCATTGGCTGGCTGTCCAGCGAAGACCAGCAAGAATGGTGCAgtaaatactcaaggaggctccctatccagggttcactctgccctccccat Alignment from CESAR gcGAACGTCTGTGTAAC-TTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG catttttgcatattatgttgcaggcacctagagcgttttatttcttccaggtGAACATCTGTGCAACCTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGG-CTGGCTACATATCCTCATCATTGGCTGGCTGTCCAGCGAAGACCAGCAAGAATGGTGCAgtaaatactcaaggaggctccctatccagggttcactctgccctccccat Alignment from Spaln_aa2Genome GCGAACGTCTGTGTAAC-TTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG catttttgcatattatgttgcaggcacctagagcgttttatttcttccagGTGAACATCTGTGCAACcTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCT-GGCTACATATCCTCATCATTGGCTGGCTGTCCAGCGAAGACCAGCAAGAATGGTGCAgtaaatactcaaggaggctccctatccagggttcactctgccctccccat Alignment from Spaln_nt2Genome GCGAACGTCTGTGTAAC-TTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG catttttgcatattatgttgcaggcacctagagcgttttatttcttccagGTGAACATCTGTGCAACCTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGC-TGGCTACATATCCTCATCATTGGCTGGCTGTCCAGCGAAGACCAGCAAGAATGGTGCAgtaaatactcaaggaggctccctatccagggttcactctgccctccccat Alignment from Pairagon GCGAACGTCTGTGTAAC-TTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG catttttgcatattatgttgcaggcacctagagcgttttatttcttccagGTGAACATCTGTGCAACCTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGC-TGGCTACATATCCTCATCATTGGCTGGCTGTCCAGCGAAGACCAGCAAGAATGGTGCAgtaaatactcaaggaggctccctatccagggttcactctgccctccccat Alignment from Exonerate_protein2genome GCGAACGTCTGTGTAAC-TTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACC--CGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG catttttgcatattatgttgcaggcacctagagcgttttatttcttccagGTGAACATCTGTGCAACCTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCT---GGCTACATATCCTCATCATTGGCTGGCTGTCCAGCGAAGACCAGCAAGAATGGTGCAgtaaatactcaaggaggctccctatccagggttcactctgccctccccat Alignment from Exonerate_coding2genome ATCCCCGGCGAACGTCTGTGTAAC-TTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACC--CGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG catttttgcatattatgttgcaggcacctagagcgttttatttCTTCCAGGTGAACATCTGTGCAACCTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTGGCT---GGCTACATATCCTCATCATTGGCTGGCTGTCCAGCGAAGACCAGCAAGAATGGTGCAgtaaatactcaaggaggctccctatccagggttcactctgccctccccat Alignment from GeneWise --------------------------------------------------------CTGTGT---AACTTGGAGGAAGGCAGCCCCGGCAGCGGCACCTACACCCGGCATGGCTACATCTTTTCGTCGCTGGCTGGCTGCCTGATGAAGACCAGCGAGAATGGCGCG CATTTTTGCATATTATGTTGCAGGCACCTAGAGCGTTTTATTTCTTCCAGGTGAACATCTGTGCAACCTTAGAAGAAGGCAGTCCTGGCAGTGGCACCTACACCTG-GCTGGCTACATATCCTCATCATTGGCTGGCTGTCCAGCGAAGACCAGCAAGAATGGTGCAgtaaatactcaaggaggctccctatccagggttcactctgccctccccat #### Fads1_ID2688_2 --> 0 - 0 Original Alignment GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTT-GTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT ttcattctcatttccatcagttttcattatcctgtttttcttcttttcagGATCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTCGTGAGAAAATATATGAACTATCTT---CTTGGGGAGC-AGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtgagtcaatagaccctgaaaattagggatgctgtcgttgcactagtagt Alignment from CESAR GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTT-GTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT ttcattctcatttccatcagttttcattatcctgtttttcttcttttcagGATCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTCGTGAGAAAATATATGAACTATCTTCTT---GGGGAG-CAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtgagtcaatagaccctgaaaattagggatgctgtcgttgcactagtagt Alignment from Spaln_aa2Genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT ttcattctcatttccatcagttttcattatcctgtttttcttcttttcagGATCCTTTTGTGGCATTCCACTTCAACAAGGGTCTT---CGTGAGAAAATATATGAACTATCTTCTTGGGGAGCAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtgagtcaatagaccctgaaaattagggatgctgtcgttgcactagtagt Alignment from Spaln_nt2Genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTT-GTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT ttcattctcatttccatcagttttcattatcctgtttttcttcttttcagGATCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTCGTGAGAAAATATATGAACTATCTTC---TTGGGGAGC-AGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtgagtcaatagaccctgaaaattagggatgctgtcgttgcactagtagt Alignment from Pairagon GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTT-GTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT ttcattctcatttccatcagttttcattatcctgtttttcttcttttcagGATCCTTTTGTGGCATTCCACTTCAACAAGGGTCTTCGTGAGAAAATATATGAACTATCTTC---TTGGGGAGC-AGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtgagtcaatagaccctgaaaattagggatgctgtcgttgcactagtagt Alignment from Exonerate_protein2genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT ttcattctcatttccatcagttttcattatcctgtttttcttcttttcagGATCCTTTTGTGGCATTCCACTTCAACAAGGGTCTT---CGTGAGAAAATATATGAACTATCTTCTTGGGGAGCAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtgagtcaatagaccctgaaaattagggatgctgtcgttgcactagtagt Alignment from Exonerate_coding2genome GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT ttcattctcatttccatcagttttcattatcctgtttttcttcttttcagGATCCTTTTGTGGCATTCCACTTCAACAAGGGTCTT---CGTGAGAAAATATATGAACTATCTTCTTGGGGAGCAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtgagtcaatagaccctgaaaattagggatgctgtcgttgcactagtagt Alignment from GeneWise GATCCTTTTGTGGCATTCCACATCAACAAGGGTCTTGTGAGAAAGTATATGAACTCTCTTCTGATTGGAGAGCTGGCTCCGGAGCAACCCAGCTTTGAACCCACCAAGAAT ttcattctcatttccatcagttttcattatcctgtttttcttcttttcagGATCCTTTTGTGGCATTCCACTTCAACAAGGGTCTT---CGTGAGAAAATATATGAACTATCTTCTTGGGGAGCAGCTCCCGAGCAACCCAGCTTTGAACCCACCAAGAATgtgagtcaatagaccctgaaaattagggatgctgtcgttgcactagtagt #### Fads1_ID2695_9 --> 1 - 0 Original Alignment gTTCCTGGAAAGCAACTGGTTTGTGTGGGTG-ACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttattacttgctctgcaatgtttttgttttattaacaggTTTCTGGAAAGCAACTGGTTTGTGTGGGTGCACACAAATGAATCATATCTCCATGCACATTG-TCCAGATAGGAATGTGGACTGGGTCTCAACACAGgtgagttgtagtgtacccagctgtgaagcttcagagttcatatcatgaat Alignment from CESAR gTTCCTGGAAAGCAACTGGTTTGTGTGGGTG-ACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttattacttgctctgcaatgtttttgttttattaacaggTTTCTGGAAAGCAACTGGTTTGTGTGGGTGCACACAAATGAATCATATCTCCATGCACATT-GTCCAGATAGGAATGTGGACTGGGTCTCAACACAGgtgagttgtagtgtacccagctgtgaagcttcagagttcatatcatgaat Alignment from Spaln_aa2Genome GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttattacttgctctgcaatgtttttgttttattaacagGTTTCTGGAAAGCAACTGGTTTGTGTGGGTGCACACAAATGAATCATATCTCCATGCACATTGTCCAGATAGGAATGTGGACTGGGTCTCAACACAGgtgagttgtagtgtacccagctgtgaagcttcagagttcatatcatgaat Alignment from Spaln_nt2Genome GTTCCTGGAAAGCAACTGGTTTGTGTGGGTG-ACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttattacttgctctgcaatgtttttgttttattaacagGTTTCTGGAAAGCAACTGGTTTGTGTGGGTGCACACAAATGAATCATATCTCCATGCACATTG-TCCAGATAGGAATGTGGACTGGGTCTCAACACAGgtgagttgtagtgtacccagctgtgaagcttcagagttcatatcatgaat Alignment from Pairagon GTTCCTGGAAAGCAACTGGTTTGTGTGGGTG-ACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttattacttgctctgcaatgtttttgttttattaacagGTTTCTGGAAAGCAACTGGTTTGTGTGGGTGCACACAAATGAATCATATCTCCATGCACATTGTCCA-GATAGGAATGTGGACTGGGTCTCAACACAGgtgagttgtagtgtacccagctgtgaagcttcagagttcatatcatgaat Alignment from Exonerate_protein2genome GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttattacttgctctgcaatgtttttgttttattaacagGTTTCTGGAAAGCAACTGGTTTGTGTGGGTGCACACAAATGAATCATATCTCCATGCACATTGTCCAGATAGGAATGTGGACTGGGTCTCAACACAGgtgagttgtagtgtacccagctgtgaagcttcagagttcatatcatgaat Alignment from Exonerate_coding2genome accaccagaaccttattacttgctctgcaatgtttttgttttattaacaggtttctggaaagcaactggtttgtgtgggtgcacacaaatgaatcatatctccatgcacattgtccagataggaatgtggactgggtctcaacacaggtgagttgtagtgtacccagctgtgaagcttcagagttcatatcatgaat Alignment from GeneWise GTTCCTGGAAAGCAACTGGTTTGTGTGGGTG---ACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG accaccagaaccttattacttgctctgcaatgtttttgttttattaacagGTTTCTGGAAAGCAACTGGTTTGTGTGGGTGCACACAAATGAATCATATCTCCATGCACATTGTCCA---GATAGGAATGTGGACTGGGTCTCAACACAGgtgagttgtagtgtacccagctgtgaagcttcagagttcatatcatgaat #### Fads1_ID2696_10 --> 0 - 2 Original Alignment CTGCAGGCAACCTGCAACGTTCACCAA-TCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAACTCTGCCTTCAACAACTGGTTCAGTGGACATC-GAATTTCCAGATTGAACACcagtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from CESAR CTGCAGGCAACCTGCAACGTTCACCAA-TCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACca tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAACTCTGCCTTCAACAACTGGTTCAGTGGACAT-CGAATTTCCAGATTGAACACcagtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Spaln_aa2Genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAACTCTGCCTTCAACAACTGGTTCAGTGGACATCGAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Spaln_nt2Genome CTGCAGGCAACCTGCAACGTTCACCAA-TCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAACTCTGCCTTCAACAACTGGTTCAGTGGACATC-GAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Pairagon CTGCAGGCAACCTGCAACGTTCACCAA-TCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAACTCTGCCTTCAACAACTGGTTCAGTGGACATC-GAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Exonerate_protein2genome CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAACTCTGCCTTCAACAACTGGTTCAGTGGACATCGAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from Exonerate_coding2genome CTGCAGGCAACCTGCAACGTTCACCAA-TCAGCCTTCAACAACTGGTTCAGTGGCCAC tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAACTCTGCCTTCAACAACTGGTTCAGTGGACATcgaatttccagattgaacaccagtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg Alignment from GeneWise CTGCAGGCAACCTGCAACGTTCACCAATCAGCCTTCAACAACTGGTTCAGTGGCCACCTAAATTTCCAGATTGAACACCA tagttcatacacagatacatggaaatttgcctttctccctttcttctaagCTGCAGGCAACATGCAATGTCCACCAACTCTGCCTTCAACAACTGGTTCAGTGGACATCGAATTTCCAGATTGAACACCAgtactctgatactgcaaggatacatgggatggcacagggtccgggcaggg #### Fads1_ID2697_11 --> 1 - 2 Original Alignment cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTA-CAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta tatgtagcagtccataatctgtcacacactacttttcctttcctccccagtGTCTTCCCCTCCGTAACTCACCATAATTACCATAAGGTGACTCCAGTAGTACCAAGCTCTGTGTGCCAAATATGGCATAA-GTATGAGTCTAAACCACTGCTTGCAGCATTTGCAGACATCGTCtagtatggatgaacaagtacctgacagtagccaagggagtctgtgacaagag Alignment from CESAR cCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTA-CAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTta tatgtagcagtccataatctgtcacacactacttttcctttcctccccagtGTCTTCCCCTCCGTAACTCACCATAATTACCATAAGGTGACTCCAGTAGTACCAAGCTCTGTGTGCCAAATATGGCA-TAAGTATGAGTCTAAACCACTGCTTGCAGCATTTGCAGACATCGTCtagtatggatgaacaagtacctgacagtagccaagggagtctgtgacaagag Alignment from Spaln_aa2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtccataatctgtcacacactacttttcctttcctccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATAAGGTGACTCCAGTAGTACCAAGCTCTGTGTGCCAAATATGGCATAAGTATGAGTCTAAACCACTGCTTGCAGCATTTGCAGACATCGTCTAgtatggatgaacaagtacctgacagtagccaagggagtctgtgacaagag Alignment from Spaln_nt2Genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTAC-AATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtccataatctgtcacacactacttttcctttcctccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATAAGGTGACTCCAGTAGTACCAAGCTCTGTGTGCCAAATATGGCAT-AAGTATGAGTCTAAACCACTGCTTGCAGCATTTGCAGACATCGTCTAgtatggatgaacaagtacctgacagtagccaagggagtctgtgacaagag Alignment from Pairagon CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTA-CAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtccataatctgtcacacactacttttcctttcctccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATAAGGTGACTCCAGTAGTACCAAGCTCTGTGTGCCAAATATGGCAT-AAGTATGAGTCTAAACCACTGCTTGCAGCATTTGCAGACATCGTCTAgtatggatgaacaagtacctgacagtagccaagggagtctgtgacaagag Alignment from Exonerate_protein2genome CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtccataatctgtcacacactacttttcctttcctccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATAAGGTGACTCCAGTAGTACCAAGCTCTGTGTGCCAAATATGGCATAAGTATGAGTCTAAACCACTGCTTGCAGCATTTGCAGACATCGTCTAgtatggatgaacaagtacctgacagtagccaagggagtctgtgacaagag Alignment from Exonerate_coding2genome tatgtagcagtccataatctgtcacacactacttttcctttcctccccagtgtcttcccctccgtaactcaccataattaccataaggtgactccagtagtaccaagctctgtgtgccaaatatggcataagtatgagtctaaaccactgcttgcagcatttgcagacatcgtctagtatggatgaacaagtacctgacagtagccaagggagtctgtgacaagag Alignment from GeneWise CCTCTTCCCCACCATGCCGCGGCACAACTACCACAAGGTGGCACCCCTAGTACAATCCCTGTGCGCCAAGTACGGCATCAAGTATGAGTCCAAGCCCCTGCTCACAGCCTTCGCGGACATTGTTTA tatgtagcagtccataatctgtcacacactacttttcctttcctccccagTGTCTTCCCCTCCGTAACTCACCATAATTACCATAAGGTGACTCCAGTAGTACCAAGCTCTGTGTGCCAAATATGGCATAAGTATGAGTCTAAACCACTGCTTGCAGCATTTGCAGACATCGTCTAgtatggatgaacaagtacctgacagtagccaagggagtctgtgacaagag #### Fads3_ID2662_5 --> 0 - 0 Original Alignment GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcagacactcctctgttcccatcagGAC---TCTGCCCACTGGTGGAATCTTCCAGCACTTGAAGCATCATGCCAAGCCCAACATATTCC-CAAAGACCCTGATGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaagtaggtccctgcaatctacaggatgtttctttcccctggagtgaag Alignment from CESAR GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcagacactcctctgttcccatcagGAC---TCTGCCCACTGGTGGAATCTTCCAGCACTTGAAGCATCATGCCAAGCCCAACATATTC-CCAAAGACCCTGATGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaagtaggtccctgcaatctacaggatgtttctttcccctggatttcgt Alignment from Spaln_aa2Genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcagacactcctctgttcccatcagGAC---TCTGCCCACTGGTGGAATCTTCCAGCACTTGAAGCATCATGCCAAGCCCAACATATTCCCAAAGACCCTGATGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaagtaggtccctgcaatctacaggatgtttctttcccctggagtgaag Alignment from Spaln_nt2Genome GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcagacactcctctgttcccatcagGAC---TCTGCCCACTGGTGGAATCTTCCAGCACTTGAAGCATCATGCCAAGCCCAACATATTCC-CAAAGACCCTGATGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaagtaggtccctgcaatctacaggatgtttctttcccctggagtgaag Alignment from Pairagon GGCTTTTCCGCCCACTGGTGGAAT-TTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcagacactcctctgttcccatcagGAC---TCTGCCCACTGGTGGAATCTTCCAGCACTTGAAGCATCATGCCAAGCCCAACATATTCC-CAAAGACCCTGATGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaagtaggtccctgcaatctacaggatgtttctttcccctggagtgaag Alignment from Exonerate_protein2genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcagacactcctctgttcccatCAGGACTCTGCCCACTGGTGGAATCTTCCAGCACTTGAAGCATCATGCCAAGCCCAACATATTCCCAAAGACCCTGATGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaagtaggtccctgcaatctacaggatgtttctttcccctggagtgaag Alignment from Exonerate_coding2genome GGCTTTTCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcagacactcctctgttcccatCAGGACTCTGCCCACTGGTGGAATCTTCCAGCACTTGAAGCATCATGCCAAGCCCAACATATTCCCAAAGACCCTGATGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaagtaggtccctgcaatctacaggatgtttctttcccctggagtgaag Alignment from GeneWise ---TCCGCCCACTGGTGGAATTTCCGCCACTTCCAGCACCATGCCAAACCCAACATCTTCCACAAAGACCCAGATGTGACTGTCGCACCTGTCTTCCTCCTGGGGGAGTCATCTGTGGAG tgcacacttgcacacaacaatgcaagcagacactcctctgttcccatcagGACTCTGCCCACTGGTGGAATCTTCCAGCACTTGAAGCATCATGCCAAGCCCAACATATTCCCAAAGACCCTGATGTAACTGTTACACCTGTCTTCCTACTTGGTGTATCATCTGTGGAAgtaagtaggtccctgcaatctacaggatgtttctttcccctggagtgaag #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCC-TACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCCTACTCACCCTTCTATGGAGTCACCGGCACACTAATCC-CTTTGTCATTGTGcggtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCC-TACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCCTACTCACCCTTCTATGGAGTCACCGGCACACTAATC-CCTTTGTCATTGTGcggtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCC-TACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGC ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCcTACTCACCCTTCTATGGAGTCACCGGCACACTAATCCCTTTGTCATTgtgcggtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCC-TACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCCTACTCACCCTTCTATGGAGTCACCGGCACACTAATCC-CTTTGTCATTGTGCGgtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGT-CCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCCTACTCACCCTTCTATGGAGTCACCGGCACACTAATCC-CTTTGTCATTGTGCGgtacggtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCC-TACTCTCCCTTCTATGGTGCCACTGGGACACTG----CTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCCTACTCACCCTTCTATGGAGTCACCGGCACACTAATCCCTTTGTCATTGTGCGGTACGgtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCC-TACTCTCCCTTCTATGGTGCCACTGGGACACTG----CTCCTCTTTGTTGCTGTCAG ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCCTACTCACCCTTCTATGGAGTCACCGGCACACTAATCCCTTTGTCATTGTGCGGTACGgtgctacttgctgagcaccagatctatttaacttggccatagata Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTG-TCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGC ttggacaggcaaagtgattccagtttagccccctaccctgtcacctgcagGACTTACTGTGGGCTGCCAGCTTCTACACCCACTTTTTTTTGTCCCTACTCACCCTTCTATGGAGTCACCGGCACACTAATCCCTTTGTCATTgtgcggtacggtgctacttgctgagcaccagatctatttaacttggccatagata #### Fam160b1_ID12352_3 --> 2 - 0 Original Alignment atGATAAAGCCCCAGTGACCGACACAAACATCCCA-TCCCACCTGGAACAGATGTTAGACATCCTGGTCCAAGAAGAAAATGAGCGGGAATCTGGAGAGACAGGGCCATGCATGGAATACCTGCTCCATCACAAGATCTTGGAAACGTTATACACCTTAGGGAAAGCCGAC aatgagtgtgcacttgccctcaccatgcttctgttcccttctctggctagatGATAAGGCCCCAGTAACAGACACCAACCTATCACTGCCACCTGGAACAGATGCTAGACATAC-GGTCCAAGAGGAAAATGAG---CAATCTGGGGAGACTGGGCCTTGCATTGAATATTTACTGCATCACAAGATCTTGGAAACATTATACACTCTAGGAAAATCAGGTgtatgttcctcctcaccttggcactagtgtgttagcataagaatgtcatg Alignment from CESAR atGATAAAGCCCCAGTGACCGACACAAACATCCCA-TCCCACCTGGAACAGATGTTAGACATCCTGGTCCAAGAAGAAAATGAGCGGGAATCTGGAGAGACAGGGCCATGCATGGAATACCTGCTCCATCACAAGATCTTGGAAACGTTATACACCTTAGGGAAAGCCGAC aatgagtgtgcacttgccctcaccatgcttctgttcccttctctggctagatGATAAGGCCCCAGTAACAGACACCAACCTATCACTGCCACCTGGAACAGATGCTAGACATA-CGGTCCAAGAGGAAAATGAGCAA---TCTGGGGAGACTGGGCCTTGCATTGAATATTTACTGCATCACAAGATCTTGGAAACATTATACACTCTAGGAAAATCAGGTgtatgttcctcctcaccttggcactagtgtgttagcataagaatgtcatg Alignment from Spaln_aa2Genome ATGATAAAGCCCCAGTGACCGACACAAACATCCCATCCCACCTGGAACAGATGTTAGACATCCTGGTCCAAGAAGAAAATGAGCGGGAATCTGGAGAGACAGGGCCATGCATGGAATACCTGCTCCATCACAAGATCTTGGAAACGTTATACACCTTAGGGAAAGCCGAC aatgagtgtgcacttgccctcaccatgcttctgttcccttctctggctagATGATAAGGCCCCAGTAACAGACACCAACCTATCACTGCCACCTGGAACAGATGCTAGACATACGGTCCAAGAGGAAAATGAGCAA---TCTGGGGAGACTGGGCCTTGCATTGAATATTTACTGCATCACAAGATCTTGGAAACATTATACACTCTAGGAAAATCAGGTgtatgttcctcctcaccttggcactagtgtgttagcataagaatgtcatg Alignment from Spaln_nt2Genome ATGATAAAGCCCCAGTGACCGACACAAACATCCCA-TCCCACCTGGAACAGATGTTAGACATCCTGGTCCAAGAAGAAAATGAGCGGGAATCTGGAGAGACAGGGCCATGCATGGAATACCTGCTCCATCACAAGATCTTGGAAACGTTATACACCTTAGGGAAAGCCGAC aatgagtgtgcacttgccctcaccatgcttctgttcccttctctggctagATGATAAGGCCCCAGTAACAGACACCAACCTATCACTGCCACCTGGAACAGATGCTAGACATAC-GGTCCAAGAGGAAAATGAGC---AATCTGGGGAGACTGGGCCTTGCATTGAATATTTACTGCATCACAAGATCTTGGAAACATTATACACTCTAGGAAAATCAGGTgtatgttcctcctcaccttggcactagtgtgttagcataagaatgtcatg Alignment from Pairagon ATGATAAAGCCCCAGTGACCGACACAAACATCCCA-TCCCACCTGGAACAGATGTTAGACATCCTGGTCCAAGAAGAAAATGAGCGGGAATCTGGAGAGACAGGGCCATGCATGGAATACCTGCTCCATCACAAGATCTTGGAAACGTTATACACCTTAGGGAAAGCCGAC aatgagtgtgcacttgccctcaccatgcttctgttcccttctctggctagATGATAAGGCCCCAGTAACAGACACCAACCTATCACTGCCACCTGGAACAGATGCTAGACATAC-GGTCCAAGAGGAAAATGAGC---AATCTGGGGAGACTGGGCCTTGCATTGAATATTTACTGCATCACAAGATCTTGGAAACATTATACACTCTAGGAAAATCAGGTgtatgttcctcctcaccttggcactagtgtgttagcataagaatgtcatg Alignment from Exonerate_protein2genome ATGATAAAGCCCCAGTGACCGACACAAACATCCCATCCCACCTGGAACAGATGTTAGACATCCTGGTCCAAGAAGAAAATGAGCGGGAATCTGGAGAGACAGGGCCATGCATGGAATACCTGCTCCATCACAAGATCTTGGAAACGTTATACACCTTAGGGAAAGCCGAC aatgagtgtgcacttgccctcaccatgcttctgttcccttctctggctagATGATAAGGCCCCAGTAACAGACACCAACCTATCACTGCCACCTGGAACAGATGCTAGACATACGGTCCAAGAGGAAAATGAG---CAATCTGGGGAGACTGGGCCTTGCATTGAATATTTACTGCATCACAAGATCTTGGAAACATTATACACTCTAGGAAAATCAGGTgtatgttcctcctcaccttggcactagtgtgttagcataagaatgtcatg Alignment from Exonerate_coding2genome ATGATAAAGCCCCAGTGACCGACACAAACATCCCATCCCACCTGGAACAGATGTTAGACATCCTGGTCCAAGAAGAAAATGAGCGGGAATCTGGAGAGACAGGGCCATGCATGGAATACCTGCTCCATCACAAGATCTTGGAAACGTTATACACCTTAGGGAAAGCCGAC aatgagtgtgcacttgccctcaccatgcttctgttcccttctctggctagATGATAAGGCCCCAGTAACAGACACCAACCTATCACTGCCACCTGGAACAGATGCTAGACATACGGTCCAAGAGGAAAATGAG---CAATCTGGGGAGACTGGGCCTTGCATTGAATATTTACTGCATCACAAGATCTTGGAAACATTATACACTCTAGGAAAATCAGGTgtatgttcctcctcaccttggcactagtgtgttagcataagaatgtcatg Alignment from GeneWise ----------------------------------------------GATAAAGCCCCAGTGACCGACACAAACATCCCATCCCACCTGGAACAGATGTTAGACATCCTGGTCCAAGAAGAAAATGAGCGGGAATCTGGAGAGACAGGGCCATGCATGGAATACCTGCTCCATCACAAGATCTTGGAAACGTTATACACCTTAGGGAAAGCCGAC aatgagTGTGCACTTGCCCTCACCATGCTTCTGTTCCCTTCTCTGGCTAGATGATAAGGCCCCAGTAACAGACACCAACCTATCACTGCCACCTGGAACAGATGCTAGACATACGGTCCAAGAGGAAAATGAG---CAATCTGGGGAGACTGGGCCTTGCATTGAATATTTACTGCATCACAAGATCTTGGAAACATTATACACTCTAGGAAAATCAGGTgtatgttcctcctcaccttggcactagtgtgttagcataagaatgtcatg #### Fam160b1_ID12356_7 --> 0 - 2 Original Alignment GACGGCCGGATAGCTGTG-AAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTACAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCC-ACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGgggtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from CESAR GACGGCCGGATAGCTGTG-AAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGgg agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTACAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGC-CACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGgggtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Spaln_aa2Genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTACAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Spaln_nt2Genome GACGGCCGGATAGCTGTG-AAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTACAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCC-ACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Pairagon GACGGCCGGATAGCTGTG-AAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTACAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCC-ACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Exonerate_protein2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTACAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from Exonerate_coding2genome GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTACAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg Alignment from GeneWise GACGGCCGGATAGCTGTGAAGGCCTGCGAGGGCTTGATGCTCTTGGTGAGCCTACCGGAGCCTGCGGCTGCCAAGTGCCTTGCTCAGAGCACCTGCCTGTGCGAGCTGCTGACCGGCAGACTCACCTCCCTGTACAAGGCTCTACCTCAGTCAGTGGACCCCTTAGACATTGAAACCGTGGAGGCAGTTAACTGGGG agaagaagaaatgcggctatagcccttcaccattttttttttccttgcagGATGGCCGGATAGCTGTACAAGGCTTGCAAGGGTTCCATGCTCTTAGCAAGCCACCAGAGCCTGCAGCAGCCAAGTGCCTTGCTCAGAGCACTTGCCTATGTGAGCTGCTCACTGGAAGACTCACTTCCTTGTACAAGTCATTACCACAGTCAGTAGACCCTCTAGACATTGAAACAGTGGAGGCAGTGAACTGGGGgtgagcatcaattcgatagacttcttggacaatcgactgcttagactgtg #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTG-TGTTACTGAACCCCAACTAATGCAAacgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from CESAR ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGac gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACTGAACCCCAACTAATGCAAacgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Spaln_aa2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagacagCTG---CTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGT-GTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Spaln_nt2Genome ACTGCTGCTGTT-GCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Pairagon ACTGCTGCTGT-TGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTT-GTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Exonerate_protein2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from Exonerate_coding2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGAC gacatggtcataatgtcatatgtcttctctaaaatgactttgtgttctagACAGCTGCTGTACGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGTGTTACTGAACCCCAACTAATGCAAACgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc Alignment from GeneWise GACC-- GACATGgtcataatgtcatatgtcttctctaaaatgactttgtgttctagacagctgctgtacgctcttgccaaagctatccacaaaaggttctttgttgtgttactgaaccccaactaatgcaaacgtaggcgtttactaaccttgtagaagacaaaacgttgataaatccttttc #### Fas_ID6926_7 --> 2 - 0 Original Alignment taTTTATATATCGAAAGTACCGG-AAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagtaTTTATATATAGAAAGTACCGACAAAAGAAAGTGCTGGAAAAGGAGACAAGATG-CCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from CESAR taTTTATATATCGAAAGTACCGG-AAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagtaTTTATATATAGAAAGTACCGACAAAAGAAAGTGCTGGAAAAGGAGACAAGAT-GCCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from Spaln_aa2Genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGACAAAAGAAAGTGCTGGAAAAGGAGACAAGATGCCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from Spaln_nt2Genome TATTTATATATCGAAAGTACCGG-AAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGACAAAAGAAAGTGCTGGAAAAGGAGACAAGATG-CCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from Pairagon TATTTATATATCGAAAGTACCGG-AAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGT atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGACAAAAGAAAGTGCTGGAAAAGGAGACAAGATG-CCCCGAATCCAGAACCTCAAGTCGTgtgagcatctagtgcaatacagtgattctctttccaatactcccaatcaa Alignment from Exonerate_protein2genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACCAATGAATGCC atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGACAAAAGAAAGTGCTGGAAAAGGAGACAAGATGCCCCGAATCCAGAACCTCAAGTCGTGTGAGCATCTAGTGCAATACAgtgattctctttccaatactcccaatcaa Alignment from Exonerate_coding2genome TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATACCAATGAATGCC atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGACAAAAGAAAGTGCTGGAAAAGGAGACAAGATGCCCCGAATCCAGAACCTCAAGTCGTGTGAGCATCTAGTGCAATACAgtgattctctttccaatactcccaatcaa Alignment from GeneWise TATTTATATATCGAAAGTACCGGAAAAGAAAGTGCTGGAAAAGGAGACAGGATGACCCTGAATCTAGAACCTCCAGTCGTGAAACCATA-- atcgtcaactattcacagcaatatgacatcggctgagtttgcacccttagTATTTATATATAGAAAGTACCGACAAAAGAAAGTGCTGGAAAAGGAGACAAGATGCCCCGAATCCAGAACCTCAAGTCGTGTGAGCATCTAgtgcaatacagtgattctctttccaatactcccaatcaa #### Fbxl15_ID9850_2 --> 1 - 0 Original Alignment gCTCCTGGACCTGCCCTGGGAAGAC-GTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagaTTCCTGGACCTGCCTTGGGAAGAACTTGCTGCTCGTTCATGTTGTAAACTGGGTCCCAC-TCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from CESAR gCTCCTGGACCTGCCCTGGGAAGAC-GTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagaTTCCTGGACCTGCCTTGGGAAGAACTTGCTGCTCGTTCATGTTGTAAACTGGGTCCCAC-TCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Spaln_aa2Genome GCTCCTGGACCTGCCCTGGGAAGAC-GTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAAcTTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTCACCAG----CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Spaln_nt2Genome GCTCCTGGACCTGCCCTGGGAAGA-CGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAACTTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACT----CACCAGCTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Pairagon GCTCCTGGACCTGCCCTGGGAAG-ACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAACTTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACT----CACCAGCTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Exonerate_protein2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAACTTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from Exonerate_coding2genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAACTTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTCACCAG---CTTCGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg Alignment from GeneWise GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG tattttgttggtacttgttcccttactgtgtctggtctctgtcttcccagATTCCTGGACCTGCCTTGGGAAGAACTTGCTGCTCGTTCATGTTGTAAACTGGGTCCCACTCACCAGCTT---CGACTGCAGCAGGTGAGTAGAACTTTTGGGGCACTTGTTCAGTTGCATTTGGCCAGATTACGCCGCTTTGATGCTGCTCAAgtgagtatagcatcaaacagggaccataattatgaggtggtaagcagggg #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAG-CCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCTC-AGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from CESAR GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCC-ACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCTCAGG-GGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Spaln_aa2Genome GCCTGCGCTGGGCAGGGA GCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG GCCTGCGCTTGGTAGGGAgccaacatccgtcttgttgcttttcttttcagggaggccctggtggggggcctgcgcttggcagggagCCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCTCAGGGGTT-TCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Spaln_nt2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCC-ACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCTCAGGG-GTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Pairagon CAGGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCC-ACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttCAGGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCTCAGGG-GTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Exonerate_protein2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgttgcttttcttttcagGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCTCAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from Exonerate_coding2genome TGCCTCCAAGCCCAGGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgtTGCTTTTCTTTTCAGGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCTCAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt Alignment from GeneWise TGCCTCCAAGCCCAGGAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG gcctgcgcttggtagggagccaacatccgtcttgtTGCTTTTCTTTTCAGGGAGGCCCTGGTGGGGGGCCTGCGCTTGGCAGGGAGCCCGACCTCCCTGCTCCGAGCTGGTCGGGAACCTCAGGGGTTTCCCAACAAgtgagcagttagagagatggggaagattcctccattttaggccctgggtt #### Fibp_ID1008_5 --> 1 - 1 Original Alignment gGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTT-ATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg ttcaagcataagagagagaaacataatatgttctgatgctgtccttacagaGATTATGCATCCATTGTTTTCTTTGCCAATAATGACTTTGAAACCGGGAAAAAAAGGCTGCAGCACCTAAGCTTTGAGGCCTTTGCCTTTCGTGCAGAACTTCATGATCCAGAACTGGACCCTTGGGACCATTG-TGAGGCTCCAACTGATCCAggtgagcgtaattgataaggccccaactgatccaggtacacaaactcttgt Alignment from CESAR gGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTT-ATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAg ttcaagcataagagagagaaacataatatgttctgatgctgtccttacagaGATTATGCATCCATTGTTTTCTTTGCCAATAATGACTTTGAAACCGGGAAAAAAAGGCTGCAGCACCTAAGCTTTGAGGCCTTTGCCTTTCGTGCAGAACTTCATGATCCAGAACTGGACCCTTGGGACCATT-GTGAGGCTCCAACTGATCCAggtgagcgtaattgataaggccccaactgatccaggtacacaaactcttgt Alignment from Spaln_aa2Genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTT-ATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagagaaacataatatgttctgatgctgtccttacagAGATTATGCATCCATTGTTTTCTTTGCCAATAATGACTTTGAAACCGGGAAAAAAAGGCTGCAGCACCTAAGCTTTGAGGCCTTTGCCTTTCGTGCAGAACTTcATGATCCAGAACTGGACCCTTGGGACCATTGT-GAGGCTCCAACTGATCCAGgtgagcgtaattgataaggccccaactgatccaggtacacaaactcttgt Alignment from Spaln_nt2Genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTT-ATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagagaaacataatatgttctgatgctgtccttacagAGATTATGCATCCATTGTTTTCTTTGCCAATAATGACTTTGAAACCGGGAAAAAAAGGCTGCAGCACCTAAGCTTTGAGGCCTTTGCCTTTCGTGCAGAACTTCATGATCCAGAACTGGACCCTTGGGACCAT-TGTGAGGCTCCAACTGATCCAGgtgagcgtaattgataaggccccaactgatccaggtacacaaactcttgt Alignment from Pairagon GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTT-ATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagagaaacataatatgttctgatgctgtccttacagAGATTATGCATCCATTGTTTTCTTTGCCAATAATGACTTTGAAACCGGGAAAAAAAGGCTGCAGCACCTAAGCTTTGAGGCCTTTGCCTTTCGTGCAGAACTTCATGATCCAGAACTGGACCCTTGGGACCATT-GTGAGGCTCCAACTGATCCAGgtgagcgtaattgataaggccccaactgatccaggtacacaaactcttgt Alignment from Exonerate_protein2genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagagaaacataatatgttctgatgctgtccttacagAGATTATGCATCCATTGTTTTCTTTGCCAATAATGACTTTGAAACCGGGAAAAAAAGGCTGCAGCACCTAAGCTTTGAGGCCTTTGCCTTTCGTGCAGAACTTCATGATCCAGAACTGGACCCTTGGGACCATTGTGAGGCTCCAACTGATCCAGgtgagcgtaattgataaggccccaactgatccaggtacacaaactcttgt Alignment from Exonerate_coding2genome GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagagaaacataatatgttctgatgctgtccttacagAGATTATGCATCCATTGTTTTCTTTGCCAATAATGACTTTGAAACCGGGAAAAAAAGGCTGCAGCACCTAAGCTTTGAGGCCTTTGCCTTTCGTGCAGAACTTCATGATCCAGAACTGGACCCTTGGGACCATTGTGAGGCTCCAACTGATCCAGgtgagcgtaattgataaggccccaactgatccaggtacacaaactcttgt Alignment from GeneWise GGATTACGCAGCCATCGTCTTTTTTGCCAACAACCGCTTTGAAACAGGAAAGAAAAAGCTGCAGTACCTGAGCTTTGGGGACTTTGCCTTCTGTGCAGAGCTTATGATCCAGAACTGGACCCTTGGAGCCGTCGGTGAGGCCCCCACTGACCCAG ttcaagcataagagagagaaacataatatgttctgatgctgtccttacagAGATTATGCATCCATTGTTTTCTTTGCCAATAATGACTTTGAAACCGGGAAAAAAAGGCTGCAGCACCTAAGCTTTGAGGCCTTTGCCTTTCGTGCAGAACTTCATGATCCAGAACTGGACCCTTGGGACCATTGTGAGGCTCCAACTGATCCAGgtgagcgtaattgataaggccccaactgatccaggtacacaaactcttgt #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGC-CTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCA-TGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAgggtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from CESAR GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGC-CTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGC-ATGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAgggtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Spaln_aa2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCATGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Spaln_nt2Genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAG-CCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCA-TGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Pairagon GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAG-CCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCA-TGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Exonerate_protein2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGCCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCATGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from Exonerate_coding2genome GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAG---CCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGGGATGT acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGC--AGCCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCAT-GGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGGTATGgttggcatacaatctaagttgcaattgctgtagtaaaggtatttt Alignment from GeneWise GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACT---GGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG acattctttcctcatcgttgatgttttgtcaccgcagctgccttgtctagGGAAAGCTGGGAGATGGGACAGAGTTTGACAGCAGC---CCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCATGGCCAGGTTATCAAGGGTTGGGACCAGGGTCTACTAGGgtatggttggcatacaatctaagttgcaattgctgtagtaaaggtatttt #### Fth1_ID2624_3 --> 0 - 0 Original Alignment AAACCAGACCGTGATGACTGGGAGAGCGGGCTG-AATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTACAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAA-CCAGTCCCTACTGGAGCTGCATGAACTAGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from CESAR AAACCAGACCGTGATGACTGGGAGAGCGGGCTG-AATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTACAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTG-TAACCAGTCCCTACTGGAGCTGCATGAACTAGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Spaln_aa2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTACAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAACCAGTCCCTACTGGAGCTGCATGAACTAGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Spaln_nt2Genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTG-AATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTACAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTA-ACCAGTCCCTACTGGAGCTGCATGAACTAGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Pairagon ------------------------------------------------AGAAACCAGACCGTGATGACTGGGAGAGCGGGCTG-AATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC TGTATTGGGGGTTTAATGATTATGACACCCATGGATTATTGTTTCCACAGAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTACAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGT-AACCAGTCCCTACTGGAGCTGCATGAACTAGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Exonerate_protein2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTACAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAACCAGTCCCTACTGGAGCTGCATGAACTAGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from Exonerate_coding2genome AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTACAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAACCAGTCCCTACTGGAGCTGCATGAACTAGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa Alignment from GeneWise AAACCAGACCGTGATGACTGGGAGAGCGGGCTGAATGCAATGGAGTGTGCACTGCACTTGGAAAAGAGTGTGAATCAGTCACTACTGGAACTGCACAAACTGGCTACTGACAAGAATGATCCCCAC tgtattgggggtttaatgattatgacacccatggattattgtttccacagAAGCCTGAACGTGAGGATTGGGAGAGTGGGCTACAATGGAATAGAATGCGCACTCCACTTGGAAAAGAGTGTAACCAGTCCCTACTGGAGCTGCATGAACTAGCAACTGATAAGAATGACCTCCATgtaagcttcaataggctgcatatagatgggttgccatcatgaggagaaaa #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gcCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga atgctacatgcataatgccttaatactagaagtttcccatatcccactaggtCCCATGTCTGTTGGTTTACGACTTTTCTCTACCGTGGATGGAACATGCAT-CGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTgagtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from CESAR gcCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga atgctacatgcataatgccttaatactagaagtttcccatatcccactaggtCCCATGTCTGTTGGTTTACGACTTTTCTCTACCGTGGATGGAACATGCA-TCGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTgagtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Spaln_aa2Genome GCCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTTTAcGACTTTTCTCTACCGTGGATGGAACATGCATC-GGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Spaln_nt2Genome GCCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTACCGTGGATGGAACATGCAT-CGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Pairagon GCCCCACGTCTGTAGGTTTG-GACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTACCGTGGATGGAACATGCAT-CGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTACCGTGGATGGAACATGCATCGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTACCGTGGATGGAACATGCATCGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg Alignment from GeneWise GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA atgctacatgcataatgccttaatactagaagtttcccatatcccactagGTCCCATGTCTGTTGGTTTACGACTTTTCTCTACCGTGGATGGAACATGCATCGGGATCCCTGAACATGCTGACAGCTTAAGACTGAAGGTTACTGAgtgagcccttgtgatgacagtaaacagcattttcaggaagacaatctttg #### Ganab_ID2471_10 --> 1 - 0 Original Alignment gGGCGGTGAGCCGTACCGC-CTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagaGGTGGTGAGCCATATCGTCTTGTACAACTTAGATGTATTACAGTACGAGC-AAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from CESAR gGGCGGTGAGCCGTACCGC-CTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagaGGTGGTGAGCCATATCGTCTTGTACAACTTAGATGTATTACAGTACGAG-CAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Spaln_aa2Genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTCTTGTACAACTTAGATGTATTACAGTACGAGCAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Spaln_nt2Genome GGGCGGTGAGCCGTACCGCCT-GTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTCTTGTACAACTTAGATGTATTACAGTACGAGC-AAATAACCCAACAGCACTCTATGGGTCGGTACCTG---TTCTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACAC------AAAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Pairagon GGGCGGTGAGCCGTACCG-CCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTCTTGTACAACTTAGATGTATTACAGTACGAGC-AAATAACCCAACAGCACTCTATGGGTCGGTACCTG---TTCTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACAC------AAAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Exonerate_protein2genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCT atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTCTTGTACAACTTAGATGTATTACAGTACGAGCAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACAAAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from Exonerate_coding2genome GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCT atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTCTTGTACAACTTAGATGTATTACAGTACGAGCAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACAAAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag Alignment from GeneWise GGGCGGTGAGCCGTACCGCCTGTACAATTTGGATGTGTTCCAGTATGAGCTGAACAACCCCATGGCTCTATATGGGTCTGTGCCTGTGCTCCTGGCACACAGCTTTCATCGAGACCTGGGCATCTTCTGGCTTAATGCTGCTGAGACTTGGGTTGATATATCCTCCAACACGGCTGGGAAG atttttttcagataagaaatcttcatgtccctgtggcgcaccccttccagAGGTGGTGAGCCATATCGTCTTGTACAACTTAGATGTATTACAGTACGAGCAAATAACCCAACAGCACTCTATGGGTCGGTACCTGTT---CTGGCACACAGCTTCCATCGAGACCTGGGAATCTTCTGGCTCAATGCAGCTGAGACTTGGGTTGATATATCATCTAACACA------AAGgtaatccgtagatatgtgagatatgaggtctgccttaaacatctcatcag #### Ganab_ID2472_11 --> 0 - 1 Original Alignment ACCCTGTTTGGGAAGATGCTT-GATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAg atgaggtctgccttaaacatctcatcagactgtctgtcctgtttccacagACACTATTTGGTAAGATGCTTCGATTACCTGCAAGGTTCTGGGGAGACTCCCCAGACAGATA-TCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTCGATGTCTTTAGACAGTATGCTAGTCTCACAggtaagtatgattctacttcctcacaaattaagtgacaaagcatttatact Alignment from CESAR ACCCTGTTTGGGAAGATGCTT-GATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAg atgaggtctgccttaaacatctcatcagactgtctgtcctgtttccacagACACTATTTGGTAAGATGCTTCGATTACCTGCAAGGTTCTGGGGAGACTCCCCAGACAGATA-TCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTCGATGTCTTTAGACAGTATGCTAGTCTCACAggtaagtatgattctacttcctcacaaattaagtgacaaagcatttatact Alignment from Spaln_aa2Genome ACCCTGTTTGGGAAGATGCTT-GATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG atgaggtctgccttaaacatctcatcagactgtctgtcctgtttccacagACACTATTTGGTAAGATGCTTcGATTACCTGCAAGGTTCTGGGGAGACTCCCCAGACAGATAT-CGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTCGATGTCTTTAGACAGTATGCTAGTCTCACAGgtaagtatgattctacttcctcacaaattaagtgacaaagcatttatact Alignment from Spaln_nt2Genome ACCCTGTTTGGGAAGATGCTT-GATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG atgaggtctgccttaaacatctcatcagactgtctgtcctgtttccacagACACTATTTGGTAAGATGCTTCGATTACCTGCAAGGTTCTGGGGAGACTCCCCAGACAGATA-TCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTCGATGTCTTTAGACAGTATGCTAGTCTCACAGgtaagtatgattctacttcctcacaaattaagtgacaaagcatttatact Alignment from Pairagon ACCCTGTTTGGGAAGATGCTT-GATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG atgaggtctgccttaaacatctcatcagactgtctgtcctgtttccacagACACTATTTGGTAAGATGCTTCGATTACCTGCAAGGTTCTGGGGAGACTCCCCAGACAGATA-TCGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTCGATGTCTTTAGACAGTATGCTAGTCTCACAGgtaagtatgattctacttcctcacaaattaagtgacaaagcatttatact Alignment from Exonerate_protein2genome ACCCTGTTTGGGAAGATGCTT-GATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGAC--ATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG atgaggtctgccttaaacatctcatcagactgtctgtcctgtttccacagACACTATTTGGTAAGATGCTTCGATTACCTGCAAGGTTCTGGGGAGACTCCCCAGACAGATAT---CGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTCGATGTCTTTAGACAGTATGCTAGTCTCACAGgtaagtatgattctacttcctcacaaattaagtgacaaagcatttatact Alignment from Exonerate_coding2genome ACCCTGTTTGGGAAGATGCTT-GATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGAC--ATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG atgaggtctgccttaaacatctcatcagactgtctgtcctgtttccacagACACTATTTGGTAAGATGCTTCGATTACCTGCAAGGTTCTGGGGAGACTCCCCAGACAGATAT---CGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTCGATGTCTTTAGACAGTATGCTAGTCTCACAGgtaagtatgattctacttcctcacaaattaagtgacaaagcatttatact Alignment from GeneWise --------------------------------------------GGGAAGACCCTGTTTGGGAAGATG-CTTGATTACCTGCAGGGCTCTGGGGAGACTCCACAGACAGACATTCGTTGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGCCCTTCGGTTTTTGATGTCTTTAGGCAGTATGCTAGTCTCACAG ATGAGGTCTGCCTTAAACATCTCATCAGACTGTCTGTCCTGTTTCCACAGACACTATTTGGTAAGATGCTTCGATTACCTGCAAGGTTCTGGGGAGACTCCCCAGACAGATAT-CGATGGATGTCAGAGAGTGGCATTATTGATGTTTTCCTAATGCTTGGTCCTCCAGTTTTCGATGTCTTTAGACAGTATGCTAGTCTCACAGgtaagtatgattctacttcctcacaaattaagtgacaaagcatttatact #### Ganab_ID2475_14 --> 2 - 0 Original Alignment Ag gcTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AggtatcctccatgaccaatgaagttttgcctttctcctttccattgcaggcTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCT-GTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaaacaattgggccagttggttgtccacataattttgattattagtcat Alignment from CESAR Ag gcTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AggtaacttccatgaccaatgaagttttgcctttctcctttccattgcaggcTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCC-TGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaaacaattgggccagttggttgtccacataattttgattattagtcat Alignment from Spaln_aa2Genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtatcctccatgaccaatgaagttttgcctttctcctttccattgcagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaaacaattgggccagttggttgtccacataattttgattattagtcat Alignment from Spaln_nt2Genome AG GCTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtatcctccatgaccaatgaagttttgcctttctcctttccattgcagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCT-GTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaaacaattgggccagttggttgtccacataattttgattattagtcat Alignment from Pairagon AG GCTCAGCTAGTTACCCT-GACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtatcctccatgaccaatgaagttttgcctttctcctttccattgcagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCT-GTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaaacaattgggccagttggttgtccacataattttgattattagtcat Alignment from Exonerate_protein2genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtatcctccatgaccaatgaagttttgcctttctcctttccattgcagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaaacaattgggccagttggttgtccacataattttgattattagtcat Alignment from Exonerate_coding2genome AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtatcctccatgaccaatgaagttttgcctttctcctttccattgcagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaaacaattgggccagttggttgtccacataattttgattattagtcat Alignment from GeneWise AG GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG AGgtatcctccatgaccaatgaagttttgcctttctcctttccattgcagGCTCAGCTAGTTACCCTCGACTACACCAATCCAAGGATGAGGGCCTGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtaaacaattgggccagttggttgtccacataattttgattattagtcat #### Ganab_ID2478_17 --> 2 - 1 Original Alignment gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTG-AAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg cagtgactaatatcttgtcggcgtagtctccagctttcttgacctcataggaGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGCAAGATCTCTATCCATATGTGCCTCAGCTTGG-ATTGGTGGGGCTGTCATTCTGTGGAggtaagtgcagttatcatctgggctcttgcattgggttggtgtgttggtac Alignment from CESAR gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTG-AAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg cagtgactaatatcttgtcggcgtagtctccagctttcttgacctcataggaGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGCAAGATCTCTATCCATATGTGCCTCAGCTTG-GATTGGTGGGGCTGTCATTCTGTGGAggtaagtgcagttatcatctgggctcttgcattgggttggtgtgttggtac Alignment from Spaln_aa2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgactaatatcttgtcggcgtagtctccagctttcttgacctcatagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGCAAGATCTCTATCCATATGTGCCTCAGCTTGGATTGGTGGGGCTGTCATTCTGTGGAGgtaagtgcagttatcatctgggctcttgcattgggttggtgtgttggtac Alignment from Spaln_nt2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGA-AGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgactaatatcttgtcggcgtagtctccagctttcttgacctcatagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGCAAGATCTCTATCCATATGTGCCTCAGCT-TGGATTGGTGGGGCTGTCATTCTGTGGAGgtaagtgcagttatcatctgggctcttgcattgggttggtgtgttggtac Alignment from Pairagon GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTG-AAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgactaatatcttgtcggcgtagtctccagctttcttgacctcatagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGCAAGATCTCTATCCATATGTGCCTCAGCTTGG-ATTGGTGGGGCTGTCATTCTGTGGAGgtaagtgcagttatcatctgggctcttgcattgggttggtgtgttggtac Alignment from Exonerate_protein2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgactaatatcttgtcggcgtagtctccagctttcttgacctcatagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGCAAGATCTCTATCCATATGTGCCTCAGCTTGGATTGGTGGGGCTGTCATTCTGTGGAGgtaagtgcagttatcatctgggctcttgcattgggttggtgtgttggtac Alignment from Exonerate_coding2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgactaatatcttgtcggcgtagtctccagctttcttgacctcatagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGCAAGATCTCTATCCATATGTGCCTCAGCTTGGATTGGTGGGGCTGTCATTCTGTGGAGgtaagtgcagttatcatctgggctcttgcattgggttggtgtgttggtac Alignment from GeneWise GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG cagtgactaatatcttgtcggcgtagtctccagctttcttgacctcatagGAGCTGTGTGGGCAGGGGACAACACTGCTGAATGGGATCATTTGCAAGATCTCTATCCATATGTGCCTCAGCTTGGATTGGTGGGGCTGTCATTCTGTGGAGgtaagtgcagttatcatctgggctcttgcattgggttggtgtgttggtac #### Ganab_ID2481_20 --> 2 - 0 Original Alignment gtGATGCACTCCTTATT-CACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctaggtGACACACTCCTTATTCCACCCTGTATCAGATGCCGGGGCCCATGGTG-GCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccagaagctttc Alignment from CESAR gtGATGCACTCCTTATT-CACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctaggtGACACACTCCTTATTCCACCCTGTATCAGATGCCGGGGCCCATGGT-GGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccagcatgctga Alignment from Spaln_aa2Genome CTTGGTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTC---CACCCTGTATCAGATGCCGGGGCCCATGGTGG-CAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccagaagctttc Alignment from Spaln_nt2Genome GTGATGCACTCCTTATTC-ACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCCACCCTGTATCAGATGCCGGGGCCCATGGTG-GCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccagaagctttc Alignment from Pairagon GTGATGCACTCCTTATT-CACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCCACCCTGTATCAGATGCCGGGGCCCATGGTG-GCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccagaagctttc Alignment from Exonerate_protein2genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCCACCCTGTATCAGATGCCGGGGCCCATGGTGGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccagaagctttc Alignment from Exonerate_coding2genome GTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA ggaacaggctgctcagatgtgtccaaagtgctctcttctcattgatctagGTGACACACTCCTTATTCCACCCTGTATCAGATGCCGGGGCCCATGGTGGCAGGTTTATTTGCCCGGCCAAGAAGAAgtaagttgccaaatggcaatacataggtgtgtcaggagccagaagctttc Alignment from GeneWise ----------------------------------------------CTTGGTGATGCACTCCTTATTCACCCTGTATCGGATGCTGGGGCCCACGGAGTGCAGGTCTATTTGCCTGGCCAAGAAGAA-------------------------------------------------- GGAACAGGCTGCTCAGATGTGTCCAAAGTGCTCTCTTCTCATTGATCTAGGTGACACACTCCTTATTCCACCCTGTATCAGATGCCGGGGCCCATGGTGGCAGGTTTATTTGCCCGGCCAAGAAGAAGTAAGTTGCCAAATGGCAATACATAGGTGTGTCAGGAGCCAGAAGCTTTC #### Ganab_ID2482_21 --> 0 - 0 Original Alignment GTGTGGTATGAC-ATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATCATCCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGT-TCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from CESAR GTGTGGTATGAC-ATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATCATCCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGT-TCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Spaln_aa2Genome GTGTGGTATGAC-ATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATcATCCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTT-CTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Spaln_nt2Genome GTGTGGTATGA-CATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATCATCCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGT-TCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Pairagon GTGTGGTATGA-CATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATCATCCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGT-TCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Exonerate_protein2genome GTGTGGTATGAC-ATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTG--TATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATCATCCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTT---CTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from Exonerate_coding2genome GTGTGGTATGAC-ATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTG--TATCTGCCAGTAACTTTGAGCAGT tggcaatacataggtgtgtcaggagccagcatgctgacttctctccccagGTGTGGTATGATCATCCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTT---CTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa Alignment from GeneWise --------------------------------------------------GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT TGGCAATACATAGGTGTGTCAGGAGCCAGCATGCTGACTTCTCTCCCCAGGTGTGGTATGATCATCCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTTCTACCAGTAACCTTAAGCAGCgtgagggggagatttgtaagggtatccatgcctgtttgtcgggattggaa #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ATCCCCGTGTTCCAGCGTGGCGGAACCATT-GTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatggcataagagaaataaaattatgaccaatttatttttttattttagATCCCTGTGTTCCAGTGTGGTGGCACAATTCGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACT-CATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtgagtatttaatcaccaggactgggttcattatagatttatcttaaacc Alignment from CESAR ATCCCCGTGTTCCAGCGTGGCGGAACCATT-GTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatggcataagagaaataaaattatgaccaatttatttttttattttagATCCCTGTGTTCCAGTGTGGTGGCACAATTCGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGAC-TCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtgagtatttaatcaccaggactgggttcattatagatttatcttaaacc Alignment from Spaln_aa2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatggcataagagaaataaaattatgaccaatttatttttttattttagATCCCTGTGTTCCAGTGTGGTGGCACAATTCGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtgagtatttaatcaccaggactgggttcattatagatttatcttaaacc Alignment from Spaln_nt2Genome ATCCCCGTGTTCCAGCGTGGCGGAACCATT-GTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatggcataagagaaataaaattatgaccaatttatttttttattttagATCCCTGTGTTCCAGTGTGGTGGCACAATTCGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACT-CATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtgagtatttaatcaccaggactgggttcattatagatttatcttaaacc Alignment from Pairagon ATCCCCGTGTTCCAGCGTGGCGGAACCATT-GTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatggcataagagaaataaaattatgaccaatttatttttttattttagATCCCTGTGTTCCAGTGTGGTGGCACAATTCGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACT-CATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtgagtatttaatcaccaggactgggttcattatagatttatcttaaacc Alignment from Exonerate_protein2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatggcataagagaaataaaattatgaccaatttatttttttattttagATCCCTGTGTTCCAGTGTGGTGGCACAATTCGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtgagtatttaatcaccaggactgggttcattatagatttatcttaaacc Alignment from Exonerate_coding2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatggcataagagaaataaaattatgaccaatttatttttttattttagATCCCTGTGTTCCAGTGTGGTGGCACAATTCGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtgagtatttaatcaccaggactgggttcattatagatttatcttaaacc Alignment from GeneWise ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatggcataagagaaataaaattatgaccaatttatttttttattttagATCCCTGTGTTCCAGTGTGGTGGCACAATTCGTCCCTCGATGGATGCGTGTCAGGCGCCCTTCAGACTCATGAAGGATGATCCTATCACTCTTTTTGTTGCTCTCAGTCCCCAGgtgagtatttaatcaccaggactgggttcattatagatttatcttaaacc #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTA-GATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg acccagctgcaagcatggggagaatgatataaatttctgtatccatttagctGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGCGATTCTCGCGGGCTTTACTTTCCCACTGGAG-GTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTcgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTA-GATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg acccagctgcaagcatggggagaatgatataaatttctgtatccatttagctGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGCGATTCTCGCGGGCTTTACTTTCCCACTGGAG-GTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTcgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Spaln_aa2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGCGATTCTCGCGGGCTTTACTTTCCCACTGGAGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Spaln_nt2Genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTA-GATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGCGATTCTCGCGGGCTTTACTTTCCCACTGGAGG-TGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Pairagon CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTA-GATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGCGATTCTCGCGGGCTTTACTTTCCCACTGGAGG-TGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Exonerate_protein2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGCGATTCTCGCGGGCTTTACTTTCCCACTGGAGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from Exonerate_coding2genome CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGCGATTCTCGCGGGCTTTACTTTCCCACTGGAGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta Alignment from GeneWise CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG acccagctgcaagcatggggagaatgatataaatttctgtatccatttagCTGAAGGAGCAACCATTGATGGGAAATCCACAGGGGTTGCCTTGCGATTCTCGCGGGCTTTACTTTCCCACTGGAGGTGGTTG---ACAGATTATGGCAAACCAGGATGCAGAGATCTAGAAGAATCAGGTGATTCTAGTCgtaattaacacaatacattcaactggcttgaactaccagtcaacgtttta #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG atagccaagatacctattcaaaagggcttggattcctgccttgcccttagCAGTGCGACCCACGAAAAGATGATCACAGAAAGCAAGTTCCTCCAGC-GGAATCTCTGCAGGAACTCATGAAGgtaccctatgaacagatcatggaaaaatagaattatactggtgcagtgca Alignment from CESAR CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG atagccaagatacctattcaaaagggcttggattcctgccttgcccttagCAGTGCGACCCACGAAAAGATGATCACAGAAAGCAAGTTCCTCCAG-CGGAATCTCTGCAGGAACTCATGAAGgtaccctatgaacagatcatggaaaaatagaattatactggtgcagtgca Alignment from Spaln_aa2Genome CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG atagccaagatacctattcaaaagggcttggattcctgccttgcccttagCAGTGCGACCCAcGAAAAGATGATCACAGAAAGCAAGTTCCTCCAGCG-GAATCTCTGCAGGAACTCATGAAGgtaccctatgaacagatcatggaaaaatagaattatactggtgcagtgca Alignment from Spaln_nt2Genome CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG atagccaagatacctattcaaaagggcttggattcctgccttgcccttagCAGTGCGACCCACGAAAAGATGATCACAGAAAGCAAGTTCCTCCAGC-GGAATCTCTGCAGGAACTCATGAAGgtaccctatgaacagatcatggaaaaatagaattatactggtgcagtgca Alignment from Pairagon CAATGTGACCCA-GAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG atagccaagatacctattcaaaagggcttggattcctgccttgcccttagCAGTGCGACCCACGAAAAGATGATCACAGAAAGCAAGTTCCTCCAGC-GGAATCTCTGCAGGAACTCATGAAGgtaccctatgaacagatcatggaaaaatagaattatactggtgcagtgca Alignment from Exonerate_protein2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG atagccaagatacctattcaaaagggcttggattcctgccttgcccttagCAGTGCGACCCACGAAAAGATGATCACAGAAAGCAAGTTCCTCCAGCGGAATCTCTGCAGGAACTCATGAAGgtaccctatgaacagatcatggaaaaatagaattatactggtgcagtgca Alignment from Exonerate_coding2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG atagccaagatacctattcaaaagggcttggattcctgccttgcccttagCAGTGCGACCCACGAAAAGATGATCACAGAAAGCAAGTTCCTCCAGCGGAATCTCTGCAGGAACTCATGAAGgtaccctatgaacagatcatggaaaaatagaattatactggtgcagtgca Alignment from GeneWise CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG atagccaagatacctattcaaaagggcttggattcctgccttgcccttagCAGTGCGACCCACGAAAAGATGATCACAGAAAGCAAGTTCCTCCAGCGGAATCTCTGCAGGAACTCATGAAGgtaccctatgaacagatcatggaaaaatagaattatactggtgcagtgca #### Gbf1_ID9815_34 --> 2 - 0 Original Alignment gaATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAG-GCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG gaacacttggtgactttcacaattgctctgcccttttctctctctcccaggaATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCAGCGCCTTGACATATCTCCAACATGCACTTCTTGTCC-TGACCTGCAGCAACTAGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtaggtgtaactcataatagatgctggttcacagcatacaccccaaaggg Alignment from CESAR gaATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAG-GCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG gaacacttggtgactttcacaattgctctgcccttttctctctctcccaggaATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCAGCGCCTTGACATATCTCCAACATGCACTTCTTGTC-CTGACCTGCAGCAACTAGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtaggtgtaactcataatagatgctggttcacagcatacaccccaaaggg Alignment from Spaln_aa2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG gaacacttggtgactttcacaattgctctgcccttttctctctctcccagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCAGCGCCTTGACATATCTCCAACATGCACTTCTTGTCCTGACCTGCAGCAACTAGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtaggtgtaactcataatagatgctggttcacagcatacaccccaaaggg Alignment from Spaln_nt2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAG-GCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG gaacacttggtgactttcacaattgctctgcccttttctctctctcccagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCAGCGCCTTGACATATCTCCAACATGCACTTCTTGT-CCTGACCTGCAGCAACTAGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtaggtgtaactcataatagatgctggttcacagcatacaccccaaaggg Alignment from Pairagon GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAG-GCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG gaacacttggtgactttcacaattgctctgcccttttctctctctcccagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCAGCGCCTTGACATATCTCCAACATGCACTTCTTGT-CCTGACCTGCAGCAACTAGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtaggtgtaactcataatagatgctggttcacagcatacaccccaaaggg Alignment from Exonerate_protein2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG gaacacttggtgactttcacaattgctctgcccttttctctctctcccagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCAGCGCCTTGACATATCTCCAACATGCACTTCTTGTCCTGACCTGCAGCAACTAGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGgtaggtgtaactcataatagatgctggttcacagcatacaccccaaaggg Alignment from Exonerate_coding2genome gaacacttggtgactttcacaattgctctgcccttttctctctctcccaggaattgcttgcttatgctgtgatgctcgacgccaggtgcggatgcagcgccttgacatatctccaacatgcacttcttgtcctgacctgcagcaactagatgccctggagtgggagtcttgttcaaacaaggtaggtgtaactcataatagatgctggttcacagcatacaccccaaaggg Alignment from GeneWise GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAAC----------------------------------------------------- gaacacttggtgactttcacaattgctctgcccttttctctctctcccagGAATTGCTTGCTTATGCTGTGATGCTCGACGCCAGGTGCGGATGCAGCGCCTTGACATATCTCCAACATGCACTTCTTGTCCTGACCTGCAGCAACTAGATGCCCTGGAGTGGGAGTCTTGTTCAAACAAGGTAGGTGTAACTCATAATAGATGCTGGTTCACAGCATACACCCCAAAGGG #### Gbf1_ID9816_35 --> 0 - 0 Original Alignment GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATC-AGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacagcatacaccccaaagggttggtaaggctcacccttgtccctacagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTCAGTCCTGCAGAGGTAGGTGGGATGAAAGAGACACGGA-GCGGGCATCCACACTCCTTTCAAAGgtaccataccttgtatgcacactgacatgattgctatctcatcactgtag Alignment from CESAR GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATC-AGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacagcatacaccccaaagggttggtaaggctcacccttgtccctacagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTCAGTCCTGCAGAGGTAGGTGGGATGAAAGAGACACGG-AGCGGGCATCCACACTCCTTTCAAAGgtaccataccttgtatgcacactgacatgattgctatctcatcactgtag Alignment from Spaln_aa2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacagcatacaccccaaagggttggtaaggctcacccttgtccctacagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTCAGTCCTGCAGAGGTAGGTGGGATGAAAGAGACACGGAGCGGGCATCCACACTCCTTTCAAAGgtaccataccttgtatgcacactgacatgattgctatctcatcactgtag Alignment from Spaln_nt2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATAT-CAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacagcatacaccccaaagggttggtaaggctcacccttgtccctacagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTCAGTCCTGCAGAGGTAGGTGGGATGAAAGAGACACGGA-GCGGGCATCCACACTCCTTTCAAAGgtaccataccttgtatgcacactgacatgattgctatctcatcactgtag Alignment from Pairagon GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATA-TCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacagcatacaccccaaagggttggtaaggctcacccttgtccctacagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTCAGTCCTGCAGAGGTAGGTGGGATGAAAGAGACACGGA-GCGGGCATCCACACTCCTTTCAAAGgtaccataccttgtatgcacactgacatgattgctatctcatcactgtag Alignment from Exonerate_protein2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacagcatacaccccaaagggttggtaaggctcacccttgtccctacagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTCAGTCCTGCAGAGGTAGGTGGGATGAAAGAGACACGGAGCGGGCATCCACACTCCTTTCAAAGgtaccataccttgtatgcacactgacatgattgctatctcatcactgtag Alignment from Exonerate_coding2genome tcacagcatacaccccaaagggttggtaaggctcacccttgtccctacaggtgctatttccccttctttccaagctcttagagaatattcagtcctgcagaggtaggtgggatgaaagagacacggagcgggcatccacactcctttcaaaggtaccataccttgtatgcacactgacatgattgctatctcatcactgtag Alignment from GeneWise GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG tcacagcatacaccccaaagggttggtaaggctcacccttgtccctacagGTGCTATTTCCCCTTCTTTCCAAGCTCTTAGAGAATATTCAGTCCTGCAGAGGTAGGTGGGATGAAAGAGACACGGAGCGGGCATCCACACTCCTTTCAAAGgtaccataccttgtatgcacactgacatgattgctatctcatcactgtag #### Gbf1_ID9818_37 --> 0 - 1 Original Alignment TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATT-ACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtgtccattcagactactacttctcctataatcttttcttctcttatagACAGAAGCTATCCCTGAGTCTCTGAAAAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCTACTACCCTCTGGGAGATACACATGGGAGCGTATTGTATGCTTCTTGCCACACTTGC-TGATGAACTCTTCAAGCAGACTGTAATCCAAggtgcccgcagatttggtaaccaagcaatttatgaactaacagaactaccc Alignment from CESAR TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATT-ACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg agtgtccattcagactactacttctcctataatcttttcttctcttatagACAGAAGCTATCCCTGAGTCTCTGAAAAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCTACTACCCTCTGGGAGATACACATGGGAGCGTATTGTATGCTTCTTGCCACACTTG-CTGATGAACTCTTCAAGCAGACTGTAATCCAAggtgcccgcagatttggtaaccaagcaatttatgaactaacagaactaccc Alignment from Spaln_aa2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcagactactacttctcctataatcttttcttctcttatagACAGAAGCTATCCCTGAGTCTCTGAAAAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCTACTACCCTCTGGGAGATACACATGGGAGCGTATTGTATGCTTCTTGCCACACTTGCTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtgcccgcagatttggtaaccaagcaatttatgaactaacagaactaccc Alignment from Spaln_nt2Genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATT-ACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcagactactacttctcctataatcttttcttctcttatagACAGAAGCTATCCCTGAGTCTCTGAAAAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCTACTACCCTCTGGGAGATACACATGGGAGCGTATTGTATGCTTCTTGCCACACTTGC-TGATGAACTCTTCAAGCAGACTGTAATCCAAGgtgcccgcagatttggtaaccaagcaatttatgaactaacagaactaccc Alignment from Pairagon TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGAT-TACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcagactactacttctcctataatcttttcttctcttatagACAGAAGCTATCCCTGAGTCTCTGAAAAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCTACTACCCTCTGGGAGATACACATGGGAGCGTATTGTATGCTTCTTGCCACACTTGC-TGATGAACTCTTCAAGCAGACTGTAATCCAAGgtgcccgcagatttggtaaccaagcaatttatgaactaacagaactaccc Alignment from Exonerate_protein2genome TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcagactactacttctcctataatcttttcttctcttatagACAGAAGCTATCCCTGAGTCTCTGAAAAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCTACTACCCTCTGGGAGATACACATGGGAGCGTATTGTATGCTTCTTGCCACACTTGCTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtgcccgcagatttggtaaccaagcaatttatgaactaacagaactaccc Alignment from Exonerate_coding2genome agtgtccattcagactactacttctcctataatcttttcttctcttatagacagaagctatccctgagtctctgaaaaacatgctactgctaatggatacagcagagattttccatagtgctgatgctagaggaggaggtcctactaccctctgggagatacacatgggagcgtattgtatgcttcttgccacacttgctgatgaactcttcaagcagactgtaatccaaggtgcccgcagatttggtaaccaagcaatttatgaactaacagaactaccc Alignment from GeneWise TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG agtgtccattcagactactacttctcctataatcttttcttctcttatagACAGAAGCTATCCCTGAGTCTCTGAAAAACATGCTACTGCTAATGGATACAGCAGAGATTTTCCATAGTGCTGATGCTAGAGGAGGAGGTCCTACTACCCTCTGGGAGATACACATGGGAGCGTATTGTATGCTTCTTGCCACACTTGCTGATGAACTCTTCAAGCAGACTGTAATCCAAGgtgcccgcagatttggtaaccaagcaatttatgaactaacagaactaccc #### Gbf1_ID9819_38 --> 2 - 1 Original Alignment acCCCATGCCTGCGGAACCGCACAGT-CAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTg acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagacCCAATGCCTGCTGAAACACGCAGTCCAGGAGCCT---GCATCCACTCACCTGATCC-TGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTggtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from CESAR acCCCATGCCTGCGGAACCGCACAGT-CAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTg acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagacCCAATGCCTGCTGAAACACGCAGTCCAGGAGCCT---GCATCCACTCACCTG-ATCCTGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTggtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Spaln_aa2Genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGTCCAGGAGCCTGCATCCACTCACCT---GATCCTGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Spaln_nt2Genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGTCCAGGAGC-CT-GCATCCACTCACCTGA-TCCTGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Pairagon ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCC-----------TCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGT-------------CCAGGAGCCTGCATCCACTCACCTGA-TCCTGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Exonerate_protein2genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGTCCAGGAGCCTGCATCCACTCACCT---GATCCTGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from Exonerate_coding2genome acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagacccaatgcctgctgaaacacgcagtccaggagcctgcatccactcacctgatcctgcagctggtgagcccaggatgcctggccatgcgcccctcccagagataccctcagaaatgggtgtttgtggtgagttccccccagcccattacatgtgtaaataagtgcattcacacata Alignment from GeneWise ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCT---GCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG acatagtgttttgcagctatgagtagtcttccctcccaccccccacaaagACCCAATGCCTGCTGAAACACGCAGT------CCAGGAGCCTGCATCCACTCACCTGATCCTGCAGCTGGTGAGCCCAGGATGCCTGGCCATGCGCCCCTCCCAGAGATACCCTCAGAAATGGGTGTTTGTGgtgagttccccccagcccattacatgtgtaaataagtgcattcacacata #### Gif_ID3278_2 --> 2 - 1 Original Alignment ctGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTG-ATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAg agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagctGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACCATG---CATTGCCAAGAACCTGGCTGGTGCATACATTGTGGGGCCTCAAA-ACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAggtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from CESAR ctGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAg agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagctGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACCATG--CATTGCCAAGAACCTGGCTGGTGCATACATTGTG-GGGCCTCAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAggtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Spaln_aa2Genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACCATGC--ATTGCCAAGAACCTGGCTGGTGCATACATTGTGGG-GCCTCAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Spaln_nt2Genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACCATGC--ATTGCCAAGAACCTGGCTGGTGCATACATTGTGG-GGCCTCAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Pairagon CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACCATGC--ATTGCCAAGAACCTGGCTGGTGCATACATTGTGG-GGCCTCAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Exonerate_protein2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACC---ATGCATTGCCAAGAACCTGGCTGGTGCATACATTGTGGGGCCTCAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from Exonerate_coding2genome CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACC---ATGCATTGCCAAGAACCTGGCTGGTGCATACATTGTGGGGCCTCAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa Alignment from GeneWise CTGTGCCCCCAGATCAGCAACCCTGGGTCGATGGCCTACAAGCGCTCATGGAGAACTCGGTGACTGACTCAGACTTCCCAAACCCCAGCATCCTGATTGCCATGAACCTGGCCGGCGCCTACAACGTGGAGGCCCAGAAACTCCTGACTTACCAGCTCATGGCCAGTGACAGTGCAG agtcattctgtggagctgcacacagtagaatgtcctgggtcttcccacagCTGTTCCCCTAGATCAACATCCTTGGGTTGAAGGCTTACAAACACTCATGGAAAACTCAGTAACTGACTCCGACTTCCCTAACCCAACC---ATGCATTGCCAAGAACCTGGCTGGTGCATACATTGTGGGGCCTCAAAACTCCTGACTTACCAACTAATGGCCAGTGAAAGTGCAGgtgagacactaagggtacatttttaccatgagtcttttatgttcgcccaa #### Gldc_ID6390_24 --> 0 - 0 Original Alignment ATGTCTCCACACTCCTTG-ACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcttttctgcttatttttgacagATGTCACCACATTCCTTACATCTGTGTAACCTCTTCATGCTGGGATCAGCCCTATTCCCGGG-GGTTGTTGCATTCCCACTGgtactgcctgtaggtgatttaacctcagagtctgtttgtgtctagttgag Alignment from CESAR ATGTCTCCACACTCCTTG-ACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcttttctgcttatttttgacagATGTCACCACATTCCTTACATCTGTGTAACCTCTTCATGCTGGGATCAGCCCTATTCCCGG-GGGTTGTTGCATTCCCACTGgtactgcctgtaggtgatttaacctcagagtctgtttgtgtctagttgag Alignment from Spaln_aa2Genome TGTCTCCACAC---TCCTTGACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACT ttaactatccctgccagggcaattttttcttttctgcttatttttgacagATGTCACCACATTCCTTACATCTGTGTAACCTCTTCATGCTGGGATCAGCCCTATTCCCGGGG-GTTGTTGCATTCCCACTGgtactgcctgtaggtgatttaacctcagagtctgtttgtgtctagttgag Alignment from Spaln_nt2Genome ATGTCTCCACACTCCTTG-ACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcttttctgcttatttttgacagATGTCACCACATTCCTTACATCTGTGTAACCTCTTCATGCTGGGATCAGCCCTATTCCCG-GGGGTTGTTGCATTCCCACTGgtactgcctgtaggtgatttaacctcagagtctgtttgtgtctagttgag Alignment from Pairagon ATGTCTCCACACTCCTTG-ACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGAGAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcttttctgcttatttttgacagATGTCACCACATTCCTTACATCTGTGTAACCTCTTCATGCTGGGATCAGCCCTATTCCCG-GGGGTTGTTGCATTCCCACTGgtactgcctgtaggtgatttaacctcagagtctgtttgtgtctagttgag Alignment from Exonerate_protein2genome ATGTCTCCACACTCCTTG-ACCTGTGTCACATCCTCCTGCTGGGATCGGCCGTATTCTAGA--GAGGTAGCAGCATTTCCACTG ttaactatccctgccagggcaattttttcttttctgcttatttttgacagATGTCACCACATTCCTTACATCTGTGTAACCTCTTCATGCTGGGATCAGCCCTATTCCCGGGG---GTTGTTGCATTCCCACTGgtactgcctgtaggtgatttaacctcagagtctgtttgtgtctagttgag Alignment from Exonerate_coding2genome ttaactatccctgccagggcaattttttcttttctgcttatttttgacagatgtcaccacattccttacatctgtgtaacctcttcatgctgggatcagccctattcccgggggttgttgcattcccactggtactgcctgtaggtgatttaacctcagagtctgtttgtgtctagttgag Alignment from GeneWise ttaactatccctgccagggcaattttttcttttctgcttatttttgacagatgtcaccacattccttacatctgtgtaacctcttcatgctgggatcagccctattcccgggggttgttgcattcccactggtactgcctgtaggtgatttaacctcagagtctgtttgtgtctagttgag #### Gldc_ID6391_23 --> 2 - 0 Original Alignment gaTTTCACGCCCCTACCATGTCCTGGCCTGTGGCAGGGACTCTCATGATTGAGCCCACCGAGTCAGAAGACAAGGCAGAGCTCGACAGATTCTGTGATGCTATG-ATCAGCATCAGGCAAGAAATCGCTGACATAGAGGAGGGCCGCATCGACCCGAGGGTCAACCCCCTGAAG taattaatcagtaactctgaaccaatgggttaatttttcttcttttccaggcTTTCAGGCACCCAGCATGTCCTGGCCTGTGGTTAGAATTCTCATGATTGAGCCAACTAAATCA------------GATTTAGATAGATTCTGTGATGCCATCCCTCAGCATCAGGCAAGAGATTACAGACATAGAGGAGGGCCGCA-TGACCTACGGGTCAACCCTCTCAAGgtaagtcacccccctgaatgggcctcttatagaagttataatattgacaa Alignment from CESAR gaTTTCACGCCCCTACCATGTCCTGGCCTGTGGCAGGGACTCTCATGATTGAGCCCACCGAGTCAGAAGACAAGGCAGAGCTCGACAGATTCTGTGATGCTATG-ATCAGCATCAGGCAAGAAATCGCTGACATAGAGGAGGGCCGCATCGACCCGAGGGTCAACCCCCTGAAG taattaatcagtaactctgaaccaatgggttaatttttcttcttttccaggcTTTCAGGCACCCAGCATGTCCTGGCCTGTGGTTAGAATTCTCATGATTGAGCCAACT------------AAATCAGATTTAGATAGATTCTGTGATGCCATCCCTCAGCATCAGGCAAGAGATTACAGACATAGAGGAGGGCCGCA-TGACCTACGGGTCAACCCTCTCAAGgtaagtcacccccctgaatgggcctcttatagaagttataatattgacaa Alignment from Spaln_aa2Genome GGATTTCACGCCCCTACCATGTCCTGGCCTGTGGCAGGGACTCTCATGATTGAGCCCACCGAGTCAGAAGACAAGGCAGAGCTCGACAGATTCTGTGATGCTATG-ATCAGCATCAGGCAAGAAATCGCTGACATAGAGGAGGGCCGCATCGACCCGAGGGTCAACCCCCTGAA taattaatcagtaactctgaaccaatgggttaatttttcttcttttccagGCTTTCAGGCACCCAGCATGTCCTGGCCTGTGGTTAGAATTCTCATGATTGAGCCAACT------------AAATCAGATTTAGATAGATTCTGTGATGCCATCcCTCAGCATCAGGCAAGAGATTACAGACATAGAGGAGGGCCGCAT-GACCTACGGGTCAACCCTCTCAAGgtaagtcacccccctgaatgggcctcttatagaagttataatattgacaa Alignment from Spaln_nt2Genome GATTTCACGCCCCTACCATGTCCTGGCCTGTGGCAGGGACTCTCATGATTGAGCCCACCGAGTCAGAAGACAAGGCAGAGCTCGACAGATTCTGTGATGCTATGA-TCAGCATCAGGCAAGAAATCGCTGACATAGAGGAGGGCCGCATCGACCCGAGGGTCAACCCCCTGAAG taattaatcagtaactctgaaccaatgggttaatttttcttcttttccagGCTTTCAGGCACCCAGCATGTCCTGGCCTGTGGTTAGAATTCTCATGATTGAGCCAAC------------TAAATCAGATTTAGATAGATTCTGTGATGCCATCCCTCAGCATCAGGCAAGAGATTACAGACATAGAGGAGGGCCGCAT-GACCTACGGGTCAACCCTCTCAAGgtaagtcacccccctgaatgggcctcttatagaagttataatattgacaa Alignment from Pairagon GATTTCACGCCCCTACCATGTCCTGGCCTGTGGCAGGGACTCTCATGATTGAGCCCACCGAGTCAGAAGACAAGGCAGAGCTCGACAGATTCTGTGATGCTAT-GATCAGCATCAGGCAAGAAATCGCTGACATAGAGGAGGGCCGCATCGACCCGAGGGTCAACCCCCTGAAG taattaatcagtaactctgaaccaatgggttaatttttcttcttttccagGCTTTCAGGCACCCAGCATGTCCTGGCCTGTGGTTAGAATTCTCATGATTGAGCCAACTAAAT------------CAGATTTAGATAGATTCTGTGATGCCATCCCTCAGCATCAGGCAAGAGATTACAGACATAGAGGAGGGCCGCAT-GACCTACGGGTCAACCCTCTCAAGgtaagtcacccccctgaatgggcctcttatagaagttataatattgacaa Alignment from Exonerate_protein2genome GATTTCACGCCCCTACCATGTCCTGGCCTGTGGCAGGGACTCTCATGATTGAGCCCACCGAGTCAGAAGACAAGGCAGAGCTCGACAGATTCTGTGATGCTATG-ATCAGCATCAGGCAAGAAATCGCTGACATAGAGGAGGGCCGC--ATCGACCCGAGGGTCAACCCCCTGAAG taattaatcagtaactctgaaccaatgggttaatttttcttcttttccagGCTTTCAGGCACCCAGCATGTCCTGGCCTGTGGTTAGAATTCTCATGATTGAGCCAACT------------AAATCAGATTTAGATAGATTCTGTGATGCCATCCCTCAGCATCAGGCAAGAGATTACAGACATAGAGGAGGGCCGCAT---GACCTACGGGTCAACCCTCTCAAGgtaagtcacccccctgaatgggcctcttatagaagttataatattgacaa Alignment from Exonerate_coding2genome taattaatcagtaactctgaaccaatgggttaatttttcttcttttccaggctttcaggcacccagcatgtcctggcctgtggttagaattctcatgattgagccaactaaatcagatttagatagattctgtgatgccatccctcagcatcaggcaagagattacagacatagaggagggccgcatgacctacgggtcaaccctctcaaggtaagtcacccccctgaatgggcctcttatagaagttataatattgacaa Alignment from GeneWise GATTTCACGCCCCTACCATGTCCTGGCCTGTGGCAGGGACTCTCATGATTGAGCCCACCGAGTCAGAAGACAAGGCAGAGCTCGACAGATTCTGTGATGCTATGATCAGCATCAGGCAAGAAATCGCTGACATAGAGGAGGGCCGCATCGACCCGAGGGTCAACCCCCTGAAG taattaatcagtaactctgaaccaatgggttaatttttcttcttttccagGCTTTCAGGCACCCAGCATGTCCTGGCCTGTGGTTAGAATTCTCATGATTGAGCCAACT------------AAATCAGATTTAGATAGATTCTGTGATGCCATCCCTCAGCATCAGGCAAGAGATTACAGACATAGAGGAGGGCCGCATGACCTACGGGTCAACCCTCTCAAGgtaagtcacccccctgaatgggcctcttatagaagttataatattgacaa #### Got1_ID8751_4 --> 2 - 0 Original Alignment agAACCATAATGCTGTGTTT-TCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG agtttctatccccattaatagtggataacacaatctgtccttctccacagagAACCATAATGCTGTATTCCTCTGCTGCTGGTTTCAAGGATATTCGTCCCT-TTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtgagggaagataagaatagatgcccaagcttagtgcaggagggttttcc Alignment from CESAR agAACCATAATGCTGTGTTT-TCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG agtttctatccccattaatagtggataacacaatctgtccttctccacagagAACCATAATGCTGTATTCCTCTGCTGCTGGTTTCAAGGATATTCGTCCCT-TTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtgagggaagataagaatagatgcccaagcttagtgcaggagggttttcc Alignment from Spaln_aa2Genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG agtttctatccccattaatagtggataacacaatctgtccttctccacagAGAACCATAATGCTGTATTCCTCTGCTGCTGGTTTCAAGGATATTCGTCCCTTTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtgagggaagataagaatagatgcccaagcttagtgcaggagggttttcc Alignment from Spaln_nt2Genome AGAACCATAATGCTGTGTTT-TCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG agtttctatccccattaatagtggataacacaatctgtccttctccacagAGAACCATAATGCTGTATTCCTCTGCTGCTGGTTTCAAGGATATTCGTCCCT-TTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtgagggaagataagaatagatgcccaagcttagtgcaggagggttttcc Alignment from Pairagon AGAACCATAATGCTGTGTT-TTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG agtttctatccccattaatagtggataacacaatctgtccttctccacagAGAACCATAATGCTGTATTCCTCTGCTGCTGGTTTCAAGGATATTCGTCCCT-TTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtgagggaagataagaatagatgcccaagcttagtgcaggagggttttcc Alignment from Exonerate_protein2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG agtttctatccccattaatagtggataacacaatctgtccttctccacagAGAACCATAATGCTGTATTCCTCTGCTGCTGGTTTCAAGGATATTCGTCCCTTTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtgagggaagataagaatagatgcccaagcttagtgcaggagggttttcc Alignment from Exonerate_coding2genome AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG agtttctatccccattaatagtggataacacaatctgtccttctccacagAGAACCATAATGCTGTATTCCTCTGCTGCTGGTTTCAAGGATATTCGTCCCTTTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtgagggaagataagaatagatgcccaagcttagtgcaggagggttttcc Alignment from GeneWise AGAACCATAATGCTGTGTTTTCTGCCGCCGGTTTTAAGGACATTCGGCCCTATTGCTACTGGGATGCGGAGAAGAGAGGACTGGACCTCCAGGGTTTCCTGAATGATCTGGAG agtttctatccccattaatagtggataacacaatctgtccttctccacagAGAACCATAATGCTGTATTCCTCTGCTGCTGGTTTCAAGGATATTCGTCCCTTTGCTACTGGGATGCTGAGAAAAGAGGATTAGACCTTCAGGGTTTCCTTAATGATCTGGAGgtgagggaagataagaatagatgcccaagcttagtgcaggagggttttcc #### Gpam_ID11532_17 --> 0 - 0 Original Alignment CAAGATGACCAGGAAGATGTCAGTCCTGGCCTTGCAGAACAGCAGTGGGAC-AAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCAAGTCTTGCAGAACAGCAGTGGGACCAAAAAGCTTCCAGAGCTCAACTGGAGAA-TGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from CESAR CAAGATGACCAGGAAGATGTCAGTCCTGGCCTTGCAGAACAGCAGTGGGAC-AAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCAAGTCTTGCAGAACAGCAGTGGGACCAAAAAGCTTCCAGAGCTCAACTGGA-GAATGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Spaln_aa2Genome CAAGATGACCAGGAAGATGTCAGTCCTGGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCAAGTCTTGCAGAACAGCAGTGGGACCAAAAAGCTTCCAGAGCTCAACTGGAGAATGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Spaln_nt2Genome CAAGATGACCAGGAAGATGTCAGTCCTGGCCTTGCAGAACAGCAGTGGGAC-AAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCAAGTCTTGCAGAACAGCAGTGGGACCAAAAAGCTTCCAGAGCTCAACTGGAGAA-TGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Pairagon CAAGATGACCAGGAAGATGTCAGTCCTGGCCTTGCAGAACAGCAGTGGGA-CAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCAAGTCTTGCAGAACAGCAGTGGGACCAAAAAGCTTCCAGAGCTCAACTGGAGAA-TGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Exonerate_protein2genome CAAGATGACCAGGAAGATGTCAGTCCTGGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCAAGTCTTGCAGAACAGCAGTGGGACCAAAAAGCTTCCAGAGCTCAACTGGAGAATGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from Exonerate_coding2genome actagattctcatataccaacaagtgtctgtaacctcatcaattttacagcaagatgatcaggatgttagtccaagtcttgcagaacagcagtgggaccaaaaagcttccagagctcaactggagaatgatgaggacgatgaggatagtgattatggtgaagagcaccaagattgttatctaaaagtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc Alignment from GeneWise CAAGATGACCAGGAAGATGTCAGTCCTGGCCTTGCAGAACAGCAGTGGGACAAGAAGCTTCCGGAACTGAACTGGAGAAGTGACGAGGAAGATGAAGACAGTGACTTTGGTGAGGAGCAGCGAGATTGCTATCTCAAG actagattctcatataccaacaagtgtctgtaacctcatcaattttacagCAAGATGATCAG---GATGTTAGTCCAAGTCTTGCAGAACAGCAGTGGGACCAAAAAGCTTCCAGAGCTCAACTGGAGAATGATGAGGACGATGAGGATAGTGATTATGGTGAAGAGCACCAAGATTGTTATCTAAAAgtaaggggtagtggacatgcaagaactgctaataatcttaagagagaatc #### Gpam_ID11543_6 --> 1 - 0 Original Alignment gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGG-AACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG aatagtgcacccactctctggttcaccaagcctccctcctgtctgctcaggTTGACTGGCTGGGTATTACTAAAGCTTTTCAACTGCTTCTTCTGGCAACATACAGATCCACAAGGGCCAATTAGAGATGGTCA-AGCTGCCACCGAGgtgagatccatacttatatgcagtcccacaacttaaatgggatcaactgc Alignment from CESAR gCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGG-AACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG aatagtgcacccactctctggttcaccaagcctccctcctgtctgctcaggTTGACTGGCTGGGTATTACTAAAGCTTTTCAACTGCTTCTTCTGGCAACATACAGATCCACAAGGGCCAATTAGAGATGGTCA-AGCTGCCACCGAGgtgagatccatacttatatgcagtcccacaacttaaatgggatcaactgc Alignment from Spaln_aa2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGG-AACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG aatagtgcacccactctctggttcaccaagcctccctcctgtctgctcagGTTGACTGGCTGGGTATTACTAAAGCTTTTCAACTGCTTCTTCTGGcAACATACAGATCCACAAGGGCCAATTAGAGATGGTCAAGCT-GCCACCGAGgtgagatccatacttatatgcagtcccacaacttaaatgggatcaactgc Alignment from Spaln_nt2Genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGA-ACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG aatagtgcacccactctctggttcaccaagcctccctcctgtctgctcagGTTGACTGGCTGGGTATTACTAAAGCTTTTCAACTGCTTCTTCTGGCAACATACAGATCCACAAGGGCCAATTAGAGATGGTCAA-GCTGCCACCGAGgtgagatccatacttatatgcagtcccacaacttaaatgggatcaactgc Alignment from Pairagon GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGG-AACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG aatagtgcacccactctctggttcaccaagcctccctcctgtctgctcagGTTGACTGGCTGGGTATTACTAAAGCTTTTCAACTGCTTCTTCTGGCAACATACAGATCCACAAGGGCCAATTAGAGATGGTCAA-GCTGCCACCGAGgtgagatccatacttatatgcagtcccacaacttaaatgggatcaactgc Alignment from Exonerate_protein2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGG-AACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGA aatagtgcacccactctctggttcaccaagcctccctcctgtctgctcagGTTGACTGGCTGGGTATTACTAAAGCTTTTCAACTGCTTCTTCTGGCAACATACAGATCCACAAGGGCCAATTAGAGATGGTCAAGCTGCCACCGAGgtgagatccatacttatatgcagtcccacaacttaaatgggatcaactgc Alignment from Exonerate_coding2genome GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGG-AACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGA aatagtgcacccactctctggttcaccaagcctccctcctgtctgctcagGTTGACTGGCTGGGTATTACTAAAGCTTTTCAACTGCTTCTTCTGGCAACATACAGATCCACAAGGGCCAATTAGAGATGGTCAAGCTGCCACCGAGgtgagatccatacttatatgcagtcccacaacttaaatgggatcaactgc Alignment from GeneWise GCTGACTGGCTGGGTGTTACTAAAGCTCTTCAACAGCTTCTTCTGGAACATTCAGATTCACAAGGGTCAACTCGAGATGGTCAAGGCTGCAACTGAG aatagtgcacccactctctggttcaccaagcctccctcctgtctgctcagGTTGACTGGCTGGGTATTACTAAAGCTTTTCAACTGCTTCTTCTGGCAACATACAGATCCACAAGGGCCAATTAGAGATGGTCAAGCTGCCACCGAGgtgagatccatacttatatgcagtcccacaacttaaatgggatcaactgc #### Gpha2_ID1505_2 --> 2 - 0 Original Alignment ccTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGT---GAGTCTAGTGCTTTCCCTTCCCGGTACTCT-GTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattgtagtttgtcaatctatctctgtttcctccacagcaTTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAAAATGTCAGGCATCCCAATTATCACAGGGTTGTGTAGGATATTGTTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCCCATATTGGTGGTCAGTGGTTATTGGCACAATACTACGTCAT-ATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtggtgggcggtggcatataactttgtccaaagacacctcatcaat Alignment from CESAR ccTTCAATGTGACG---GTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGT---GAGTCTAGTGCTTTCCCTTCCCGGTACTCT-GTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattgtagtttgtcaatctatctctgtttcctccacagcaTTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAAAATGTCAGGCATCCCAATTATCACAGGGTTGTGTAGGATATTGTTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCCCATATTGGTGGTCAGTGGTTATTGGCACAATACTACGTCA-TATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtggtgggcggtggcatataactttgtccaaagacacctcatcaat Alignment from Spaln_aa2Genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACAC---TGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattgtagtttgtcaatctatctctgtttcctccacagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAAAATGTCAGGCATCCCAATTATCACAGGGTTGTGTAGGATATTGTTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCCCATATTGGTGGTCAGTGGTTATTGGCACAATACTACGTCATATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtggtgggcggtggcatataactttgtccaaagacacctcatcaat Alignment from Spaln_nt2Genome CCTTCAATGTGACGG---TGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGT---GAGTCTAGTGCTTTCCCTTCCCGGTACTCTG-TGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattgtagtttgtcaatctatctctgtttcctccacagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAAAATGTCAGGCATCCCAATTATCACAGGGTTGTGTAGGATATTGTTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCCCATATTGGTGGTCAGTGGTTATTGGCACAATACTACGTCAT-ATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtggtgggcggtggcatataactttgtccaaagacacctcatcaat Alignment from Pairagon CGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACA---CTGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCT-GTGCTGGTGGCCAGTGGCTATCGGCACAACA----------TCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattgtagtttgtcaatctatctctgtttcctccacagcattcaatattgcagCAGTGCATAGTGACCACCTTGGAAAATGTCAGGCATCCCAATTATCACAGGGTTGTGTAGGATATTGTTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCCCATATTGGTGGTCAGTGGTTATTGGCACAATACTACGTCATATCACCC-----------TGCTGCACTATCAGCAGTCTTAGGAAGgtgagtggtgggcggtggcatataactttgtccaaagacacctcatcaat Alignment from Exonerate_protein2genome CCTTCAATGTG---ACGGTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACAC---TGTGAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattgtagtttgtcaatctatctctgtttcctccacagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAAAATGTCAGGCATCCCAATTATCACAGGGTTGTGTAGGATATTGTTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCCCATATTGGTGGTCAGTGGTTATTGGCACAATACTACGTCATATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtggtgggcggtggcatataactttgtccaaagacacctcatcaat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCTTCAATGTGACG---GTGCGCAGTGATCGCCTCGGCACTTGCCAGGGCTCCCACGTGGCACAGGCCTGTGTAGGACACTGT---GAGTCTAGTGCTTTCCCTTCCCGGTACTCTGTGCTGGTGGCCAGTGGCTATCGGCACAACATCACCTCTTCCTCCCAGTGCTGCACCATCAGCAGCCTCAGAAAG tgataggtagtttattgtagtttgtcaatctatctctgtttcctccacagCATTCAATATTGCAGCAGTGCATAGTGACCACCTTGGAAAATGTCAGGCATCCCAATTATCACAGGGTTGTGTAGGATATTGTTGTGAGTCCAGTGCTTTTCCTTCCCAGTATTCCCATATTGGTGGTCAGTGGTTATTGGCACAATACTACGTCATATCACCCTGCTGCACTATCAGCAGTCTTAGGAAGgtgagtggtgggcggtggcatataactttgtccaaagacacctcatcaat #### Gpr137_ID1886_5 --> 0 - 0 Original Alignment GCAGATCTGGTGAATGACCTAGGGAAC-AAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcgcattaacaaatctgttgaccctgtgacctttagGCAGATCTGGTCAATGACCTAGTGAACCAAAGGATACCTTGTGTTTGGTCTAATTCTC---TTTTGGCAATTGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaaggaacatgtggccctcagtagagatgtgctgtccaacctaaaggcc Alignment from CESAR GCAGATCTGGTGAATGACCTAGGGAAC-AAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcgcattaacaaatctgttgaccctgtgacctttagGCAGATCTGGTCAATGACCTAGTGAACCAAAGGATACCTTGTGTTTGGTCTAATTCTCTTT---TGGCAATTGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaaggaacatgtggccctcagtagagatgtgctgtccaacctaaaggcc Alignment from Spaln_aa2Genome GCAGATCTGGTGAATGACCTAGGGAAC-AAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcgcattaacaaatctgttgaccctgtgacctttagGCAGATCTGGTCAATGACCTAGTGAACcAAAGGATACCTTGTGTTTGGTCTAATTCTCTTT---TGGCAATTGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaaggaacatgtggccctcagtagagatgtgctgtccaacctaaaggcc Alignment from Spaln_nt2Genome GCAGATCTGGTGAATGACCTAGGGAACA-AAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcgcattaacaaatctgttgaccctgtgacctttagGCAGATCTGGTCAATGACCTAGTGAACCAAAGGATACCTTGTGTTTGGTCTAATTCTCT---TTTGGCAATTGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaaggaacatgtggccctcagtagagatgtgctgtccaacctaaaggcc Alignment from Pairagon GCAGATCTGGTGAATGACCTAGGGAA-CAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcgcattaacaaatctgttgaccctgtgacctttagGCAGATCTGGTCAATGACCTAGTGAACCAAAGGATACCTTGTGTTTGGTCTAATTCTCT---TTTGGCAATTGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaaggaacatgtggccctcagtagagatgtgctgtccaacctaaaggcc Alignment from Exonerate_protein2genome GCAGATCTGGTGAATGACCTAGGGAAC-AAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcgcattaacaaatctgttgaccctgtgacctttagGCAGATCTGGTCAATGACCTAGTGAACCAAAGGATACCTTGTGTTTGGTCTAATTCTCTTT---TGGCAATTGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaaggaacatgtggccctcagtagagatgtgctgtccaacctaaaggcc Alignment from Exonerate_coding2genome GCAGATCTGGTGAATGACCTAGGGAAC-AAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcgcattaacaaatctgttgaccctgtgacctttagGCAGATCTGGTCAATGACCTAGTGAACCAAAGGATACCTTGTGTTTGGTCTAATTCTCTTT---TGGCAATTGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaaggaacatgtggccctcagtagagatgtgctgtccaacctaaaggcc Alignment from GeneWise GCAGATCTGGTGAATGACCTA-GGGAACAAAGGCTACCTGGTGTTTGGTCTCATCCTCTTCGTTTGGGAACTGCTGCCCACCACATTGCTGGTGGGCTTCTTCCGGGTACACCGGCCCCCACAGGATCTG gggctaacagggttgcgcattaacaaatctgttgaccctgtgacctttagGCAGATCTGGTCAATGACCTAGTGAACCAAAGGATACCTTGTGTTTGGTCTAATTCTCTTT---TGGCAATTGCTACCTACCACGTGGCTGGTGGGCTTCTTCCGCGTACACCGGCCCCCACAGGATCTGgtaaggaacatgtggccctcagtagagatgtgctgtccaacctaaaggcc #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCC-ATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tgtaaacgtacctagaatgctgggaccaagtgaaaatgtatcgtttgcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGG---CCCCATGATTTTGATTTATGCCAGCAGGGCCTGCTACAACCTGG-AGCCTTGGCCTTGGCACCTCAGAGTCGGTTAGATGCTTTTGATTATGACTGGTATAATGTCTCAGACCAAgtaatgtatattgcattctgggctaacagggttgcgcattaacaaataat Alignment from CESAR GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tgtaaacgtacctagaatgctgggaccaagtgaaaatgtatcgtttgcagGGAACAAGTGTATGTCAGGTAGCAGCAATAG--GGCCCCATGATTTTGATTTATGCCAGCAGGGCCTGCTACAACCTG-GAGCCTTGGCCTTGGCACCTCAGAGTCGGTTAGATGCTTTTGATTATGACTGGTATAATGTCTCAGACCAAgtaatgtatattgcattctgggctaacagggttgcgcattaacaaatctg Alignment from Spaln_aa2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tgtaaacgtacctagaatgctgggaccaagtgaaaatgtatcgtttgcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGGC--CCCATGATTTTGATTTATGCCAGCAGGGCCTGCTACAACCTGGA-GCCTTGGCCTTGGCACCTCAGAGTCGGTTAGATGCTTTTGATTATGACTGGTATAATGTCTCAGACCAAgtaatgtatattgcattctgggctaacagggttgcgcattaacaaataat Alignment from Spaln_nt2Genome GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tgtaaacgtacctagaatgctgggaccaagtgaaaatgtatcgtttgcagGGAACAAGTGTATGTCAGGTAGCAGCAATA--GGGCCCCATGATTTTGATTTATGCCAGCAGGGCCTGCTACAACCTGG-AGCCTTGGCCTTGGCACCTCAGAGTCGGTTAGATGCTTTTGATTATGACTGGTATAATGTCTCAGACCAAgtaatgtatattgcattctgggctaacagggttgcgcattaacaaataat Alignment from Pairagon GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tgtaaacgtacctagaatgctgggaccaagtgaaaatgtatcgtttgcagGGAACAAGTGTATGTCAGGTAGCAGCAATA--GGGCCCCATGATTTTGATTTATGCCAGCAGGGCCTGCTACAACCTGG-AGCCTTGGCCTTGGCACCTCAGAGTCGGTTAGATGCTTTTGATTATGACTGGTATAATGTCTCAGACCAAgtaatgtatattgcattctgggctaacagggttgcgcattaacaaataat Alignment from Exonerate_protein2genome GGGACCAGCGTGTGTCAGGCAGCTGCTATA-GGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTG--GCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tgtaaacgtacctagaatgctgggaccaagtgaaaatgtatcgtttgcagGGAACAAGTGTATGTCAGGTAGCAGCAATAG---GGCCCCATGATTTTGATTTATGCCAGCAGGGCCTGCTACAACCTGGA---GCCTTGGCCTTGGCACCTCAGAGTCGGTTAGATGCTTTTGATTATGACTGGTATAATGTCTCAGACCAAgtaatgtatattgcattctgggctaacagggttgcgcattaacaaataat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG tgtaaacgtacctagaatgctgggaccaagtgaaaatgtatcgtttgcagGGAACAAGTGTATGTCAGGTAGCAGCAATAGGGC--CCCATGATTTTGATTTATGCCAGCAGGGCCTGCTACAACCTGGA-GCCTTGGCCTTGGCACCTCAGAGTCGGTTAGATGCTTTTGATTATGACTGGTATAATGTCTCAGACCAAgtaatgtatattgcattctgggctaacagggttgcgcattaacaaataat #### Gucy2g_ID11571_20 --> 2 - 0 Original Alignment ctCTCCGGATTCACGTTTCCCAG-AGCACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGA---GGCACCATT------TCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagctCTCCGTATTCATATTTCACACCAGTACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCAC-GCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from CESAR ctCTCCGGATTCACGTTTCCCAG-AGCACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGCACC---------ATTTCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagctCTCCGTATTCATATTTCACACCAGTACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCA-CGCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Spaln_aa2Genome CTCTCCGGATTCACGTTTCCCAGAGCACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGC---------ACCATTTCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagCTCTCCGTATTCATATTTCACACCAGTACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCACGCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Spaln_nt2Genome CTCTCCGGATTCACGTTTCCCAG-AGCACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGCACCATT---------TCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagCTCTCCGTATTCATATTTCACACCAGTACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCAC-GCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Pairagon CTCTCCGGATTCACGTTTCCCA-GAGCACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGCACCATT---------TCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagCTCTCCGTATTCATATTTCACACCAGTACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCAC-GCAAGAGAGAGGCAGCACTGTTTCTGTATCTGTGAAAgtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Exonerate_protein2genome ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagctctccgtattcatatttcacaccagtacttctggtgctcttctggcagcaggggggtacccacgcaagagagaggcagcactgtttctgtatctgtgaaagtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCTCCGGATTCACGTTTCCCAGAGCACCGCAGGAGCTCTTCTAGCAGCAGGGGGGTACCATCTGCAAAAGAGAGGC---ACCATTTCAGTCAAG ggattgaaaatattgggttgatacaacgccttgctttacttcccgttcagCTCTCCGTATTCATATTTCACACCAGTACTTCTGGTGCTCTTCTGGCAGCAGGGGGGTACCCACGCAAGAGAGAGGCAGCACTGTTTCTGTATCTgtgaaagtaagactgggcctgtttgtgctcagcattaaaaaaatctaaaccttgaa #### Hectd2_ID7162_18 --> 2 - 0 Original Alignment agTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATCTATAAGCAATTT-GCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttctgctgtgtgtttgtctcttcagagTACATTCAACTCTATACTGACTTCCTGTTAAACAAGTCTATTTATAAGCAATTTCGCTGCATTCTACTGTGGCTTTCAGAGTGTGTGTG-TTCCAATGCATTGATGgtaagtttagatttcaattgaatgggtccaataattgataactaatccca Alignment from CESAR agTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATCTATAAGCAATTT-GCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttctgctgtgtgtttgtctcttcagagTACATTCAACTCTATACTGACTTCCTGTTAAACAAGTCTATTTATAAGCAATTTCGCTGCATTCTACTGTGGCTTTCAGAGTGTGTGTG-TTCCAATGCATTGATGgtaagtttagatttcaattgaatgggtccaataattgataactaatccca Alignment from Spaln_aa2Genome AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATCTATAAGCAATTT-GCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttctgctgtgtgtttgtctcttcagAGTACATTCAACTCTATACTGACTTCCTGTTAAACAAGTCTATTTATAAGCAATTTcGCTGCATTCTACTGTGGCTTTCAGAGTGTGTGTGT-TCCAATGCATTGATGgtaagtttagatttcaattgaatgggtccaataattgataactaatccca Alignment from Spaln_nt2Genome AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATCTATAAGCAATTT-GCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttctgctgtgtgtttgtctcttcagAGTACATTCAACTCTATACTGACTTCCTGTTAAACAAGTCTATTTATAAGCAATTTCGCTGCATTCTACTGTGGCTTTCAGAGTGTGTGTG-TTCCAATGCATTGATGgtaagtttagatttcaattgaatgggtccaataattgataactaatccca Alignment from Pairagon AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATCTATAAGCAATTT-GCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttctgctgtgtgtttgtctcttcagAGTACATTCAACTCTATACTGACTTCCTGTTAAACAAGTCTATTTATAAGCAATTTCGCTGCATTCTACTGTGGCTTTCAGAGTGTGTGTG-TTCCAATGCATTGATGgtaagtttagatttcaattgaatgggtccaataattgataactaatccca Alignment from Exonerate_protein2genome AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATCTATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttctgctgtgtgtttgtctcttcagAGTACATTCAACTCTATACTGACTTCCTGTTAAACAAGTCTATTTATAAGCAATTTCGCTGCATTCTACTGTGGCTTTCAGAGTGTGTGTGTTCCAATGCATTGATGgtaagtttagatttcaattgaatgggtccaataattgataactaatccca Alignment from Exonerate_coding2genome AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATCTATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttctgctgtgtgtttgtctcttcagAGTACATTCAACTCTATACTGACTTCCTGTTAAACAAGTCTATTTATAAGCAATTTCGCTGCATTCTACTGTGGCTTTCAGAGTGTGTGTGTTCCAATGCATTGATGgtaagtttagatttcaattgaatgggtccaataattgataactaatccca Alignment from GeneWise AGTATGTACAGCTTTATACTGACTTCCTGTTGAACAAATCTATCTATAAGCAATTTGCTGCATTTTACTGTGGATTTCATAGTGTGTGTGCTTCAAATGCCCTAATG tgttctccttttagacccaatgtccttctgctgtgtgtttgtctcttcagAGTACATTCAACTCTATACTGACTTCCTGTTAAACAAGTCTATTTATAAGCAATTTCGCTGCATTCTACTGTGGCTTTCAGAGTGTGTGTGTTCCAATGCATTGATGgtaagtttagatttcaattgaatgggtccaataattgataactaatccca #### Hells_ID7707_14 --> 1 - 0 Original Alignment gACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAA-GTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aggtcagataagaacctataaactaggactttcgttcttttgtttttcagaACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAACGTGAATTTGAAGCTGCGCAATATCATGATGT-ACTCCAGAGGTGCTATAACCACCCTTATATGATTGAATATCCCATTGACCCAGTGACACAGGAGTTTAAAgtaaatgtgacaaatgaaccaaccagattacagaatgcaagattaagcta Alignment from CESAR gACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAA-GTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG gagtcagataagaacctataaactaggactttcgttcttttgtttttcagaACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAACGTGAATTTGAAGCTGCGCAATATCATGATG-TACTCCAGAGGTGCTATAACCACCCTTATATGATTGAATATCCCATTGACCCAGTGACACAGGAGTTTAAAgtaaatgtgacaaatgaaccaaccagattacagaatgcaagattaagcta Alignment from Spaln_aa2Genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aggtcagataagaacctataaactaggactttcgttcttttgtttttcagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAACGTGAATTTGAAGCTGCGCAATATCATGATGTACTCCAGAGGTGCTATAACCACCCTTATATGATTGAATATCCCATTGACCCAGTGACACAGGAGTTTAAAgtaaatgtgacaaatgaaccaaccagattacagaatgcaagattaagcta Alignment from Spaln_nt2Genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAA-GTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aggtcagataagaacctataaactaggactttcgttcttttgtttttcagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAACGTGAATTTGAAGCTGCGCAATATCATGATG-TACTCCAGAGGTGCTATAACCACCCTTATATGATTGAATATCCCATTGACCCAGTGACACAGGAGTTTAAAgtaaatgtgacaaatgaaccaaccagattacagaatgcaagattaagcta Alignment from Pairagon GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAA-GTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aggtcagataagaacctataaactaggactttcgttcttttgtttttcagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAACGTGAATTTGAAGCTGCGCAATATCATGATG-TACTCCAGAGGTGCTATAACCACCCTTATATGATTGAATATCCCATTGACCCAGTGACACAGGAGTTTAAAgtaaatgtgacaaatgaaccaaccagattacagaatgcaagattaagcta Alignment from Exonerate_protein2genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aggtcagataagaacctataaactaggactttcgttcttttgtttttcagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAACGTGAATTTGAAGCTGCGCAATATCATGATGTACTCCAGAGGTGCTATAACCACCCTTATATGATTGAATATCCCATTGACCCAGTGACACAGGAGTTTAAAgtaaatgtgacaaatgaaccaaccagattacagaatgcaagattaagcta Alignment from Exonerate_coding2genome GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aggtcagataagaacctataaactaggactttcgttcttttgtttttcagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAACGTGAATTTGAAGCTGCGCAATATCATGATGTACTCCAGAGGTGCTATAACCACCCTTATATGATTGAATATCCCATTGACCCAGTGACACAGGAGTTTAAAgtaaatgtgacaaatgaaccaaccagattacagaatgcaagattaagcta Alignment from GeneWise GACTGTTGTGGAAGGTAATATCCCTATAGAATCTGAAGTTAATCTGAAGCTGCGGAATATAATGATGCTACTTCGAAAGTGCTGTAATCACCCATATATGATTGAATATCCTATTGACCCTGTCACACAAGAATTTAAG aggtcagataagaacctataaactaggactttcgttcttttgtttttcagAACAGCTGTGCAAGGTAATATTCCTATAGAATCAGAACGTGAATTTGAAGCTGCGCAATATCATGATGTACTCCAGAGGTGCTATAACCACCCTTATATGATTGAATATCCCATTGACCCAGTGACACAGGAGTTTAAAgtaaatgtgacaaatgaaccaaccagattacagaatgcaagattaagcta #### Hells_ID7708_15 --> 0 - 0 Original Alignment ATTGATGAAGAG-TTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGCTTTGTAACAAACTCTGGGAGGTTCCTAATTTCAGATCGAA-GCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from CESAR ATTGATGAAGAGTTG-GTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGCTTTGTAACAAACTCTGGGAGGTTCCTAATTTCAGATCGA-AGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Spaln_aa2Genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGCTTTGTAACAAACTCTGGGAGGTTCCTAATTTCAGATCGAAGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Spaln_nt2Genome ATTGATGAAGAG-TTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGCTTTGTAACAAACTCTGGGAGGTTCCTAATTTCAGATCGAA-GCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Pairagon ATTGATGAAGAG-TTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGCTTTGTAACAAACTCTGGGAGGTTCCTAATTTCAGATCGAA-GCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Exonerate_protein2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGCTTTGTAACAAACTCTGGGAGGTTCCTAATTTCAGATCGAAGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from Exonerate_coding2genome ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGCTTTGTAACAAACTCTGGGAGGTTCCTAATTTCAGATCGAAGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc Alignment from GeneWise ATTGATGAAGAGTTGGTAACAAATTCTGGGAAGTTCTTAATTTTGGATCGAATGCTGCCCGAACTTAAAAAAAGAGGTCACAAG gttacattcaaatctacaagctgtcattgacttgccttctttcttattagAATGATGAAGAGCTTTGTAACAAACTCTGGGAGGTTCCTAATTTCAGATCGAAGCTGCCAGAACTCAAGAAAAGAGGTCATAAGgtgagttcaactaaaatttatgctgtctgtccagtgtatttggcatcagc #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTC-TTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaaggtACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGCTTCTCAGAAAAATTCCCCACCCTTTGGTCCG-AGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from CESAR atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTC-TTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaaggtACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGCTTCTCAGAAAAATTCCCCACCCTTTGGTCCG-AGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Spaln_aa2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGCTTCTCAGAAAAATTCCCCACCCTTTGGTCCGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Spaln_nt2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCT-CTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGCTTCTCAGAAAAATTCCCCACCCTTTGGTC-CGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Pairagon ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCT-CTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGCTTCTCAGAAAAATTCCCCACCCTTTGGTCC-GAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Exonerate_protein2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGCTTCTCAGAAAAATTCCCCACCCTTTGGTCCGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from Exonerate_coding2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGCTTCTCAGAAAAATTCCCCACCCTTTGGTCCGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact Alignment from GeneWise ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gcttcagcactggatgtcacgctaaatcatgtgtttgttttctacttaagGTACATCCGATCTGCATTTTCAAATTAGCAAAGACCGGTATGGAGGCCAACCACTGCTTCTCAGAAAAATTCCCCACCCTTTGGTCCGAGCAAGAAGTACCTATAGTGTAACAGAGGGTAAAGTCTGCTTTGAAGCTCAGgtgagatgccacctttaaactaaatatattttaccactccaaactttact #### Hnrnpul2_ID2408_12 --> 2 - 0 Original Alignment tgGGCGGGCAGCGCCGAGGCTAC-GACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagtgGGCGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGG-GGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from CESAR tgGGCGGGCAGCGCCGAGGCTAC-GACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagtgGGCGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGG-GGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Spaln_aa2Genome TGGGCGGGCAGCGCCGAGGCTAC-GACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATcGACAACCAGGCCTATGGGCAGCAGTACTGGGGGAG-CCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Spaln_nt2Genome TGGGCGGGCAGCGCCGAGGCTA-CGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGG-AGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Pairagon TGGGCGGGCAGCGCCGAGGCTA-CGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGG-AGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Exonerate_protein2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from Exonerate_coding2genome TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt Alignment from GeneWise TGGGCGGGCAGCGCCGAGGCTACGACAACCGGGCCTACGGGCAGCAGTACTGGGGGCAGTCTGGAAACAGAGGG tcggctgatttctttgtgggtttgtaacaatttcatttcatgtttttcagTGGGCGGACAGCACCGAGGCTATCGACAACCAGGCCTATGGGCAGCAGTACTGGGGGAGCCTGGAACCAGAGGAgtaagtgcacatcctacataactcatccttccacctgttcctctaactgt #### Hoga1_ID8381_4 --> 0 - 0 Original Alignment GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTG-CCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from CESAR GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTG-CCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Spaln_aa2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGcGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGC-CTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Spaln_nt2Genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAACATTAT-TGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Pairagon GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATT-GCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Exonerate_protein2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGCCTGAAGGTCAGTGgtggaggtgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from Exonerate_coding2genome GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTG-GATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGCCTGAAGGTCAGTGgtggaggtgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca Alignment from GeneWise GTTGCTGACGTTTCTCCAATCCCTGTGGTGTTGTACAGTGTCCCAGCCAATACGGGGCTAGAGCTACCTGTGGATGCCGTGGTTACATTGTCTCAGCACCCAAATATCATCGGCTTGAAGGACAGTGGTGGAGAT taaacaggggttgacatggtaaatgcctcctcctctgactttgcttccagATTGCTGATGTTCCCCCAATCCCCGTAGTGTTATACAGTGTCCCAGCCAATACAGGACTAGAGCTACCTGTGCGATGCTGTGGTCACATTGTCTCAACACCCAAACATTATTGCCTGAAGGTCAGTGGTGGAGGTgtactgtgctatagggtccgatttgctcaagcaacctcaacctcaggtca #### Hoga1_ID8382_5 --> 0 - 1 Original Alignment GTGACCAGGATTGGACTGATAGTTCAC---AAGACC-AGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg cagacagatgtactggggagacaatcatttaactttgatttgctttctagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTTCTGGCGGGGTCTGTTG-CTCCCTCCTAGCTAGCTATTCTGTAggtaccgttgccatcagttctaaaccaccatccacaatggcgccctgtcac Alignment from CESAR GTGACCAGGATTGGACTGATAGTT---CACAAGACC-AGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGg cagacagatgtactggggagacaatcatttaactttgatttgctttctagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTTCTGGCGGGGTCTGTTGCT-CCCTCCTAGCTAGCTATTCTGTAggtaccgttgccatcagttctaaaccaccatccacaatggcgccctgtcac Alignment from Spaln_aa2Genome GTGACCAGGATTGGACTGATAGTTCACAAGACC----AGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG cagacagatgtactggggagacaatcatttaactttgatttgctttctagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTcAGCAAGCAGGATTTTCAGGTTCTGGCGGGGTCTGTTGCTCC-CTCCTAGCTAGCTATTCTGTAGgtaccgttgccatcagttctaaaccaccatccacaatggcgccctgtcac Alignment from Spaln_nt2Genome GTGACCAGGATTGGACTGATAGTTCA---CAAGAC-CAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG cagacagatgtactggggagacaatcatttaactttgatttgctttctagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTTCTGGCGGGGTCTG-TTGCTCCCTCCTAGCTAGCTATTCTGTAGgtaccgttgccatcagttctaaaccaccatccacaatggcgccctgtcac Alignment from Pairagon GTGACCAGGATTGGACTGATAGT---TCACAAGAC-CAGCAAGCAGGATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG cagacagatgtactggggagacaatcatttaactttgatttgctttctagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTTCTGGCGGGGTCTGTT-GCTCCCTCCTAGCTAGCTATTCTGTAGgtaccgttgccatcagttctaaaccaccatccacaatggcgccctgtcac Alignment from Exonerate_protein2genome GTGACCAGGATTGGACTGATAGTTCACAAGACCAGCAAGCAG---GATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG cagacagatgtactggggagacaatcatttaactttgatttgctttctagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTTCTGGCGGGGTCTGTTGCTCCCTCCTAGCTAGCTATTCTGTAGgtaccgttgccatcagttctaaaccaccatccacaatggcgccctgtcac Alignment from Exonerate_coding2genome GTGACCAGGATTGGACTGATAGTTCACAAGACCAGCAAGCAG---GATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGGGAGCTGTT cagacagatgtactggggagacaatcatttaactttgatttgctttctagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTTCTGGCGGGGTCTGTTGCTCCCTCCTAGCTAGCTATTCTGTAGGTACCGTTgccatcagttctaaaccaccatccacaatggcgccctgtcac Alignment from GeneWise GTGACCAGGATTGGACTGATAGTTCACAAGACCAGCAAGCAG---GATTTCCAGGTGTTGGCTGGGTCAGCTGGCTTCCTCCTGGCCAGCTATGCTGTGG cagacagatgtactggggagacaatcatttaactttgatttgctttctagGTGACCAAGATTGGACTGATAGTTCATCACAAGTCTCAGCAAGCAGGATTTTCAGGTTCTGGCGGGGTCTGTTGCTCCCTCCTAGCTAGCTATTCTGTAGgtaccgttgccatcagttctaaaccaccatccacaatggcgccctgtcac #### Hps1_ID8615_13 --> 1 - 2 Original Alignment gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa gccaatatattttccatggagtacatcttctgtctttgcactcttcgtaggTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAG-ACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGaagtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from CESAR gCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGaa gccaatatattttccatggagtacatcttctgtctttgcactcttcgtaggTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACA-GACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGaagtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Spaln_aa2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcactcttcgtagGTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Spaln_nt2Genome GCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTG-TCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcactcttcgtagGTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAG-ACCCAGCAGAGGAGGACC------ACCCGAGCATATACAGGAC---TCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Pairagon GCAAAGCCTTCTCTAGAAGTGAGCCAGGATCGTCCTGGGAGCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGT-GTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAG-------------CCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcactcttcgtag----------------------------------------GTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAG-ACCCAGCAGAGGAGGACCAC----------------------CCGAGCATATACAGGACTCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Exonerate_protein2genome GTCCTGGGAGCTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcacTCTTCGTAGGTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from Exonerate_coding2genome gccaatatattttccatggagtacatcttctgtctttgcactcttcgtaggtttctccaagtctgtgggaagttaaagcgacagttgtgtcataatgtaccagctcagctacctggtcacagacccagcagaggaggaccacccgagcatatacaggactcccaaaaaatgaagtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg Alignment from GeneWise -CTGCTCCAGGTCTGTGGAAAGCTGAAGCGACAGCTGTGTGTCATCTACCGGCTTAGCTTCCTGGTCACTGCACCCAGCAGAGGAGGACCGCACCTGCCCCAGCACCTGCAGGACCGAGCCCAGAAACTCATGAA gccaatatattttccatggagtacatcttctgtctttgcactcttcgtagGTTTCTCCAAGTCTGTGGGAAGTTAAAGCGACAGTTGTGTCATAATGTACCAGCTCAGCTACCTGGTCACAGACCCAGCAGAGGAGGACCA------CCCGAGCATATACAGGAC---TCCCAAAAA---ATGAAgtgagtgggccatgccccaaagcttgtcaagctaggtcattacgtcggtg #### Hps1_ID8620_8 --> 0 - 1 Original Alignment GACACAGACAGCATC-TCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAg tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGAT---AATCTCC---CCGGAAGAGTATTTCACTCCCTCTC-TCCCCCAAGT------GGTCCAggtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from CESAR GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAG------AGTTCAg tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGATA--ATCTCC---CCGGAAGAGTATTTCACTCCCTCTCTCCCCCAAGTGGTCCAGGTGAGAGGAGTGggtgtggcaccttactatgtcacttagttaagtacaga Alignment from Spaln_aa2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTAC---TTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGATAATCTCCCCGGAAGAGTATTTCACTCCCTCTCTCCCCCAAGTGGTCCAGGTGAGAGGAGTGGGTgtggcaccttactatgtcacttagttaagtacaga Alignment from Spaln_nt2Genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGATA--ATCTC---CCCGGAAGAGTATTTCACTCCCTCT-CTCCCCCAAGTG------GTCCAGgtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from Pairagon GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAG tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGATA--ATCTC---CCCGGAAGAGTATTTCACTCCCTCT-CTCCCCCAAGTG------GTCCAGgtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from Exonerate_protein2genome GACACAGACAGCATCTCCCTCCCTGAAGAGTACTTCACTCCTGCTCCTTCCCCAGGCGATCAGAGTTCAGGTA tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttagGATACTGATAATCTCCCCGGAAGAGTATTTCACTCCCTCTCTCCCCCAAGTGGTCCAGGTGAGAGGAGTGGGTgtggcaccttactatgtcacttagttaagtacaga Alignment from Exonerate_coding2genome tggtaagcaaactacggtgtattctctgcacatgcagtgtccttccttaggatactgataatctccccggaagagtatttcactccctctctcccccaagtggtccaggtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga Alignment from GeneWise TC------TCCCTCCC TGGTAAGCAAACTACGgtgtattctctgcacatgcagtgtccttccttaggatactgataatctccccggaagagtatttcactccctctctcccccaagtggtccaggtgagaggagtgggtgtggcaccttactatgtcacttagttaagtacaga #### Hps1_ID8621_7 --> 0 - 0 Original Alignment AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAG-CAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagAGGCATCCAAAGAGA---------------------CCAAACCAGGAGCCAGAGTACCTCAGTACCTG-CAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctgtccctttcc Alignment from CESAR AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagAGGCATCCAAAG--AGACCAAACC------------------AGGAGCCAGAGTACCTCAGTACCT-GCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctgcacatgcag Alignment from Spaln_aa2Genome AGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGG tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagAGGCATCCAAAGAGACCAAACCAGGAGCCAGAGTACCTCAGTACCTGCAGGGGTTGTAAGGAAACAGTGAGGCCTAAGCTGgtaagcaaactacggtgtattctctgtccctttcc Alignment from Spaln_nt2Genome A--CATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGACA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagAGGCATCCAAAGAGACCAAACCAGGAGCCAGAGTACCTCAGT-ACCTGCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctgtccctttcc Alignment from Pairagon CCCTCAGAGGAGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCA-----------------AGGAGCCAGAGCACCTCA------------------------------------------------------------------GTCCCCACCA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatag--------------------------------------------AGGCATCCAAAGAGACCAAACCAGGAGCCAGAGTACCTCAGTACCTGCAGGGGTTGTAAGGAAACAGTGAGGCCTAAGCTGGTAAGCAAACTACGGTGTATTCTCTGTCCC----- Alignment from Exonerate_protein2genome CAAAACATCCCAGTGCAGCAGGCAAGGAGCCAGAGCACCTCAGTCCCCACCAGGAGTTCCAGGGAGAC tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatAGAGGCATCCAAAGAGACCAAACCAGGAGCCAGAGTACCTCAGTACCTGCAGGGGTTGTAAGGAAACAgtgaggcctaagctggtaagcaaactacggtgtattctctgtccctttcc Alignment from Exonerate_coding2genome tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagaggcatccaaagagaccaaaccaggagccagagtacctcagtacctgcaggggttgtaaggaaacagtgaggcctaagctggtaagcaaactacggtgtattctctgtccctttcc Alignment from GeneWise --AGACCCAAGAGCAGCCAAAACATCCCAGTGCAGCAGGCAAGGAGCCA tatgcgatgcatttctgcttgctcatgacaatctgctctcatttttatagaggcatccaaagagaccaaaccaggagccagagtacctcagtacctgcaggggttgtaaggaaacagTGAGGCCTAAGCTG---------------GTAAGCAAACTACGGTGTAT #### Hps1_ID8622_6 --> 1 - 0 Original Alignment cCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTC-CAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGC---CCTCAG ccaccctaacaacccaagctcctattctgttctttctttttctttttcagcCAAGGTGCAAGCACTCTATGTCCAGAAGATTTTCTT---------CTCCTAGTTCATGACCCACCAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAG-TGGTCCCAGCAGTCCACAGgtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from CESAR cCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGAC-CTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAG--GATAGCGACAGCCCTCAG ccaccctaacaacccaagctcctattctgttctttctttttctttttcagcCAAGGTGCAAGCACTCTATGTCCAGAAGATTTTCTT---------CTCCTAGTTCATGACCCACCAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAGTGGTCCCAGCAGTCCACAGgtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from Spaln_aa2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCC---TCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAGAGGAGACCCAAGAGCAGCCAA ccaccctaacaacccaagctcctattctgttctttctttttctttttcagCCAAGGTGCAAGCACTCTATGTCCAGAAGATTTTCTT---------CTCCTAGTTCATGACCCACCAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAGTGGTCCCAGCAGTCCACAGGTAAATGCAAAGCCCAGAATTgtgattgactacctatcagaaggagctgg Alignment from Spaln_nt2Genome CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCT-CCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGA--TAGCGACAGCCCTCAGAGGAGACCCAAGAGCAGCCAA ccaccctaacaacccaagctcctattctgttctttctttttctttttcagCCAAGGTGCAAGCACTCTATGTCCAGAAGATTTTC---------TTCTCCTAGTTCATGACCCACCAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAGCAAGAAGTGGTCCCAGCAGTCCACAGGTAAATGCAAAGCCCAGAATTgtgattgactacctatcagaaggagctgg Alignment from Pairagon CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGA---------------------------------CCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGA ccaccctaacaacccaagctcctattctgttctttctttttctttttcagCCAAGGTGCAAGCACTCT-----------------------------------------ATGTCCAGAAGATTTTCTTCTCCTAGTTCATGACCCACCAGCCTTCACCAGCCATGACAGAGGAAGAGGGGGAgcaagaagtggtcccagcagtccacaggtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from Exonerate_protein2genome ccaccctaacaacccaagctcctattctgttctttctttttctttttcagccaaggtgcaagcactctatgtccagaagattttcttctcctagttcatgacccaccagccttcaccagccatgacagaggaagagggggagcaagaagtggtcccagcagtccacaggtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from Exonerate_coding2genome ccaccctaacaacccaagctcctattctgttctttctttttctttttcagccaaggtgcaagcactctatgtccagaagattttcttctcctagttcatgacccaccagccttcaccagccatgacagaggaagagggggagcaagaagtggtcccagcagtccacaggtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg Alignment from GeneWise ccaccctaacaacccaagctcctattctgttctttctttttctttttcagccaaggtgcaagcactctatgtccagaagattttcttctcctagttcatgacccaccagccttcaccagccatgacagaggaagagggggagcaagaagtggtcccagcagtccacaggtaaatgcaaagcccagaattgtgattgactacctatcagaaggagctgg #### Il33_ID6361_4 --> 2 - 1 Original Alignment gaACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTT-AGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAg ctagttgggctgatagacacataatatgtcactcactgccaggcctacaggaACTGCGCTTTTAACTCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAA-TATTGATGATTCTGGTAAAGACCAGGAACATggtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from CESAR gaACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTT-AGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAg ctagttgggctgatagacacataatatgtcactcactgccaggcctacaggaACTGCGCTTTTAACTCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGTTATGTG-CTAATATTGATGATTCTGGTAAAGACCAGGAACATggtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Spaln_aa2Genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Spaln_nt2Genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTT-AGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGTTATGTGCT-AATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Pairagon GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTG-TTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGTTATGTGCT-AATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Exonerate_protein2genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from Exonerate_coding2genome GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg Alignment from GeneWise GAACTTCACTTTTAACACAGTCTCCTGCCTCCCTGAGTACATACAATGACCAATCTGTTAGTTTTGTTTTGGAGAATGGATGTTATGTGATCAATGTTGACGACTCTGGAAAAGACCAAGAGCAAG ctagttgggctgatagacacataatatgtcactcactgccaggcctacagGAACTGCGCTTTTAACTCAAACACCAGCTTCCCTAAGTGCATACAACGACCAGTCTGAGCAGTTTTGTGTTAGAAAATGGATGTTATGTGCTAATATTGATGATTCTGGTAAAGACCAGGAACATGgtaatgcttaaccatgccacaagtccttggggtaatgcttaatgagaacg #### Incenp_ID2604_15 --> 0 - 0 Original Alignment GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAG-GAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG caacgaggtaagtggtgctgtgggggagtgttctgtccactccaccccagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGTCACCACGAGCAACAGGCATGGAAAGCAAAGGAGGTCGCAG-AGCCAGAAGGGTGCTGAACATGATGGTGGATGTAAGAgtgattgctgagagttaggacccaaatcagacatatgcttactgtgaatg Alignment from CESAR GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTG-CAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG caacgaggtaagtggtgctgtgggggagtgttctgtccactccaccccagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGTCACCACGAGCAACAGGCATGGAAAGCAAAGGAGGTCGCA-GAGCCAGAAGGGTGCTGAACATGATGGTGGATGTAAGAgtgattgctgagagttaggacccaaatcagacatatgcttactgtgaatg Alignment from Spaln_aa2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG caacgaggtaagtggtgctgtgggggagtgttctgtccactccaccccagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGTCACCACGAGCAACAGGCATGGAAAGCAAAGGAGGTCGCAGAGCCAGAAGGGTGCTGAACATGATGGTGGATGTAAGAgtgattgctgagagttaggacccaaatcagacatatgcttactgtgaatg Alignment from Spaln_nt2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAA-CTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG caacgaggtaagtggtgctgtgggggagtgttctgtccactccaccccagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGTCACCACGAGCAACAGGCATGGAAAGCAAAGGAGGTCGCAG-AGCCAGAAGGGTGCTGAACATGATGGTGGATGTAAGAgtgattgctgagagttaggacccaaatcagacatatgcttactgtgaatg Alignment from Pairagon GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAG-------------CAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGAT caacgaggtaagtggtgctgtgggggagtgttctgtccactccaccccagGAGGAGAAGCAGCACCTGGCTAAGC------------AGGAGTCACCACGAGCAACAGGCATGGAAAGCAAAGGAGGTCGCAG-AGCCAGAAGGGTGCTGAACATGATGGTGGATgtaagagtgattgctgagagttaggacccaaatcagacatatgcttactgtgaatg Alignment from Exonerate_protein2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG caacgaggtaagtggtgctgtgggggagtgttctgtccactccaccccagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGTCACCACGAGCAACAGGCATGGAAAGCAAAGGAGGTCGCAGAGCCAGAAGGGTGCTGAACATGATGGTGGATGTAAGAgtgattgctgagagttaggacccaaatcagacatatgcttactgtgaatg Alignment from Exonerate_coding2genome caacgaggtaagtggtgctgtgggggagtgttctgtccactccaccccaggaggagaagcagcacctggctaagcaggagtcaccacgagcaacaggcatggaaagcaaaggaggtcgcagagccagaagggtgctgaacatgatggtggatgtaagagtgattgctgagagttaggacccaaatcagacatatgcttactgtgaatg Alignment from GeneWise GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG caacgaggtaagtggtgctgtgggggagtgttctgtccactccaccccagGAGGAGAAGCAGCACCTGGCTAAGCAGGAGTCACCACGAGCAACAGGCATGGAAAGCAAAGGAGGTCGCAGAGCCAGAAGGGTGCTGAACATGATGGTGGATGTAAGAgtgattgctgagagttaggacccaaatcagacatatgcttactgtgaatg #### Incenp_ID2605_14 --> 1 - 0 Original Alignment gGAGATGCAGGAGAGAGAGAAAGCC-CTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtaggGAGATGCAAGAGAGAGAAAAGGCCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTG-GGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from CESAR gGAGATGCAGGAGAGAGAGAAAGCC-CTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtaggGAGATGCAAGAGAGAGAAAAGGCCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTT-GGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Spaln_aa2Genome GGAGATGCAGGAGAGAGAGAAAGCC-CTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGGCCcTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGG-GAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Spaln_nt2Genome GGAGATGCAGGAGAGAGAGAAAGCCC-TGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGGCCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTG-GGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Pairagon GGAGATGCAGGAGAGAGAGAAAGCCC-TGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGGCCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTG-GGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Exonerate_protein2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGGCCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from Exonerate_coding2genome tttattggtaactagcagactactacttctgacatcaccacttgctgtagggagatgcaagagagagaaaaggcccttgagactccagaaagaacggctccaaaaggaacttgggaaaagaagcagaaggtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg Alignment from GeneWise GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG tttattggtaactagcagactactacttctgacatcaccacttgctgtagGGAGATGCAAGAGAGAGAAAAGGCCCTTGAGACTCCAGAAAGAACGGCTCCAAAAGGAACTTGGGAAAAGAAGCAGAAGgtgagggcggccctgcagacatatattctgcagagtaaagtctgatctgg #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATCAAG-AAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG tgtgctatgatctcacaggtgtatactgagcatggctatgtctttctcagtGAGATTAGTGAAATTACTAGTATTAAGCAAAGAAGATGTCATCTCTACGTTGCAGTATCTCAACCTAA-CAATTACTACAAGgtaaacgggcataatccaattgaagcaaaaacttgcttatacttaggtgt Alignment from CESAR tGAGATCAGTGAAATCACTAGTATCAAG-AAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG tgtgctatgatctcacaggtgtatactgagcatggctatgtctttctcagtGAGATTAGTGAAATTACTAGTATTAAGCAAAGAAGATGTCATCTCTACGTTGCAGTATCTCAACCTA-ACAATTACTACAAGgtaaacgggcataatccaattgaagcaaaaacttgcttatacttaggtgt Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATCAAG-AAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG tgtgctatgatctcacaggtgtatactgagcatggctatgtctttctcagTGAGATTAGTGAAATTACTAGTATTAAGcAAAGAAGATGTCATCTCTACGTTGCAGTATCTCAACCTAAC-AATTACTACAAGgtaaacgggcataatccaattgaagcaaaaacttgcttatacttaggtgt Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTATCAAG-AAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG tgtgctatgatctcacaggtgtatactgagcatggctatgtctttctcagTGAGATTAGTGAAATTACTAGTATTAAGCAAAGAAGATGTCATCTCTACGTTGCAGTATCTCAACCT-AACAATTACTACAAGgtaaacgggcataatccaattgaagcaaaaacttgcttatacttaggtgt Alignment from Pairagon TGAGATCAGTGAAATCACTAGTATCAAG-AAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG tgtgctatgatctcacaggtgtatactgagcatggctatgtctttctcagTGAGATTAGTGAAATTACTAGTATTAAGCAAAGAAGATGTCATCTCTACGTTGCAGTATCTCAACCTAA-CAATTACTACAAGgtaaacgggcataatccaattgaagcaaaaacttgcttatacttaggtgt Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAG-AAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTC--ATCAATTACTACAAG tgtgctatgatctcacaggtgtatactgagcatggctatgtctttctcagTGAGATTAGTGAAATTACTAGTATTAAGCAAAGAAGATGTCATCTCTACGTTGCAGTATCTCAACCTAAC---AATTACTACAAGgtaaacgggcataatccaattgaagcaaaaacttgcttatacttaggtgt Alignment from Exonerate_coding2genome TGAGATCAGTGAAATCACTAGTATCAAG-AAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTC tgtgctatgatctcacaggtgtatactgagcatggctatgtctttctcagTGAGATTAGTGAAATTACTAGTATTAAGCAAAGAAGATGTCATCTCTACGTTGCAGTATCTCAACCTAacaattactacaaggtaaacgggcataatccaattgaagcaaaaacttgcttatacttaggtgt Alignment from GeneWise TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG tgtgctatgatctcacaggtgtatactgagcatggctatgtctttctcagTGAGATTAGTGAAATTACTAGTATTAAGCAAAGAAGATGTCATCTCTACGTTGCAGTATCTCAACCTAACAATTACTACAAGgtaaacgggcataatccaattgaagcaaaaacttgcttatacttaggtgt #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGA-AGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa tgagcctataccaggagaaggagcaggacttcctttctttgttttaaaaggcTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCTGATCTTGGCCTCCTATCCTACCGACAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGTCTGA-GTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtgagtgagggagcaaatcagtaggatgtgctatgatctcacaggtgtat Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGA-AGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa tgagcctataccaggagaaggagcaggacttcctttctttgttttaaaaggcTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCTGATCTTGGCCTCCTATCCTACCGACAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGTC-TGAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCaagtgagtgagggagcaaatcagtaggatgtgctatgatctcacaggtgtat Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGA-AGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgagcctataccaggagaaggagcaggacttcctttctttgttttaaaagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCTGATCTTGGCCTCCTATCCTACCGAcAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGTCTGAG-TCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgagggagcaaatcagtaggatgtgctatgatctcacaggtgtat Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGA-AGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgagcctataccaggagaaggagcaggacttcctttctttgttttaaaagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCTGATCTTGGCCTCCTATCCTACCGACAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGTCTGA-GTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgagggagcaaatcagtaggatgtgctatgatctcacaggtgtat Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGA-AGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgagcctataccaggagaaggagcaggacttcctttctttgttttaaaagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCTGATCTTGGCCTCCTATCCTACCGACAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGTCTG-AGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgagggagcaaatcagtaggatgtgctatgatctcacaggtgtat Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGA-AGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTG--AAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgagcctataccaggagaaggagcaggacttcctttctttgttttaaaagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCTGATCTTGGCCTCCTATCCTACCGACAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGTCTGAG---TCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgagggagcaaatcagtaggatgtgctatgatctcacaggtgtat Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGA-AGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTG--AAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgagcctataccaggagaaggagcaggacttcctttctttgttttaaaagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCTGATCTTGGCCTCCTATCCTACCGACAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGTCTGAG---TCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgagggagcaaatcagtaggatgtgctatgatctcacaggtgtat Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA tgagcctataccaggagaaggagcaggacttcctttctttgttttaaaagGCTATGAACTCTCAAAAGTTGATGGGAAAACTGGCACCCCTGAGAAACCCCTATCTGATCTTGGCCTCCTATCCTACCGACAGTTACTGGTCCCAAACCATCTTGGAGATCCTTATGGGTCTGAGTCAGAGAGTGGGGAGAGGCCCCAGATCACCATCAAgtgagtgagggagcaaatcagtaggatgtgctatgatctcacaggtgtat #### Kat5_ID1111_11 --> 0 - 1 Original Alignment GAAAAGGAATCCACAGAAGATTACAATGTGGCC-TGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa agagagttgcgattacgtgccaacctgtctcacatcctctctctttacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTCTGCATCTTAACCCTACCCCCCTACCAACGGCGGG-CTATGGTAGATTGCTTATTGAGTTCagtgagtgtatactatctgctcatgggctgagataaatagatcaggttgag Alignment from CESAR GAAAAGGAATCCACAGAAGATTACAATGTGGCC-TGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa agagagttgcgattacgtgccaacctgtctcacatcctctctctttacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTCTGCATCTTAACCCTACCCCCCTACCAACGGC-GGGCTATGGTAGATTGCTTATTGAGTTCagtgagtgtatactatctgctcatgggctgagataaatagatcaggttgag Alignment from Spaln_aa2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcgattacgtgccaacctgtctcacatcctctctctttacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTCTGCATCTTAACCCTACCCCCCTACCAACGGCGGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtgtatactatctgctcatgggctgagataaatagatcaggttgag Alignment from Spaln_nt2Genome GAAAAGGAATCCACAGAAGATTACAATGTGGC-CTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcgattacgtgccaacctgtctcacatcctctctctttacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTCTGCATCTTAACCCTACCCCCCTACCAACGGC-GGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtgtatactatctgctcatgggctgagataaatagatcaggttgag Alignment from Pairagon GAAAAGGAATCCACAGAAGATTACAATGTGGC-CTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcgattacgtgccaacctgtctcacatcctctctctttacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTCTGCATCTTAACCCTACCCCCCTACCAACGGC-GGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtgtatactatctgctcatgggctgagataaatagatcaggttgag Alignment from Exonerate_protein2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcgattacgtgccaacctgtctcacatcctctctctttacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTCTGCATCTTAACCCTACCCCCCTACCAACGGCGGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtgtatactatctgctcatgggctgagataaatagatcaggttgag Alignment from Exonerate_coding2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcgattacgtgccaacctgtctcacatcctctctctttacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTCTGCATCTTAACCCTACCCCCCTACCAACGGCGGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtgtatactatctgctcatgggctgagataaatagatcaggttgag Alignment from GeneWise GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA agagagttgcgattacgtgccaacctgtctcacatcctctctctttacagGAGAAAGAGTCCACAGAAGATTACAACATTGCTCTGCATCTTAACCCTACCCCCCTACCAACGGCGGGCTATGGTAGATTGCTTATTGAGTTCAgtgagtgtatactatctgctcatgggctgagataaatagatcaggttgag #### Kat5_ID1118_4 --> 2 - 0 Original Alignment tcAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACA-CCTACCAAGAACGGACTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagtcAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCCACCAAGAATGGACTCCCTGGGTCCCACCCAG-CTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from CESAR tcAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCT-ACCAAGAACGGACTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagtcAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCCACCAAGAATGGACTCCCTGGGTCCC-ACCCAGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Spaln_aa2Genome TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACA-CCTACCAAGAACGGACTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACAcCCCACCAAGAATGGACTCCCTGGGTCCCACCCAGC-TCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Spaln_nt2Genome TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCT-ACCAAGAACGGACTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGA---GTTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCCACCAAGAATGGACTCCCTGGGTCCC-ACCCAGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Pairagon TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACA-CCTACCAAGAACGGACTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGAGT---TAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCCACCAAGAATGGACTCCCTGGGTCCCA-CCCAGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Exonerate_protein2genome TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGACTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCCACCAAGAATGGACTCCCTGGGTCCCACCCAGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from Exonerate_coding2genome agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagtcaataaacgtctggatgagttaacccatgaaaggcttgacctacctaaaatacaactgcctaaaaaagaggcacagacaccccaccaagaatggactccctgggtcccacccagctcctctaaaagggaggttgtacaggctaagattgaacaccaactctcccattggtgctatcattaact Alignment from GeneWise TCAACAAACGTCTGGATGAATGGGTGACTCACGAGCGGCTGGACTTAAAGAAGATCCAATTTCCCAAGAAAGAGGCCAAGACACCTACCAAGAACGGACTTCCTGGGTCCCGCCCCGGCTCTCCCGAAAGAGAGGTG agattagaagatagacaccatccccctcgagatctctgtgctgtatgtagTCAATAAACGTCTGGATGAG---TTAACCCATGAAAGGCTTGACCTACCTAAAATACAACTGCCTAAAAAAGAGGCACAGACACCCCACCAAGAATGGACTCCCTGGGTCCCACCCAGCTCCTCTAAAAGGGAGGTTgtacaggctaagattgaacaccaactctcccattggtgctatcattaact #### Kat5_ID1120_2 --> 0 - 1 Original Alignment GGGGAGATAATC-GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCA-TCAAGATAATGAAGATGAGTGGcgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from CESAR GGGGAGATA-ATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGC-ATCAAGATAATGAAGATGAGTGGcgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Spaln_aa2Genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCATCAAGATAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Spaln_nt2Genome GGGGAGATAA-TCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGC-ATCAAGATAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Pairagon GGGGGAGATAA-TCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctctccccgcaGGGTGAGATAAGTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCA-TCAAGATAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Exonerate_protein2genome GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC atacaccaatggctatcaatacacatcctttttttcccctctccccgcagGGTGAGATAAGTCGAGGGCTGCTGCCTACCTGTCCTTCGGCGCATCAAGATAATGAAGATGAGTGGCgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from Exonerate_coding2genome atacaccaatggctatcaatacacatcctttttttcccctctccccgcagggtgagataagtcgagggctgctgcctacctgtccttcggcgcatcaagataatgaagatgagtggcgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg Alignment from GeneWise atacaccaatggctatcaatacacatcctttttttcccctctccccgcagggtgagataagtcgagggctgctgcctacctgtccttcggcgcatcaagataatgaagatgagtggcgtaagggtgtcctgagggtactctgaaggaactaaaggcaaagtcccagg #### Kazald1_ID9301_3 --> 0 - 1 Original Alignment TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGT-TGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg ttgacaagattatccacaaggttaggggttctctgttgtgttttccacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACATACCGCCTGTCTCACCCGGAATGTTCTCAGCCAAGCAGAAGCCA-AGCAACTCTGATAGTGCTTACACCAggtatgtattaattgtgggtagtagcatgtgtcaggcatcacattttaaga Alignment from CESAR TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGT-TGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg ttgacaagattatccacaaggttaggggttctctgttgtgttttccacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACATACCGCCTGTCTCACCCGGAATGTTCTCAGCCAAGCAGAAGCC-AAGCAACTCTGATAGTGCTTACACCAggtatgtattaattgtgggtagtagcatgtgtcaggcatcacattttaaga Alignment from Spaln_aa2Genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttgacaagattatccacaaggttaggggttctctgttgtgttttccacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACATACCGCCTGTCTCACCCGGAATGTTCTCAGCCAAGCAGAAGCCAAGCAACTCTGATAGTGCTTACACCAGgtatgtattaattgtgggtagtagcatgtgtcaggcatcacattttaaga Alignment from Spaln_nt2Genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGT-TGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttgacaagattatccacaaggttaggggttctctgttgtgttttccacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACATACCGCCTGTCTCACCCGGAATGTTCTCAGCCAAGCAGAAGC-CAAGCAACTCTGATAGTGCTTACACCAGgtatgtattaattgtgggtagtagcatgtgtcaggcatcacattttaaga Alignment from Pairagon TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCG-TTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttgacaagattatccacaaggttaggggttctctgttgtgttttccacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACATACCGCCTGTCTCACCCGGAATGTTCTCAGCCAAGCAGAAGC-CAAGCAACTCTGATAGTGCTTACACCAGgtatgtattaattgtgggtagtagcatgtgtcaggcatcacattttaaga Alignment from Exonerate_protein2genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttgacaagattatccacaaggttaggggttctctgttgtgttttccacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACATACCGCCTGTCTCACCCGGAATGTTCTCAGCCAAGCAGAAGCCAAGCAACTCTGATAGTGCTTACACCAGgtatgtattaattgtgggtagtagcatgtgtcaggcatcacattttaaga Alignment from Exonerate_coding2genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttgacaagattatccacaaggttaggggttctctgttgtgttttccacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACATACCGCCTGTCTCACCCGGAATGTTCTCAGCCAAGCAGAAGCCAAGCAACTCTGATAGTGCTTACACCAGgtatgtattaattgtgggtagtagcatgtgtcaggcatcacattttaaga Alignment from GeneWise TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAG ttgacaagattatccacaaggttaggggttctctgttgtgttttccacagTTCAGAGGTGGACCACAAGAATTTAAGGTGACTAGTTCACTACAGATTCAGGCATTGCACCATAGTGATGAAGGCACATACCGCCTGTCTCACCCGGAATGTTCTCAGCCAAGCAGAAGCCAAGCAACTCTGATAGTGCTTACACCAGgtatgtattaattgtgggtagtagcatgtgtcaggcatcacattttaaga #### Kcnip2_ID9604_8 --> 0 - 0 Original Alignment GAAATGCTCGACATCATGAAGTCCATCTATGACATGATG-GGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgtggggtgttctgctacccccctgatctgccctcttctcagGACATGATTGACATCATGAAATCCATCTATGACATGATGCGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAC-GGAACATGTGGAAAGCTTCTTCCAAgtaagtgttgcgtcttctggaatagcgggatatatgcagagtcactccac Alignment from CESAR GAAATGCTCGACATCATGAAGTCCATCTATGACATGATG-GGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgtggggtgttctgctacccccctgatctgccctcttctcagGACATGATTGACATCATGAAATCCATCTATGACATGATGCGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCAC-GGAACATGTGGAAAGCTTCTTCCAAgtaagtgttgcgtcttctggaatagcgggatatatgcagagtcactccac Alignment from Spaln_aa2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATG-GGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgtggggtgttctgctacccccctgatctgccctcttctcagGACATGATTGACATCATGAAATCCATCTATGACATGATGcGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCACG-GAACATGTGGAAAGCTTCTTCCAAgtaagtgttgcgtcttctggaatagcgggatatatgcagagtcactccac Alignment from Spaln_nt2Genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGG-GCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgtggggtgttctgctacccccctgatctgccctcttctcagGACATGATTGACATCATGAAATCCATCTATGACATGATGCGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCC-ACGGAACATGTGGAAAGCTTCTTCCAAgtaagtgttgcgtcttctggaatagcgggatatatgcagagtcactccac Alignment from Pairagon GAAATGCTCGACATCATGAAGTCCATCTATGACATGATG-GGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgtggggtgttctgctacccccctgatctgccctcttctcagGACATGATTGACATCATGAAATCCATCTATGACATGATGCGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCC-ACGGAACATGTGGAAAGCTTCTTCCAAgtaagtgttgcgtcttctggaatagcgggatatatgcagagtcactccac Alignment from Exonerate_protein2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATG-GGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCG--AGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgtggggtgttctgctacccccctgatctgccctcttctcagGACATGATTGACATCATGAAATCCATCTATGACATGATGCGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCACG---GAACATGTGGAAAGCTTCTTCCAAgtaagtgttgcgtcttctggaatagcgggatatatgcagagtcactccac Alignment from Exonerate_coding2genome GAAATGCTCGACATCATGAAGTCCATCTATGACATGATG-GGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCG--AGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgtggggtgttctgctacccccctgatctgccctcttctcagGACATGATTGACATCATGAAATCCATCTATGACATGATGCGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCACG---GAACATGTGGAAAGCTTCTTCCAAgtaagtgttgcgtcttctggaatagcgggatatatgcagagtcactccac Alignment from GeneWise GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG ctcagtggtgtggggtgttctgctacccccctgatctgccctcttctcagGACATGATTGACATCATGAAATCCATCTATGACATGATGCGGCAAATACACCTATCCTGCACTCCGGGAGGAAGCCCCACGGAACATGTGGAAAGCTTCTTCCAAgtaagtgttgcgtcttctggaatagcgggatatatgcagagtcactccac #### Kcnip2_ID9608_4 --> 2 - 0 Original Alignment acAGCGTGGAGGATGAGTTTGAA-CTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgatagtcatgaagtatattaaatctttttccaacatagatAGTGTTGAGGATGAGTTTGAACCTGTCAATGATTTGTCACCGGCCAGAAAGTTTGG-ACAGCTACAGAAACATGCTGAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTACAGAGGATTCAAAAATgtaaggggggaatgaaaccgcctgtggtagaacctccatacttctaagct Alignment from CESAR acAGCGTGGAGGATGAGTTTGAA-CTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgatagtcatgaagtatattaaatctttttccaacatagatAGTGTTGAGGATGAGTTTGAACCTGTCAATGATTTGTCACCGGCCAGAAAGTTTGG-ACAGCTACAGAAACATGCTGAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTACAGAGGATTCAAAAATgtaaggggggaatgaaaccgcctgtggtagaacctccatacttctaagct Alignment from Spaln_aa2Genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgatagtcatgaagtatattaaatctttttccaacatagATAGTGTTGAGGATGAGTTTGAACCTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGACAGCTACAGAAACATGCTGAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTACAGAGGATTCAAAAATgtaaggggggaatgaaaccgcctgtggtagaacctccatacttctaagct Alignment from Spaln_nt2Genome ACAGCGTGGAGGATGAGTTTGAAC-TATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTGCAG---GTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgatagtcatgaagtatattaaatctttttccaacatagATAGTGTTGAGGATGAGTTTGAACCTGTCAATGATTTGTCACCGGCCAGAAAGTTTGG-ACAGCTACAGAAACATGCTGAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTACAGAGGATTCAAAAATgtaaggggggaatgaaaccgcctgtggtagaacctccatacttctaagct Alignment from Pairagon ACAGCGTGGAGGATGAGTTTGAA-CTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGT---TGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgatagtcatgaagtatattaaatctttttccaacatagATAGTGTTGAGGATGAGTTTGAACCTGTCAATGATTTGTCACCGGCCAGAAAGTTTGG-ACAGCTACAGAAACATGCTGAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTACAGAGGATTCAAAAATgtaaggggggaatgaaaccgcctgtggtagaacctccatacttctaagct Alignment from Exonerate_protein2genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgatagtcatgaagtatattaaatctttttccaacatagATAGTGTTGAGGATGAGTTTGAACCTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGACAGCTACAGAAACATGCTGAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTACAGAGGATTCAAAAATgtaaggggggaatgaaaccgcctgtggtagaacctccatacttctaagct Alignment from Exonerate_coding2genome ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAG---TTGCAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgatagtcatgaagtatattaaatctttttccaacatagATAGTGTTGAGGATGAGTTTGAACCTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGACAGCTACAGAAACATGCTGAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTACAGAGGATTCAAAAATgtaaggggggaatgaaaccgcctgtggtagaacctccatacttctaagct Alignment from GeneWise ACAGCGTGGAGGATGAGTTTGAACTATCCACGGTGTGCCACCGGCCTGAGGGTCTGGAACAACTCCAGGAACAAACCAAGTTCACACGCAGAGAGTTG---CAGGTCCTGTACAGAGGCTTCAAGAAC tgaagggctagtgatagtcatgaagtatattaaatctttttccaacatagATAGTGTTGAGGATGAGTTTGAACCTGTCAATGATTTGTCACCGGCCAGAAAGTTTGGACAGCTACAGAAACATGCTGAGTTTGCACATAGAGAGTTGCTGCAAGTCTTGTACAGAGGATTCAAAAATgtaaggggggaatgaaaccgcctgtggtagaacctccatacttctaagct #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTG-GATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTGGCA---------CAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGCGATTCACACTCTGTTTTGCTGGAAGATCCACAGAGTATGC-AGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTA---CGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from CESAR GGCTGTGTGCAAGTTTTG-GATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGCGATTCACACTCTGTTTTGCTGGAAGATCCACAGAGTATG-CAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Spaln_aa2Genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCAC---TTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccagGTGCAAATTTTGCGATTCACACTCTGTTTTGCTGGAAGATCCACAGAGTATGCAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Spaln_nt2Genome GGCTGTGTGCAAGTTTTG-GATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGCGATTCACACTCTGTTTTGCTGGAAGATCCACAGAGTATGC-AGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Pairagon GGCTGTGTGCAAGTTTTG-GATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATC-------CTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcattccag------GTGCAAATTTTGCGATTCACACTCTGTTTTGCTGGAAGATCCACAGAGTATGCAGGTCACTTG-----TTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Exonerate_protein2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTT--GGCCACTTAAGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG ctggctataaacacagtgtctcttgagattgtccccaattatcatTCCAGGTGCAAATTTTGCGATTCACACTCTGTTTTGCTGGAAGATCCACAGAGTATGCAGGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from Exonerate_coding2genome ctggctataaacacagtgtctcttgagattgtccccaattatcattccaggtgcaaattttgcgattcacactctgttttgctggaagatccacagagtatgcaggtcacttgttgagtcagaaaagctctggccaggtacgccatgtacaggaatttagcttttctaaagtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga Alignment from GeneWise ---------------------------------------------------------------GATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTA---AGTGAGAAGAGCTCTGGACAGGTG------GCACAGAAATTCAGTTTTTCTAAG CTGGCTATAAACACAGTGTCTCTTGAGATTGTCCCCAATTATCATTCCAGGTGCAAATTTTGCGATTCACACTCTGTTTTGCTGGAAGATCCACAGAGTATGCA-GGTCACTTGTTGAGTCAGAAAAGCTCTGGCCAGGTACGCCATGTACAGGAATTTAGCTTTTCTAAAgtgagcgtaagtatggtggattgaccacactgaatgctctatcaagagga #### Kif20b_ID7002_7 --> 2 - 1 Original Alignment gaCACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAAT-GAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAg attttaaggtttgctttgcagttgaactacgtaaccctttttccttccagggCACTTTACAAACTCTTTGACTATTCCAGAGTTTGAGGAACCTGTCAACAGG---------CCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTTTTTGAAATCTATAACCAAAAGTATATTC---TTGTTTGTGCCTGTTTCTTCCAAGTTTC-AAAGAGAAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAggtatggccatcttgttaaagagggagcatatgttacaactatttcacatt Alignment from CESAR gaCACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAAT-GAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAg attttaaggtttgctttgcagttgaactacgtaaccctttttccttccagggCACTTTACAAACTCTTTGACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTTTTTGAAATCTATAACCAAAAGTATATTC---TTGTTTGTGCCTGTTTCTTCCAAGTTTC-AAAGAGAAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAggtatggccatcttgttaaagagggagcatatgttacaactatttcacatt Alignment from Spaln_aa2Genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAA-AGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG attttaaggtttgctttgcagttgaactacgtaaccctttttccttccagGGCACTTTACAAACTCTTTGACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTTTTTGAAATCTATAACCAAaAGTATATTC---TTGTTTGTGCCTGTTTCTTCCAAGTTTCAAAGAGAAAA-ATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtatggccatcttgttaaagagggagcatatgttacaactatttcacatt Alignment from Spaln_nt2Genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAA-GTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG attttaaggtttgctttgcagttgaactacgtaaccctttttccttccagGGCACTTTACAAACTCTTTGACTATTCCAGAGTTTGAGGAACCTGTCAACAG---------GCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTTTTTGAAATCTATAACCAAAAGTATATTC---TTGTTTGTGCCTGTTTCTTCCAAGTTTC-AAAGAGAAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtatggccatcttgttaaagagggagcatatgttacaactatttcacatt Alignment from Pairagon GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAA-TGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG attttaaggtttgctttgcagttgaactacgtaaccctttttccttccagGGCACTTTACAAACTCTTTGACTATTCCAGAGTTTGAGGAACCTGTCAACAG---------GCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTTTTTGAAATCTATAACCAAAAGTATATTC---TTGTTTGTGCCTGTTTCTTCCAAGTTTC-AAAGAGAAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtatggccatcttgttaaagagggagcatatgttacaactatttcacatt Alignment from Exonerate_protein2genome GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG attttaaggtttgctttgcagttgaactacgtaaccctttttccttccagGGCACTTTACAAACTCTTTGACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTTTTTGAAATCTATAACCAAAAG---TATATTCTTGTTTGTGCCTGTTTCTTCCAAGTTTCAAAGAGAAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtatggccatcttgttaaagagggagcatatgttacaactatttcacatt Alignment from Exonerate_coding2genome GTTACCATACATAATGACAGTTATGACGTTCTTTGTGGACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG attttaaggtttgCTTTGCAGTTGAACTACGTAACCCTTTTTCCTTCCAGGGCACTTTACAAACTCTTTGACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTTTTTGAAATCTATAACCAAAAG---TATATTCTTGTTTGTGCCTGTTTCTTCCAAGTTTCAAAGAGAAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtatggccatcttgttaaagagggagcatatgttacaactatttcacatt Alignment from GeneWise GACACTTAACAAACTCTTTGACTATCCCAGAATTTGAAGAATCCGTGAACAGTTGTGACCAGTCCAGTCTGAATGTGGATAATATAAAGTATTCTGTGTGGGTTTCTTTCTTTGAAATTTACAATGAAAGTATTTACGATTTGTTTGTTCCTGTGTCCTCTAAGTTTCAAAAGAGAAAAATGTTACGACTTTCCCAAGATATAAAGGGCTATTCTTTTATAAAAG attttaaggtttgctttgcagttgaactacgtaaccctttttccttccagGGCACTTTACAAACTCTTTGACTATTCCAGAGTTTGAGGAACCTGTCAAC---------AGGCCAAGTTTAAATGTAGATAATATAAAGTATTCTGTGTGGGTCTCATTTTTTGAAATCTATAACCAAAAG---TATATTCTTGTTTGTGCCTGTTTCTTCCAAGTTTCAAAGAGAAAAATGTTACGAATTGCTCAGGACATAAAGGGATATTCTTTTATTAAAGgtatggccatcttgttaaagagggagcatatgttacaactatttcacatt #### Kif20b_ID7005_10 --> 1 - 2 Original Alignment aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGA-GAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcaggTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGACGAAGCAGGAAATGTCAACATGCCCTTGTTGA-CTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAaagtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from CESAR aTTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGA-GAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAaa tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcaggTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGACGAAGCAGGAAATGTCAACATGCCCTTGTTGA-CTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAaagtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Spaln_aa2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGACGAAGCAGGAAATGTCAACATGCCCTTGTTGACTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Spaln_nt2Genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGA-GAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGACGAAGCAGGAAATGTCAACATGCCCTTGTTGACT-TGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Pairagon ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGA-GAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGACGAAGCAGGAAATGTCAACATGCCCTTGTTGACT-TGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Exonerate_protein2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGACGAAGCAGGAAATGTCAACATGCCCTTGTTGACTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from Exonerate_coding2genome ATTGTCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA tgttttggaagaaaagtatctgcagcacaccacgtctgtgttcgtttcagGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGACGAAGCAGGAAATGTCAACATGCCCTTGTTGACTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga Alignment from GeneWise ------------------------------------------------------TCTCTATGTGATCTTGCTGGTTCAGAACGAAGCATGAAGACACAAAACGAAGGTGAAAGGTTAAGAGAGGCTGGGAATATCAACACTTCTTTATTGACTCTGGGAAAGTGTATCAATGTTTTGAAGAACAGTGAAAAGTCAAA TGTTTTGGAAGAAAAGTATCTGCAGCACACCACGTCTGTGTTCGTTTCAGGTTCTCACCGTGTGATCTTGCAGGTTCAGAACAAAGCATGAAGACACAAAATGAAGGTGAGAGGCCAAGACGAAGCAGGAAATGTCAACATGCCCTTGTTGACTTGGGAATGTGTGTCAATGTATTAAAGAATAGTGAGAAGTCAAAgtaagaaccagttgtgtcatagaatctactgttctgagtactttcggaga #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTT-GGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTCGGGAAACTCCGAGATGCTCTAAGACGCA-CAGTGAAATGCTCGTAAGGAAATCGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTaggtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTT-GGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ttcgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTCGGGAAACTCCGAGATGCTCTAAGACGC-ACAGTGAAATGCTCGTAAGGAAATCGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTaggtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTCGGGAAACTCCGAGATGCTCTAAGACGCACAGTGAAATGCTCGTAAGGAAATCGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Spaln_nt2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTT-GGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTCGGGAAACTCCGAGATGCTCTAAGACGCA-CAGTGAAATGCTCGTAAGGAAATCGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Pairagon -------------------------------------------------GGACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTT-GGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG TGTGCATAACAAATCTCTTTTGAGCCTGCCCACTTCTTCTTGGTACACAGGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTCGGGAAACTCCGAGATGCTCTAAGACGCA-CAGTGAAATGCTCGTAAGGAAATCGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Exonerate_protein2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTCGGGAAACTCCGAGATGCTCTAAGACGCACAGTGAAATGCTCGTAAGGAAATCGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from Exonerate_coding2genome tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacaggatggaagcggttccctgcagtgcagtggttcttttcgggaaactccgagatgctctaagacgcacagtgaaatgctcgtaaggaaatcgcaggggggtgggccacaggagccctctaattctaggtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc Alignment from GeneWise GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG tgtgcataacaaatctcttttgagcctgcccacttcttcttggtacacagGATGGAAGCGGTTCCCTGCAGTGCAGTGGTTCTTTTCGGGAAACTCCGAGATGCTCTAAGACGCACAGTGAAATGCTCGTAAGGAAATCGCAGGGGGGTGGGCCACAGGAGCCCTCTAATTCTAGgtaagcgctcacctcctacatccatatcattaatgataacttgcggggcc #### Klc2_ID854_12 --> 0 - 0 Original Alignment GGCCTGGATCCTGCCAGC-CAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG ttcttgtgtatatttttgcagggcctaacaccaggcctgtgtttgagcagGGCCTAGACCCTGCCAGTCCAGACAAAGGTCATCAAGCTATTAAAGGATG-TAGCAGTGGACACAGCCAGTGCCGTGGTAGTAGAGATGTGATTGGGCCT---CCTGAGTTAGATTTGGAAGAGTCAGAGCCAATGGCTCATTGGGGTGGTgtattcgcataacaaatctcttttgagcctgtgtaattgctgtattttgt Alignment from CESAR GGCCTGGATCCTGCCAGC-CAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG ttcttgtgtatatttttgcagggcctaacaccaggcctgtgtttgagcagGGCCTAGACCCTGCCAGTCCAGACAAAGGTCATCAAGCTATTAAAGGAT-GTAGCAGTGGACACAGCCAGTGCCGTGGTAGTAGAGATGTGATTGGGCCT---CCTGAGTTAGATTTGGAAGAGTCAGAGCCAATGGCTCATTGGGGTGGTgtattcgcataacaaatctcttttgagcctgcccacttcttcttggtaca Alignment from Spaln_aa2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG ttcttgtgtatatttttgcagggcctaacaccaggcctgtgtttgagcagGGCCTAGACCCTGCCAGTCCAGACAAAGGTCATCAAGCTATTAAAGGATGTAGCAGTGGACACAGCCAGTGCCGTGGTAGTAGAGATGTGATTGGGCCT---CCTGAGTTAGATTTGGAAGAGTCAGAGCCAATGGCTCATTGGGGTGGTgtattcgcataacaaatctcttttgagcctgtgtaattgctgtattttgt Alignment from Spaln_nt2Genome GGCCTGGATCCTGCCAG-CCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG ttcttgtgtatatttttgcagggcctaacaccaggcctgtgtttgagcagGGCCTAGACCCTGCCAGTCCAGACAAAGGTCATCAAGCTATTAAAGGAT-GTAGCAGTGGACACAGCCAGTGCCGTGGTAGTAGAGATGTGATTGGGCCTC---CTGAGTTAGATTTGGAAGAGTCAGAGCCAATGGCTCATTGGGGTGGTgtattcgcataacaaatctcttttgagcctgtgtaattgctgtattttgt Alignment from Pairagon GGCCTGGATCCTGCCAG-CCAGACCAAGGTGGTAGAACTGTTAAAAGATG--GCAGTGGTGGACGAGGACAC------CGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGG--------------------------------------------------- ttcttgtgtatatttttgcagggcctaacaccaggcctgtgtttgagcagGGCCTAGACCCTGCCAGTCCAGACAAAGGTCATCAAGCTATTAAAGGATGTAGCAGT---------GGACACAGCCAGTGCCGTGGTAGTAGAGATGTGATTGGGCCTC---CTGAGTTAGATTTGGAAGAGTCAGAGCCAATGGCTCATTGGGGTGGTGTATTCGCATAACAAATCTCTTTTGAGCCTGTGTAATTGCTGTATTTTGT Alignment from Exonerate_protein2genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG ttcttgtgtatatttttgcagggcctaacaccaggcctgtgtttgagcagGGCCTAGACCCTGCCAGTCCAGACAAAGGTCATCAAGCTATTAAAGGATGTAGCAGTGGACACAGCCAGTGCCGTGGTAGTAGAGATGTGATTGGGCCT---CCTGAGTTAGATTTGGAAGAGTCAGAGCCAATGGCTCATTGGGGTGGTgtattcgcataacaaatctcttttgagcctgtgtaattgctgtattttgt Alignment from Exonerate_coding2genome ttcttgtgtatatttttgcagggcctaacaccaggcctgtgtttgagcagggcctagaccctgccagtccagacaaaggtcatcaagctattaaaggatgtagcagtggacacagccagtgccgtggtagtagagatgtgattgggcctcctgagttagatttggaagagtcagagccaatggctcattggggtggtgtattcgcataacaaatctcttttgagcctgtgtaattgctgtattttgt Alignment from GeneWise ---GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG ttcttgtgtatatttttgcagggcctaacaccaggcctgtgtttgagCAGGGCCTAGACCCTGCCAGTCCAGACAAAGGTCATCAAGCTATTAAAGGATGTAGCAGTGGACACAGCCAGTGCCGTGGTAGTAGAGATGTGATTGGGCCTCCT---GAGTTAGATTTGGAAGAGTCAGAGCCAATGGCTCATTGGGGTGGTgtattcgcataacaaatctcttttgagcctgtgtaattgctgtattttgt #### Ldb1_ID9691_9 --> 0 - 1 Original Alignment CTCTGTGTGATA-CTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACA-CCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTggtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from CESAR CTCTGTGTGATA-CTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCg tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACA-CCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTggtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Spaln_aa2Genome CTCTGTGTGATA-CTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCcCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAC-CTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Spaln_nt2Genome CTCTGTGTGATAC-TAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACA-CCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Pairagon CTCTGTGTGAT-ACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACA-CCTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Exonerate_protein2genome CTCTGTGTGATA-CTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTAC--AGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAC---CTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from Exonerate_coding2genome CTCTGTGTGATA-CTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTAC--AGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagCTCTGTGTAATCCCTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAC---CTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag Alignment from GeneWise --CCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCG tcattacaagccaatccaaacactgatttgtgtgttgttttttcttatagctctgtgtaatccctagAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAC-CTTAGTCCTCGGGATTGCCTCAAGACATGTCTCTTCCAGAGGTGGCAGCGAATGGTTGCGCCTCCTGgtaaggttcccttccctctaattaagtgaggtagttctgctacagtcaag #### Ldb1_ID9692_8 --> 0 - 0 Original Alignment GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaaaatggctttcttttaattgaagGCTCAGGACCCGCAGATGCTGGACCAGCCTATCCAAAAACATTACTCGATGTGGTTTTTCAAATACAGCTA-TAAGTACTTTCGGgtgagggtggagggtcacaatataaattacccttcattgtcattacaagc Alignment from CESAR GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaaaatggctttcttttaattgaagGCTCAGGACCCGCAGATGCTGGACCAGCCTATCCAAAAACATTACTCGATGTGGTTTTTCAAATACAGCT-ATAAGTACTTTCGGgtgagggtggagggtcacaatataaattacccttcattgtcattacaagc Alignment from Spaln_aa2Genome GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaaaatggctttcttttaattgaagGCTCAGGACCCGCAGATGCTGGACCAGcCTATCCAAAAACATTACTCGATGTGGTTTTTCAAATACAGCTATAAG-TACTTTCGGgtgagggtggagggtcacaatataaattacccttcattgtcattacaagc Alignment from Spaln_nt2Genome GCCCAGGACCCCCAGATGCTGGATCAGC-TGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaaaatggctttcttttaattgaagGCTCAGGACCCGCAGATGCTGGACCAGCCTATCCAAAAACATTACTCGATGTGGTTTTTCAAATACAGCTAT-AAGTACTTTCGGgtgagggtggagggtcacaatataaattacccttcattgtcattacaagc Alignment from Pairagon GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGTGTG tttggagtccacatcttaatcaggtgaaaatggctttcttttaattgaagGCTCAGGACCCGCAGATGCTGGACCAGCCTATCCAAAAACATTACTCGATGTGgtttttcaaatacagctataagtactttcgggtgagggtggagggtcacaatataaattacccttcattgtcattacaagc Alignment from Exonerate_protein2genome GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCG tttggagtccacatcttaatcaggtgaaaatggctttcttttaattgaagGCTCAGGACCCGCAGATGCTGGACCAGCCTATCCAAAAACATTACTCGATGTGGTTTTTCAAATACAGCTATAAGTACTTTCGGgtgagggtggagggtcacaatataaattacccttcattgtcattacaagc Alignment from Exonerate_coding2genome GCCCAGGACCCCCAGATGCTGGATCAG-CTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCG tttggagtccacatcttaatcaggtgaaaatggctttcttttaattgaagGCTCAGGACCCGCAGATGCTGGACCAGCCTATCCAAAAACATTACTCGATGTGGTTTTTCAAATACAGCTATAAGTACTTTCGGgtgagggtggagggtcacaatataaattacccttcattgtcattacaagc Alignment from GeneWise GCCCAGGACCCCCAGATGCTGGATCAGCTGTCCAAAAACATTACCCGGTGTGGGCTGTCCAATTCCACTCTCAACTACCTCCGA tttggagtccacatcttaatcaggtgaaaatggctttcttttaattgaagGCTCAGGACCCGCAGATGCTGGACCAGCCTATCCAAAAACATTACTCGATGTGGTTTTTCAAATACAGCTATAAGTACTTTCGGgtgagggtggagggtcacaatataaattacccttcattgtcattacaagc #### Ldb1_ID9693_7 --> 0 - 0 Original Alignment GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGAC-GACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATCGACATGATGCGGATAAAGACATGGCACTTCAGCATCC-GCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from CESAR GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGAC-GACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATCGACATGATGCGGATAAAGACATGGCACTTCAGCATCC-GCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Spaln_aa2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGAC-GACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATcGACATGATGCGGATAAAGACATGGCACTTCAGCATCCG-CAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Spaln_nt2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGA-CGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATCGACATGATGCGGATAAAGACATGGCACTTCAGCATCCG-CAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Pairagon GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGA-CGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATCGACATGATGCGGATAAAGACATGGCACTTCAGCATCC-GCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Exonerate_protein2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGAC-GACATGATGCGGATAAAGACGTGGCACTTCAGCATC--CGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATCGACATGATGCGGATAAAGACATGGCACTTCAGCATCCG---CAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from Exonerate_coding2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGAC-GACATGATGCGGATAAAGACGTGGCACTTCAGCATC--CGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATCGACATGATGCGGATAAAGACATGGCACTTCAGCATCCG---CAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct Alignment from GeneWise GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tttgaggaaatcaccaaagcaagggtagctgatttttttctgtgttttagGTCTGTGTAGAAGGACGGCTGTACTTGGAGTTCATGTTTGATCGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGCAACACAGTGAACTTATTCCAAGAAGTATCCTGGCGATGCACgtagtatgatcccagccccacctgatctaagggctttggagtccacatct #### Ldb1_ID9694_6 --> 2 - 0 Original Alignment ccATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGT-GCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ggttctgggtgagatgctttctctctttttccatgtttgtctcattttagccATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTCGCCACAGAGTTGTACTACGTGCTCAAGCACC-TAAAGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtaagcaaagtgtagggatagcataacctgataccatgagaggcaacacc Alignment from CESAR ccATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGT-GCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ggttctgggtgagatgctttctctctttttccatgtttgtctcattttagccATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTCGCCACAGAGTTGTACTACGTGCTCAAGC-ACCTAAAGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtaagcaaagtgtagggatagcataacctgataccatgagaggcaacacc Alignment from Spaln_aa2Genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ggttctgggtgagatgctttctctctttttccatgtttgtctcattttagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTCGCCACAGAGTTGTACTACGTGCTCAAGCACCTAAAGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtaagcaaagtgtagggatagcataacctgataccatgagaggcaacacc Alignment from Spaln_nt2Genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGT-GCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ggttctgggtgagatgctttctctctttttccatgtttgtctcattttagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTCGCCACAGAGTTGTACTACGTGCTCAAGCA-CCTAAAGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtaagcaaagtgtagggatagcataacctgataccatgagaggcaacacc Alignment from Pairagon CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGT-GCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ggttctgggtgagatgctttctctctttttccatgtttgtctcattttagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTCGCCACAGAGTTGTACTACGTGCTCAAGCA-CCTAAAGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtaagcaaagtgtagggatagcataacctgataccatgagaggcaacacc Alignment from Exonerate_protein2genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ggttctgggtgagatgctttctctctttttccatgtttgtctcattttagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTCGCCACAGAGTTGTACTACGTGCTCAAGCACCTAAAGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtaagcaaagtgtagggatagcataacctgataccatgagaggcaacacc Alignment from Exonerate_coding2genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG ggttctgggtgagatgctttctctctttttccatgtttgtctcattttagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTCGCCACAGAGTTGTACTACGTGCTCAAGCACCTAAAGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtaagcaaagtgtagggatagcataacctgataccatgagaggcaacacc Alignment from GeneWise ----------------------------------------------------ATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG GGTTCTGGGTGAGATGCTTTCTCTCTTTTTCCATGTTTGTCTCATTTTAGCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTCGCCACAGAGTTGTACTACGTGCTCAAGCACCTAAAGAGGCATTCCACAGCAACTTTGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGgtaagcaaagtgtagggatagcataacctgataccatgagaggcaacacc #### Lipa_ID6938_5 --> 2 - 0 Original Alignment gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTT-GCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctaaggtcaatagcttgccttccttgtgtgcaggtTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGACCCCAGTATTGTCTCTCAATTTTCGCTTCCAGCCCGTTATTACAGTCAGGCCACTTGCCCG-TCCATTGCTCAAAgtgagtgagttgatattttaagcacctgattctcaatagtaagtgtctgt Alignment from CESAR gtTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTT-GCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctaaggtcaatagcttgccttccttgtgtgcaggtTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGACCCCAGTATTGTCTCTCAATTTTCGCTTCCAGCCCGTTATTACAGTCAGGCCACTTGCCC-GTCCATTGCTCAAAgtgagtgagttgatattttaagcacctgattctcaatagtaagtgtctgt Alignment from Spaln_aa2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctaaggtcaatagcttgccttccttgtgtgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGACCCCAGTATTGTCTCTCAATTTTCGCTTCCAGCCCGTTATTACAGTCAGGCCACTTGCCCGTCCATTGCTCAAAgtgagtgagttgatattttaagcacctgattctcaatagtaagtgtctgt Alignment from Spaln_nt2Genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTT-GCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctaaggtcaatagcttgccttccttgtgtgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGACCCCAGTATTGTCTCTCAATTTTCGCTTCCAGCCCGTTATTACAGTCAGGCCACTTGCCCGTCCAT-TGCTCAAAgtgagtgagttgatattttaagcacctgattctcaatagtaagtgtctgt Alignment from Pairagon GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTT-GCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctaaggtcaatagcttgccttccttgtgtgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGACCCCAGTATTGTCTCTCAATTTTCGCTTCCAGCCCGTTATTACAGTCAGGCCACTTGCCCGTCCAT-TGCTCAAAgtgagtgagttgatattttaagcacctgattctcaatagtaagtgtctgt Alignment from Exonerate_protein2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctaaggtcaatagcttgccttccttgtgtgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGACCCCAGTATTGTCTCTCAATTTTCGCTTCCAGCCCGTTATTACAGTCAGGCCACTTGCCCGTCCATTGCTCAAAgtgagtgagttgatattttaagcacctgattctcaatagtaagtgtctgt Alignment from Exonerate_coding2genome GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctaaggtcaatagcttgccttccttgtgtgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGACCCCAGTATTGTCTCTCAATTTTCGCTTCCAGCCCGTTATTACAGTCAGGCCACTTGCCCGTCCATTGCTCAAAgtgagtgagttgatattttaagcacctgattctcaatagtaagtgtctgt Alignment from GeneWise GTTTCATAGCTTTTTCACAGATGCCTGAGTTGGCAAAGAAGATTAAAATGTTTTTAGTCTTGGCTCCCGTGTTGTCTCTCAATTTTGCTTCAGGCCCGCTACTTCAATTGGGACGCTTGCCAGACCCTCTTCTCAAG ggtagggatggctcaagctaaggtcaatagcttgccttccttgtgtgcagGTTTCATAGCTTTTTCACAAATGCCTGAGTTAGCTAAAAAGATCAAAATGTTTTTAGCACTGACCCCAGTATTGTCTCTCAATTTTCGCTTCCAGCCCGTTATTACAGTCAGGCCACTTGCCCGTCCATTGCTCAAAgtgagtgagttgatattttaagcacctgattctcaatagtaagtgtctgt #### Lipo1_ID6826_7 --> 0 - 0 Original Alignment AGCCGCCTTGATGTG-TATGTAAAGCTCAATCTAGCAGGAACATCAGTAAAAGTTCTTATACATTATAATCAG attcaacaatgtttgactggaatacttgacctcctcttttctgattgcagAGCCGCCTTAAAGTGCTATGTTACGCTCAATCTAGCTGGTACATCAG-AAAAGTTCTTATTCATTATAATCAGgtaagtcattactagtgtcctgtccatgcctggaccttctgtgttagcaa Alignment from CESAR AGCCGCCTTGATGTG-TATGTAAAGCTCAATCTAGCAGGAACATCAGTAAAAGTTCTTATACATTATAATCAG attcaacaatgtttgactggaatacttgacctcctcttttctgattgcagAGCCGCCTTAAAGTGCTATGTTACGCTCAATCTAGCTGGTACATCA-GAAAAGTTCTTATTCATTATAATCAGgtaagtcattactagtgtcctgtccatgcctggaccttctgtgttagcaa Alignment from Spaln_aa2Genome AGCCGCCTTGATGTGTATGTAAAGCTCAATCTAGCAGGAACATCAGTAAAAGTTCTTATACATTATAATCAG attcaacaatgtttgactggaatacttgacctcctcttttctgattgcagAGCCGCCTTAAAGTGCTATGTTACGCTCAATCTAGCTGGTACATCAGAAAAGTTCTTATTCATTATAATCAGgtaagtcattactagtgtcctgtccatgcctggaccttctgtgttagcaa Alignment from Spaln_nt2Genome AGCCGCCTTGATGTG-TATGTAAAGCTCAATCTAGCAGGAACATCAGTAAAAGTTCTTATACATTATAATCAG attcaacaatgtttgactggaatacttgacctcctcttttctgattgcagAGCCGCCTTAAAGTGCTATGTTACGCTCAATCTAGCTGGTACATCAG-AAAAGTTCTTATTCATTATAATCAGgtaagtcattactagtgtcctgtccatgcctggaccttctgtgttagcaa Alignment from Pairagon AGCCGCCTTGATGTG-TATGTAAAGCTCAATCTAGCAGGAACATCAGTAAAAGTTCTTATACATTATAATCAG attcaacaatgtttgactggaatacttgacctcctcttttctgattgcagAGCCGCCTTAAAGTGCTATGTTACGCTCAATCTAGCTGGTACATCAG-AAAAGTTCTTATTCATTATAATCAGgtaagtcattactagtgtcctgtccatgcctggaccttctgtgttagcaa Alignment from Exonerate_protein2genome AGCCGCCTTGATGTGTATGTAAAGCTCAATCTAGCAGGAACATCAGTAAAAGTTCTTATACATTATAATCAG attcaacaatgtttgactggaatacttgacctcctcttttctgattgcagAGCCGCCTTAAAGTGCTATGTTACGCTCAATCTAGCTGGTACATCAGAAAAGTTCTTATTCATTATAATCAGgtaagtcattactagtgtcctgtccatgcctggaccttctgtgttagcaa Alignment from Exonerate_coding2genome AGCCGCCTTGATGTGTATGTAAAGCTCAATCTAGCAGGAACATCAGTAAAAGTTCTTATACATTATAATCAG attcaacaatgtttgactggaatacttgacctcctcttttctgattgcagAGCCGCCTTAAAGTGCTATGTTACGCTCAATCTAGCTGGTACATCAGAAAAGTTCTTATTCATTATAATCAGgtaagtcattactagtgtcctgtccatgcctggaccttctgtgttagcaa Alignment from GeneWise AGCCGCCTTGATGTGTATGTAAAGCTCAATCTAGCAGGAACATCAGTAAAAGTTCTTATACATTATAATCAGGTA- attcaacaatgtttgactggaatacttgacctcctcttttctgattgcagAGCCGCCTTAAAGTGCTATGTTACGCTCAATCTAGCTGGTACATCAGAAAAGTTCTTATTCATTATAATCAGGTAAgtcattactagtgtcctgtccatgcctggaccttctgtgttagcaa #### Loxl4_ID8568_7 --> 2 - 0 Original Alignment ggCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTAT------GAGCGGACCCTGGGTGACTGCCTTGCCCTGGAA-GGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG aagaaataaaggaatggagaggcatctctgtacgggggttgtttttgcagggCTAGGA---ATCCATCTGAGTGAAGTACAATGCAGGGGGTATGAACGGGAGCGTGCCTTGGGTGACTGCCTTGCCCTGGAACGGGTCACCAAACAGTTGTCAGCATGCAAATGGTGCCACTATCA-GTGCAATATTCCAGATATAGGCTTCAGAAACAAGgtgattcacactctattcaagtttcaggtttccctgccaattgtgtggat Alignment from CESAR ggCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGG------ACCCTGGGTGACTGCCTTGCCCTGGAA-GGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG aagaaataaaggaatggagaggcatctctgtacgggggttgtttttgcagggCTAGGA---ATCCATCTGAGTGAAGTACAATGCAGGGGGTATGAACGGGAGCGTGCCTTGGGTGACTGCCTTGCCCTGGAACGGGTCACCAAACAGTTGTCAGCATGCAAATGGTGCCACTA-TCAGTGCAATATTCCAGATATAGGCTTCAGAAACAAGgtgattcacactctattcaagtttcaggtttccctgccaattgtgtggat Alignment from Spaln_aa2Genome GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTAT------GAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG aagaaataaaggaatggagaggcatctctgtacgggggttgtttttgcagGGCTAGGA---ATCCATCTGAGTGAAGTACAATGCAGGGGGTATGAACGGGAGCGTGCCTTGGGTGACTGCCTTGCCCTGGAACGGGTCACCAAACAGTTGTCAGCATGCAAATGGTGCCACTATCAGTGCAATATTCCAGATATAGGCTTCAGAAACAAGgtgattcacactctattcaagtttcaggtttccctgccaattgtgtggat Alignment from Spaln_nt2Genome GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGA------CCCTGGGTGACTGCCTTGCCCTGGAA-GGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG aagaaataaaggaatggagaggcatctctgtacgggggttgtttttgcagGGCTAGGA---ATCCATCTGAGTGAAGTACAATGCAGGGGGTATGAACGGGAGCGTGCCTTGGGTGACTGCCTTGCCCTGGAACGGGTCACCAAACAGTTGTCAGCATGCAAATGGTGCCACTATCA-GTGCAATATTCCAGATATAGGCTTCAGAAACAAGgtgattcacactctattcaagtttcaggtttccctgccaattgtgtggat Alignment from Pairagon GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGG------ACCCTGGGTGACTGCCTTGCCCTGGAA-GGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG aagaaataaaggaatggagaggcatctctgtacgggggttgtttttgcagGGCTAGGA---ATCCATCTGAGTGAAGTACAATGCAGGGGGTATGAACGGGAGCGTGCCTTGGGTGACTGCCTTGCCCTGGAACGGGTCACCAAACAGTTGTCAGCATGCAAATGGTGCCACTATCA-GTGCAATATTCCAGATATAGGCTTCAGAAACAAGgtgattcacactctattcaagtttcaggtttccctgccaattgtgtggat Alignment from Exonerate_protein2genome GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTAT------GAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG aagaaataaaggaatggagaggcatctctgtacgggggttgtttttgcagGGCTAGGA---ATCCATCTGAGTGAAGTACAATGCAGGGGGTATGAACGGGAGCGTGCCTTGGGTGACTGCCTTGCCCTGGAACGGGTCACCAAACAGTTGTCAGCATGCAAATGGTGCCACTATCAGTGCAATATTCCAGATATAGGCTTCAGAAACAAGgtgattcacactctattcaagtttcaggtttccctgccaattgtgtggat Alignment from Exonerate_coding2genome GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTAT------GAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG aagaaataaaggaatggagaggcatctctgtacgggggttgtttttgcagGGCTAGGA---ATCCATCTGAGTGAAGTACAATGCAGGGGGTATGAACGGGAGCGTGCCTTGGGTGACTGCCTTGCCCTGGAACGGGTCACCAAACAGTTGTCAGCATGCAAATGGTGCCACTATCAGTGCAATATTCCAGATATAGGCTTCAGAAACAAGgtgattcacactctattcaagtttcaggtttccctgccaattgtgtggat Alignment from GeneWise -------------------------------------------------GGGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTAT------GAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG AAGAAATAAAGGAATGGAGAGGCATCTCTGTACGGGGGTTGTTTTTGCAGGGCTAGGA---ATCCATCTGAGTGAAGTACAATGCAGGGGGTATGAACGGGAGCGTGCCTTGGGTGACTGCCTTGCCCTGGAACGGGTCACCAAACAGTTGTCAGCATGCAAATGGTGCCACTATCAGTGCAATATTCCAGATATAGGCTTCAGAAACAAGgtgattcacactctattcaagtttcaggtttccctgccaattgtgtggat #### Ltbp3_ID1252_4 --> 0 - 1 Original Alignment TGTGGCAGCAAC-CCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGt ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTA-CATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAAGTGCCCACAGCTTCAGtgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from CESAR TGTGGCAGCAAC-CCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGt ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGT-ACATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAAGTGCCCACAGCTTCAGtgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Spaln_aa2Genome TGTGGCAGCAACCCT-TTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCCtTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAC-ATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Spaln_nt2Genome TGTGGCAGCAACCC-TTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTA-CATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Pairagon TGTGGCAGCAA-CCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTA-CATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Exonerate_protein2genome TGTGGCAGCAAC-CCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGT--AGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAC---ATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from Exonerate_coding2genome TGTGGCAGCAAC-CCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGT--AGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagTGTGGCAGCAACCCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAC---ATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg Alignment from GeneWise --AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT ccattccaaccatcaagctggtgctgataccctgtcccttctgtccctagtgtggcagCAACCCCTTTGCCTGGTCTTACCAAGCAGGAAGATTGCTGTGGTAC-ATAGGTACTGCCTGGGGACCAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagagcataacatggacttacaatttttctgatcatgattagtagttg #### Ltbp3_ID1254_6 --> 2 - 1 Original Alignment atATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCT-GGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagacATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCTCGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATA-TCTAGGTCCTTTCCGCAAACAGTGTATAggtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from CESAR atATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCT-GGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTg caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagacATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCTCGGCTCTTTCCACTGTGTCTGCCCACCTGGTCAT-ATCTAGGTCCTTTCCGCAAACAGTGTATAggtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Spaln_aa2Genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCTCGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATATCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Spaln_nt2Genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTG-GCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCTCGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATATC-TAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Pairagon ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCT-GGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCTCGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATATC-TAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Exonerate_protein2genome ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCTCGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATATCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from Exonerate_coding2genome caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagacataaatgaatgtgtgatgcctgggatgtgtcgtcatggggattgtctgaccaaccctcggctctttccactgtgtctgcccacctggtcatatctaggtcctttccgcaaacagtgtataggtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt Alignment from GeneWise ATATCAACGAATGTGCGATGCCTGGCATGTGTCGCCATGGTGACTGCCTCAACAACCCTGGCTCTTATCGCTGTGTCTGCCCGCCCGGTCATAGCTTGGGTCCCTCGCGCACACAGTGCATTG caggattgattgtttcttgtttcaagtgatgcctttgtgtctgcccacagACATAAATGAATGTGTGATGCCTGGGATGTGTCGTCATGGGGATTGTCTGACCAACCCTCGGCTCTTTCCACTGTGTCTGCCCACCTGGTCATATCTAGGTCCTTTCCGCAAACAGTGTATAGgtaagctcaagaatgagtttggattgactaaaggggagcagatgggtggt #### Ltbp3_ID1258_10 --> 0 - 1 Original Alignment CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tgtagtgccttggattacaaacatgaggataactccggtcttcctcccagCCAGTGAGTGAGGAGCGTCTCTGTACAACAGAGCCACCCTGCCACTGTTACCG-GCCATCTCAGCCTTTCCTTggtgagttggttggtgggggacagactgtacctacaggggtaagcctagct Alignment from CESAR CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAg tgtagtgccttggattacaaacatgaggataactccggtcttcctcccagCCAGTGAGTGAGGAGCGTCTCTGTACAACAGAGCCACCCTGCCACTGTTACC-GGCCATCTCAGCCTTTCCTTggtgagttggttggtgggggacagactgtacctacaggggtaagcctagct Alignment from Spaln_aa2Genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tgtagtgccttggattacaaacatgaggataactccggtcttcctcccagCCAGTGAGTGAGGAGCGTCTCTGTACAACAGAGCCACCCTGCCACTGTTACCGGCCATCTCAGCCTTTCCTTGgtgagttggttggtgggggacagactgtacctacaggggtaagcctagct Alignment from Spaln_nt2Genome CCAGTGAGTGAGGAGCGA-TCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tgtagtgccttggattacaaacatgaggataactccggtcttcctcccagCCAGTGAGTGAGGAGCGTCTCTGTACAACAGAGCCACCCTGCCACTGTTACC-GGCCATCTCAGCCTTTCCTTGgtgagttggttggtgggggacagactgtacctacaggggtaagcctagct Alignment from Pairagon CCAGTGAGTGAGGAGCG-ATCGGTGCAGCAGAGCCACCC---------------------------------- tgtagtgccttggattacaaacatgaggataactccggtcttcctcccagCCAGTGAGTGAGGAGCGTCTCTGTACAACAGAGCCACCCTGCCACTGTTACCGGCCATCTCAGCCTTTCCTTGgtgagttggttggtgggggacagactgtacctacaggggtaagcctagct Alignment from Exonerate_protein2genome CCAGTGAGTGAGGAGCGATCGGTGCAGCAGAGCCACCCCACTACCACCACCTCACCCCCCCGGCCTTACCCAG tgtagtgccttggattacaaacatgaggataactccggtcttcctcccagCCAGTGAGTGAGGAGCGTCTCTGTACAACAGAGCCACCCTGCCACTGTTACCGGCCATCTCAGCCTTTCCTTGgtgagttggttggtgggggacagactgtacctacaggggtaagcctagct Alignment from Exonerate_coding2genome tgtagtgccttggattacaaacatgaggataactccggtcttcctcccagccagtgagtgaggagcgtctctgtacaacagagccaccctgccactgttaccggccatctcagcctttccttggtgagttggttggtgggggacagactgtacctacaggggtaagcctagct Alignment from GeneWise tgtagtgccttggattacaaacatgaggataactccggtcttcctcccagccagtgagtgaggagcgtctctgtacaacagagccaccctgccactgttaccggccatctcagcctttccttggtgagttggttggtgggggacagactgtacctacaggggtaagcctagct #### Ltbp3_ID1262_14 --> 2 - 1 Original Alignment acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCT-GGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagatTTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCACGGCCACTACACATGCAACTGTTATCCTGGTTACA-GCTAAAGGCCTCCAGACCACCAATCTGGGAAggtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from CESAR acCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCT-GGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAg atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagatTTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCACGGCCACTACACATGCAACTGTTATCCTGGTT-ACAGCTAAAGGCCTCCAGACCACCAATCTGGGAAggtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Spaln_aa2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCACGGCCACTACACATGCAACTGTTATCCTGGTTACAGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Spaln_nt2Genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCT-GGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCACGGCCACTACACATGCAACTGTTATCCTGGTTA-CAGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Pairagon ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCC-TGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCACGGCCACTACACATGCAACTGTTATCCTGGTTA-CAGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Exonerate_protein2genome ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCT-GGTCACTACAAATGCAACTGCTATCCTGGCTAC--CGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCACGGCCACTACACATGCAACTGTTATCCTGGTTACAG---CTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from Exonerate_coding2genome atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagatttaaatgagtgcacaaagccccatctgtgtggtgatggtggcttctgcatcaatttcccacggccactacacatgcaactgttatcctggttacagctaaaggcctccagaccaccaatctgggaaggtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg Alignment from GeneWise ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG atttctgacaccagaccctctccttcctagcatgtgtgtcctctgcccagATTTAAATGAGTGCACAAAGCCCCATCTGTGTGGTGATGGTGGCTTCTGCATCAATTTCCCACGGCCACTACACATGCAACTGTTATCCTGGTTACAGCTAAAGGCCTCCAGACCACCAATCTGGGAAGgtaagatgtcatcctacttcccctcctatccttgttggatgagtgcattg #### Ltbp3_ID1270_22 --> 2 - 1 Original Alignment acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAG-TGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGg aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagacACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGCTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTA-TCTTTTAGAGTGTGTAggttggttagactacttttccaatcaaggaaaacagctgtttaggtgtggg Alignment from CESAR acATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAG-TGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGg aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagacACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGCTGCTATTGCAAGCAGGGCTTCTATTTCGATGGT-ATCTTTTAGAGTGTGTAggttggttagactacttttccaatcaaggaaaacagctgtttaacccctgc Alignment from Spaln_aa2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAG-TGCTACTGCAAGCAGGGCTTCTACTACGATG GCAACCT aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGcTGCTATTGCAAGCAGGGCTTCTATTTCGATGgtatcttttagagtgtgtaggttggttagactacttttccaatcaaggaaaacagctgtttagGTGTGGG Alignment from Spaln_nt2Genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAG-TGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGCTGCTATTGCAAGCAGGGCTTCTATTTCGATGG-TATCTTTTAGAGTGTGTAGgttggttagactacttttccaatcaaggaaaacagctgtttaggtgtggg Alignment from Pairagon ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAG-TGCTACTGCAAGCAGGGCTTCTACTACGATG aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGCTGCTATTGCAAGCAGGGCTTCTATTTCGATGgtatcttttagagtgtgtaggttggttagactacttttccaatcaaggaaaacagctgtttaggtgtggg Alignment from Exonerate_protein2genome ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAG-TGCTACTGCAAGCAGGGCTTCTACTACGATG GCAACCT aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGCTGCTATTGCAAGCAGGGCTTCTATTTCGATGgtatcttttagagtgtgtaggttggttagactacttttccaatcaaggaaaacagctgtttagGTGTGGG Alignment from Exonerate_coding2genome aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagacactgatgaatgcatattgtttggggcagagatctgtaaggagggtaaattcgtgaacatgcagcctggctatgagctgctattgcaagcagggcttctatttcgatggtatcttttagagtgtgtaggttggttagactacttttccaatcaaggaaaacagctgtttaggtgtggg Alignment from GeneWise ACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG aaatctgagtgttagcccactggcacctcagccggtgctcctctccacagACACTGATGAATGCATATTGTTTGGGGCAGAGATCTGTAAGGAGGGTAAATTCGTGAACATGCAGCCTGGCTATGAGCTGCTATTGCAAGCAGGGCTTCTATTTCGATGGTATCTTTTAGAGTGTGTAGgttggttagactacttttccaatcaaggaaaacagctgtttaggtgtggg #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGAC-TGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACCTGTTGTTGCCGTCAAGGCCGTGGGTGGGGG---CAGT-CAGACCATGTCCCCCACGTGGTACTggtaaagagattcgaaggcatcacaatccttctttcttagggTCCCAGTGC Alignment from CESAR agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGAC-TGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACCTGTTGTTGCCGTCAAGGCCGTGGGTGGGGG---CAG-TCAGACCATGTCCCCCACGTGGTACTggtaaagagattcgaaggatgactccccctggccctgcagggTCCCAGTGC Alignment from Spaln_aa2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGAC-TGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACcTGTTGTTGCCGTCAAGGCCGTGGGTGGGGGCAGTC----AGACCATGTCCCCCACGTGGTACTGgtaaagagattcgaaggcatcacaatccttctttcttagGGTCCCAGTGC Alignment from Spaln_nt2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGAC-TGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACCTGTTGTTGCCGTCAAGGCCGTGGGTGGGG---GCAGT-CAGACCATGTCCCCCACGTGGTACTGgtaaagagattcgaaggcatcacaatccttctttcttagGGTCCCAGTGC Alignment from Pairagon AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGA-CTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACCTGTTGTTGCCGTCAAGGCCGTGGGTGGGG---GCAGT-CAGACCATGTCCCCCACGTGGTACTGgtaaagagattcgaaggcatcacaatccttctttcttagGGTCCCAGTGC Alignment from Exonerate_protein2genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACCTGTTGTTG---CCGTCAAGGCCGTGGGTGGGGGCAGTCAGACCATGTCCCCCACGTGGTACTGgtaaagagattcgaaggcatcacaatccttctttcttagGGTCCCAGTGC Alignment from Exonerate_coding2genome ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagagcatgccccagaaagatgtgaagtatgctggggacagcaaggagaagatggtatgtgtatgggccccctagtgggacctgccctcacttttgatgacctgttgttgccgtcaaggccgtgggtgggggcagtcagaccatgtcccccacgtggtactggtaaagagattcgaaggcatcacaatccttctttcttagggtcccagtgc Alignment from GeneWise AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACC---------------------------------------GGGTCCCAGTGC ataatagcatattcctcttgtttctcaacacttcttttctgccctgccagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCAAGGAGAAGATGGTATGTGTATGGGCCCCCTAGTGGGACCTGCCCTCACTTTTGATGACCTGTTGTTG---CCGTCAAGGCCGTGGGTGGGGGCAGTCAGACCATGTCCCCCACGTGGTACTGGTAAAGAGATTCGAAGGCATCACAATCCTTCTTTCTTAGGGTCCCAGTGC #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccaggcTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAAT-GTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from CESAR gcTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccaggcTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAA-TGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccagGCTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccagGCTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAAT-GTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Pairagon GCTACCCCAATGAGGAG-GCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccagGCTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAAT-GTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagcttgctccctccagGCTACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from Exonerate_coding2genome gaggtggtgggacgcaatatggatttactcatacagcttgctccctccaggctaccccaatgaggagcgctgcagaggtagtgctggtttcattgcaggaatgttggagcaacacaaggacaaggtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg Alignment from GeneWise GTGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG gaggtggtgggacgcaatatggatttactcatacagCTTGCTCCCTCCAGGC---------TACCCCAATGAGGAGCGCTGCAGAGGTAGTGCTGGTTTCATTGCAGGAATGTTGGAGCAACACAAGGACAAGgtgagaccaaattcatgacaggagtttcattagatgaagaggttttattg #### Macrod1_ID2054_9 --> 0 - 1 Original Alignment GTGGATCGGCTCATCATC-TGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgatagggtcaaagtttaagtaaaatattcccttctgtttctagGTGGATCGACTCATTATCCTGTGTATGCTTGGAGAAAGAAGAGGGCATTT-CAGGGAACATCTTCCACATTATTTCCCAGTAggtaagtataagtagctcttgtacttgaagagaccctttttgttttgcctt Alignment from CESAR GTGGATCGGCTCATCATC-TGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAg ttcacctgatagggtcaaagtttaagtaaaatattcccttctgtttctagGTGGATCGACTCATTATCCTGTGTATGCTTGGAGAAAGAAGAGGGCA-TTTCAGGGAACATCTTCCACATTATTTCCCAGTAggtaagtataagtagctcttgtacttgaagagacccaacctccgtatctct Alignment from Spaln_aa2Genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC--------- ttcacctgatagggtcaaagtttaagtaaaatattcccttctgtttctagGTGGATCGACTCATTATCCTGTGTATGCTTGGAGAAAGAAGAGGGCATTTCAGGGAACATCTTCCACATTATTTCCCAGTAGGTAAGTATAAGtagctcttgtacttgaagagaccctttttgttttgcctt Alignment from Spaln_nt2Genome GTGGATCGGCTCATCATC-TGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgatagggtcaaagtttaagtaaaatattcccttctgtttctagGTGGATCGACTCATTATCCTGTGTATGCTTGGAGAAAGAAGAGGGCATTT-CAGGGAACATCTTCCACATTATTTCCCAGTAGGTaagtataagtagctcttgtacttgaagagaccctttttgttttgcctt Alignment from Pairagon GTGGATCGGCTCATCAT-CTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgatagggtcaaagtttaagtaaaatattcccttctgtttctagGTGGATCGACTCATTATCCTGTGTATGCTTGGAGAAAGAAGAGGGCATTT-CAGGGAACATCTTCCACATTATTTCCCAGTAGGTaagtataagtagctcttgtacttgaagagaccctttttgttttgcctt Alignment from Exonerate_protein2genome GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTA ttcacctgatagggtcaaagtttaagtaaaatattcccttctgtttctagGTGGATCGACTCATTATCCTGTGTATGCTTGGAGAAAGAAGAGGGCATTTCAGGGAACATCTTCCACATTATTTCCCAGTAggtaagtataagtagctcttgtacttgaagagaccctttttgttttgcctt Alignment from Exonerate_coding2genome ttcacctgatagggtcaaagtttaagtaaaatattcccttctgtttctaggtggatcgactcattatcctgtgtatgcttggagaaagaagagggcatttcagggaacatcttccacattatttcccagtaggtaagtataagtagctcttgtacttgaagagaccctttttgttttgcctt Alignment from GeneWise GTGGATCGGCTCATCATCTGTGTGTTCCTGGAGAAGGACGAGGGCATTTACCGGGAGCGCCTTCCCCATTATTTCCCAGTAGCC ttcacctgatagggtcaaagtttaagtaaaatattcccttctgtttctagGTGGATCGACTCATTATCCTGTGTATGCTTGGAGAAAGAAGAGGGCATTTCAGGGAACATCTTCCACATTATTTCCCAGTAGGTaagtataagtagctcttgtacttgaagagaccctttttgttttgcctt #### Map3k11_ID1203_4 --> 2 - 0 Original Alignment CACAACTCATGGCTg acTGCTGGGCACAGGACCCC-CACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTggtacattgagatttcttttgtttctcctctttcagatTGCTGGGCACAGGATCCACCACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGT-GGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAAGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaaattgcatctgcctatgggacataacgaggatacataacattgagtc Alignment from CESAR CACAACTCATGGCTg acTGCTGGGCACAGGACCCC-CACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTggtaatttgagatttcttttgtttctcctctttcagatTGCTGGGCACAGGATCCACCACCGCAGGCCCCATTTTGCTTCTTTATTGCAGC-AGTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAAGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaaattgcatctgcctatgggacataacgaggatacataacattgagtc Alignment from Spaln_aa2Genome CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtacattgagatttcttttgtttctcctctttcagATTGCTGGGCACAGGATCCACCACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAAGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaaattgcatctgcctatgggacataacgaggatacataacattgagtc Alignment from Spaln_nt2Genome CACAACTCATGGCTG ACTGCTGGGCACAGGACCC-CCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtacattgagatttcttttgtttctcctctttcagATTGCTGGGCACAGGATCCACCACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAG-TGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAAGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaaattgcatctgcctatgggacataacgaggatacataacattgagtc Alignment from Pairagon CACAACTCATGGCTG ACTGCTGGGCACAGGACCC-CCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtacattgagatttcttttgtttctcctctttcagATTGCTGGGCACAGGATCCACCACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAG-TGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAAGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaaattgcatctgcctatgggacataacgaggatacataacattgagtc Alignment from Exonerate_protein2genome CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtacattgagatttcttttgtttctcctctttcagATTGCTGGGCACAGGATCCACCACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAAGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaaattgcatctgcctatgggacataacgaggatacataacattgagtc Alignment from Exonerate_coding2genome CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtacattgagatttcttttgtttctcctctttcagATTGCTGGGCACAGGATCCACCACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAAGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaaattgcatctgcctatgggacataacgaggatacataacattgagtc Alignment from GeneWise CACAACTCATGGCTG ACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG CACAACTAATGGCTGgtacattgagatttcttttgtttctcctctttcagATTGCTGGGCACAGGATCCACCACCGCAGGCCCCATTTTGCTTCTTTATTGCAGCAGTGGAAGCCCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTGCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAAGGTTTGTTTGATGATCTGCGGGCTAAGGAAAAGgtaaattgcatctgcctatgggacataacgaggatacataacattgagtc #### Map3k11_ID1204_5 --> 0 - 1 Original Alignment GAACTACTGAGC-CGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ctacattgtgagttgatggctatgtactagccagatgttgttcccctcagGAACTCCTTAGTCCAAGAGGAAGAATTGACATGGGCTGCATGTGTGC-GTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGCTGGCGCAATGGGAGCTAGAGGTTTTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGCCACCTCCGAACTGAGCCAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTAggtaactgctgtgactccaagcagtggcattaaggattactgctttgcaaa Alignment from CESAR GAACTACTGAGC-CGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ctacattgtgagttgatggctatgtactagccagatgttgttcccctcagGAACTCCTTAGTCCAAGAGGAAGAATTGACATGGGCTGCATGTGTG-CGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGCTGGCGCAATGGGAGCTAGAGGTTTTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGCCACCTCCGAACTGAGCCAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTAggtaactgctgtgactccaagcagtggcattaaggattactgctttgcaaa Alignment from Spaln_aa2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ctacattgtgagttgatggctatgtactagccagatgttgttcccctcagGAACTCCTTAGTCCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGCTGGCGCAATGGGAGCTAGAGGTTTTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGCCACCTCCGAACTGAGCCAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTAGgtaactgctgtgactccaagcagtggcattaaggattactgctttgcaaa Alignment from Spaln_nt2Genome GAACTACTGAG-CCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGC------GAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ctacattgtgagttgatggctatgtactagccagatgttgttcccctcagGAACTCCTTAGTCCAAGAGGAAGAATTGACATGGGCTGCATGTGTGC-GTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGCTGGCGCAATGGGAGCTAGAGGTTTTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGCCACCTCCGAACTGAGCCAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTAGgtaactgctgtgactccaagcagtggcattaaggattactgctttgcaaa Alignment from Pairagon GAACTACTGAG-CCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGC------GACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGA------GCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ctacattgtgagttgatggctatgtactagccagatgttgttcccctcagGAACTCCTTAGTCCAAGAGGAAGAATTGACATGGGCTGCATGTGTGC-GTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGCTGGCGCAATGGGAGCTAGAGGTTTTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGCCACCTCCGAACTGAGCCAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTAGgtaactgctgtgactccaagcagtggcattaaggattactgctttgcaaa Alignment from Exonerate_protein2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ctacattgtgagttgatggctatgtactagccagatgttgttcccctcagGAACTCCTTAGTCCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGCTGGCGCAATGGGAGCTAGAGGTTTTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGCCACCTCCGAACTGAGCCAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTAGgtaactgctgtgactccaagcagtggcattaaggattactgctttgcaaa Alignment from Exonerate_coding2genome ctacattgtgagttgatggctatgtactagccagatgttgttcccctcaggaactccttagtccaagaggaagaattgacatgggctgcatgtgtgcgtggtctcaggcagaacagctccagctgagccgccatgagcatttgctggcgcaatgggagctagaggtttttgaacaactgcctgcactgacattactactccagcaggtggatcgagaacaggcacatgtacaccgacggcaggccacctccgaactgagccagctccgagccagagatagtgaagaacgggtcagcatgactttaggtaactgctgtgactccaagcagtggcattaaggattactgctttgcaaa Alignment from GeneWise GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGA------CGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGC------GAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ctacattgtgagttgatggctatgtactagccagatgttgttcccctcagGAACTCCTTAGTCCAAGAGGAAGAATTGACATGGGCTGCATGTGTGCGTGGTCTCAGGCAGAACAGCTCCAGCTGAGCCGCCATGAGCATTTGCTGGCGCAATGGGAGCTAGAGGTTTTTGAACAACTGCCTGCACTGACATTACTACTCCAGCAGGTGGATCGAGAACAGGCACATGTACACCGACGGCAGGCCACCTCCGAACTGAGCCAGCTCCGAGCCAGAGATAGTGAAGAACGGGTCAGCATGACTTTAGgtaactgctgtgactccaagcagtggcattaaggattactgctttgcaaa #### March5_ID7302_4 --> 0 - 1 Original Alignment GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTC-ATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTACATGCTGATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGC-TAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAggtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from CESAR GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTC-ATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAg gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTACATGCTGATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGC-TAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAggtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Spaln_aa2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTC-ATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTAcATGCTGATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGCT-AGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Spaln_nt2Genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGT-CATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTACATGCTGATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGC-TAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Pairagon GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGT-CATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTACATGCTGATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGC-TAGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Exonerate_protein2genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTC-ATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTG--CTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTACATGCTGATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGCT---AGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from Exonerate_coding2genome GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCTGTC-ATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTG--CTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTACATGCTGATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGCT---AGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa Alignment from GeneWise GTTGTAGGCCATAAAGAAGGGCTGGATGTTATGGAGCGAGCTGACCCTTTATTTCTTTTGATTGGACTTCCTACTATTCCT-GTCATGCTGATACTAGGCAAAATGATTCGCTGGGAGGACTATGTGCTTAGACTATGGCGCAAATACTCAAATAAACTACAAATCTTGAACAGTATATTTCCAG gcatctatgaaggtgtgaaagcgactttcaaagatcattttgtttttcagGTTGTAGGCCATAAAGAAGGGCTAGATGTTATGAAGCGAGCTGAGCCTTTATTTCTTCTGACTGGACTTCCTACTATTCCTGTACATGCTGATACTAGGAAAAATGATTCGCTGGGAGGACCATGTGCT-AGACTATGGCGTAAATACACAAATAAACTACAGATCTTGAACAGTATATTTCCAGgtaacacattggtagggtattgcatacaaggcatacatagctaggattaa #### Mark2_ID2106_15 --> 1 - 2 Original Alignment cCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGC-CAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagcCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCCAGCACCAGAAATCCATGTCTGCCTCTGTGC-CCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from CESAR cCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGC-CAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCag cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagcCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCCAGCACCAGAAATCCATGTCTGCCTCTGTG-CCCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCaggtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Spaln_aa2Genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCCAGCACCAGAAATCCATGTCTGCCTCTGTGCCCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Spaln_nt2Genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGC-CAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCCAGCACCAGAAATCCATGTCTGCCTCTGTGC-CCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Pairagon CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCG-CCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCCAGCACCAGAAATCCATGTCTGCCTCTGTGC-CCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Exonerate_protein2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCCAGCACCAGAAATCCATGTCTGCCTCTGTGCCCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from Exonerate_coding2genome CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCCAGCACCAGAAATCCATGTCTGCCTCTGTGCCCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca Alignment from GeneWise CCTAACCATGCCAGGGTCCCGGGCCTCCACGGCTTCTGCTTCTGCCGCAGTCTCTGCGGCCCGGCCCCGCCAGCACCAGAAATCCATGTCTGCCTCCGTACACCCCAACAAGGCCTCTGGGTTGCCCCCCACGGAGAGTAACTGTGAGGTGCCTCGGCCCAG cccatctgactcttaactcagcaggttttttaattcccgtcctttttcagCCTAACCATGCCAGGATCCCGGGCCTCCACAGCTTCTGCTTCTGCCGCAGTTTCAGCGGCCCGGCCCCGCCCAGCACCAGAAATCCATGTCTGCCTCTGTGCCCCCAACAAGGCTTCTGGGTTGCCCCCCACAGAGAGTAACTGTGAGGTGCCTCAGCCCAGgtaagtctacagagatacttatacatctatggcaccatgctggacactca #### Mark2_ID2107_14 --> 0 - 2 Original Alignment AACAGCGTCCTTTCCACC-AGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGG-TAGGGCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACaggtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from CESAR AACAGCGTCCTTTCCACC-AGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACag gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCCAGCACAAACCGAAGCAGGAACTCCCCACTTTTG-GTAGGGCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACaggtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Spaln_aa2Genome CAGCGTC---CTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGT-AGGGCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Spaln_nt2Genome AACAGCGTCCTTTCCACC-AGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGG-TAGGGCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Pairagon -------------------------------------------------GAACAGCGTCCTTTCCA-CCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG GACTAAGTGCACTACTTTAGAGGCAATAATTCTCCTTTTTCTTCATGAAGAACGGTGTCCTTTCCACCCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGG-TAGGGCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Exonerate_protein2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGTAGGGCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from Exonerate_coding2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGTAGGGCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta Alignment from GeneWise AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAG gactaagtgcactactttagaggcaataattctcctttttcttcatgaagAACGGTGTCCTTTCCACCCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGTAGGGCCAGTCTTGGCCAGGCTTCCATTCAGAATGGAAAAGACAGgtataataattaactctggttcctttcccaaagaagtatgctgtgcttta #### Mark2_ID2112_9 --> 0 - 0 Original Alignment GAGCTGCGGGAACGG-GTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG attctctgcaacaacttatatgtcagatcaatttacattctctattgtagGAGCTACGGGAACGGCGTGTTGAGGGGGAAATACCGTATTCCGTTCTACA-ATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaacagacctgagctaacagtcaggaaaggagagcaatgtactaattaa Alignment from CESAR GAGCTGCGGGAACGG-GTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG attctctgcaacaacttatatgtcagatcaatttacattctctattgtagGAGCTACGGGAACGGCGTGTTGAGGGGGAAATACCGTATTCCGTTCTAC-AATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaacagacctgagctaacagtcaggaaaggagagcaatgtactaattaa Alignment from Spaln_aa2Genome GAGCTGCGGGAACGG-GTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG attctctgcaacaacttatatgtcagatcaatttacattctctattgtagGAGCTACGGGAACGGcGTGTTGAGGGGGAAATACCGTATTCCGTTCTACAA-TCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaacagacctgagctaacagtcaggaaaggagagcaatgtactaattaa Alignment from Spaln_nt2Genome GAGCTGCGGGAACGG-GTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG attctctgcaacaacttatatgtcagatcaatttacattctctattgtagGAGCTACGGGAACGGCGTGTTGAGGGGGAAATACCGTATTCCGTTCTACA-ATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaacagacctgagctaacagtcaggaaaggagagcaatgtactaattaa Alignment from Pairagon GAGCTGCGGGAACGG-GTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG attctctgcaacaacttatatgtcagatcaatttacattctctattgtagGAGCTACGGGAACGGCGTGTTGAGGGGGAAATACCGTATTCCGTTCTACA-ATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaacagacctgagctaacagtcaggaaaggagagcaatgtactaattaa Alignment from Exonerate_protein2genome GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG attctctgcaacaacttatatgtcagatcaatttacattctctattgtagGAGCTACGGGAACGGCGTGTTGAGGGGGAAATACCGTATTCCGTTCTACAATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaacagacctgagctaacagtcaggaaaggagagcaatgtactaattaa Alignment from Exonerate_coding2genome attctctgcaacaacttatatgtcagatcaatttacattctctattgtaggagctacgggaacggcgtgttgagggggaaataccgtattccgttctacaatccactgactgtgaaaatctacttaagaaattccttatacttaatcctagtaaaagaggcactctagatgtaacagacctgagctaacagtcaggaaaggagagcaatgtactaattaa Alignment from GeneWise GAGCTGCGGGAACGGGTACTGAGGGGGAAATACCGTATTCCGTTCTACATGTCCACGGACTGTGAAAATCTGCTTAAGAAATTTCTCATACTTAATCCTAGTAAGAGAGGCACTTTAGAG attctctgcaacaacttatatgtcagatcaatttacattctctattgtagGAGCTACGGGAACGGCGTGTTGAGGGGGAAATACCGTATTCCGTTCTACAATCCACTGACTGTGAAAATCTACTTAAGAAATTCCTTATACTTAATCCTAGTAAAAGAGGCACTCTAGATgtaacagacctgagctaacagtcaggaaaggagagcaatgtactaattaa #### Mark2_ID2113_8 --> 0 - 0 Original Alignment GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAA-TTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGCTTCACTTTTGGGAATGTTCTGGACACTTTTT-TGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGAGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from CESAR GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAA-TTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGCTTCACTTTTGGGAATGTTCTGGACACTTTT-TTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGAGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Spaln_aa2Genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGCTTCACTTTTGGGAATGTTCTGGACACTTTTTTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGAGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Spaln_nt2Genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAA-TTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGCTTCACTTTTGGGAATGTTCTGGACACTTT-TTTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGAGTCATTCTTTATACACT------AGGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Pairagon GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAA-TTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGCTTCACTTTTGGGAATGTTCTGGACACTTTTT-TGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGAGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Exonerate_protein2genome GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGCTTCACTTTTGGGAATGTTCTGGACACTTTTTTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGAGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from Exonerate_coding2genome gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagtcagagaagctacttttggatgctgatatgaacattaagattgcagactttggatttagcaataagcttcacttttgggaatgttctggacacttttttggcagtcctccttatgctgctccagagtattatcaagccaaaaagtatgatggccatgaagtagatgtttggagccttggagtcattctttatacactaggatctctgccctttgatggccgaaatttaatggtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc Alignment from GeneWise GCAGAAAACCTGCTCCTGGATGCTGATATGAACATCAAGATTGCAGACTTTGGCTTTAGCAACGAATTCACCTTTGGGAACAAGCTGGATACTTTCTGTGGCAGTCCTCCTTATGCTGCCCCAGAACTTTTCCAGGGCAAAAAGTATGATGGTCCTGAGGTGGATGTCTGGAGCCTGGGAGTCATCCTCTATACACTGGTCAGCGGATCCCTGCCTTTTGATGGACAGAACCTCAAG gagcctgtatgaattgtcaatatccctcgggtattgtccctggcttgtagTCAGAGAAGCTACTTTTGGATGCTGATATGAACATTAAGATTGCAGACTTTGGATTTAGCAATAAGCTTCACTTTTGGGAATGTTCTGGACACTTTTTTGGCAGTCCTCCTTATGCTGCTCCAGAGTATTATCAAGCCAAAAAGTATGATGGCCATGAAGTAGATGTTTGGAGCCTTGGAGTCATTCTTTATACACTA------GGATCTCTGCCCTTTGATGGCCGAAATTTAATGgtacatgaactgagcatgaacagctttttgctttgaggccttcttggacc #### Mark2_ID2115_6 --> 2 - 0 Original Alignment gaGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG cagaacttccctccatgaaacaacgccttcttgtaactaatgttttgcaggtGAGCTGTTTGATTATCTTAGTGGCTCATGGCAGGATGAAAGAAAAGGAGGCTC-AGCCAAATACCACCAGgtgagaatttggcaccagtgtgagaatacagaatgtgaaagcatctccac Alignment from CESAR gaGAGGTGTTTGATTACCTA-GTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG cagaacttccctccatgaaacaacgccttcttgtaactaatgttttgcaggtGAGCTGTTTGATTATCTTAGTGGCTCATGGCAGGATGAAAGAAAAGGAGGCTC-AGCCAAATACCACCAGgtgagaatttggcaccagtgtgagaatacagaatgtgaaagcatctccac Alignment from Spaln_aa2Genome GAGAGGTGTTTGATTAC-CTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG cagaacttccctccatgaaacaacgccttcttgtaactaatgttttgcagGTGAGCTGTTTGATTATcTTAGTGGCTCATGGCAGGATGAAAGAAAAGGAGGCTCA-GCCAAATACCACCAGgtgagaatttggcaccagtgtgagaatacagaatgtgaaagcatctccac Alignment from Spaln_nt2Genome GAGAGGTGTTTGATTACCT-AGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG cagaacttccctccatgaaacaacgccttcttgtaactaatgttttgcagGTGAGCTGTTTGATTATCTTAGTGGCTCATGGCAGGATGAAAGAAAAGGAGGCTC-AGCCAAATACCACCAGgtgagaatttggcaccagtgtgagaatacagaatgtgaaagcatctccac Alignment from Pairagon GAGAGGTGTTTGATTA-CCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG cagaacttccctccatgaaacaacgccttcttgtaactaatgttttgcagGTGAGCTGTTTGATTATCTTAGTGGCTCATGGCAGGATGAAAGAAAAGGAGGCTC-AGCCAAATACCACCAGgtgagaatttggcaccagtgtgagaatacagaatgtgaaagcatctccac Alignment from Exonerate_protein2genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG cagaacttccctccatgaaacaacgccttcttgtaactaatgttttgcagGTGAGCTGTTTGATTATCTTAGTGGCTCATGGCAGGATGAAAGAAAAGGAGGCTCAGCCAAATACCACCAGgtgagaatttggcaccagtgtgagaatacagaatgtgaaagcatctccac Alignment from Exonerate_coding2genome cagaacttccctccatgaaacaacgccttcttgtaactaatgttttgcaggtgagctgtttgattatcttagtggctcatggcaggatgaaagaaaaggaggctcagccaaataccaccaggtgagaatttggcaccagtgtgagaatacagaatgtgaaagcatctccac Alignment from GeneWise cagaacttccctccatgaaacaacgccttcttgtaactaatgttttgcaggtgagctgtttgattatcttagtggctcatggcaggatgaaagaaaaggaggctcagccaaataccaccaggtgagaatttggcaccagtgtgagaatacagaatgtgaaagcatctccac #### Mrpl43_ID9260_2 --> 1 - 1 Original Alignment gGAGTTCGTGGAACGCGAGGTGACCGACTTCGCC-CGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagaGAGTTAGTTGAACGTGAGGTTACTGACTTTGCCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTT-GCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from CESAR gGAGTTCGTGGAACGCGAGGTGACCGACTTCGCC-CGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagaGAGTTAGTTGAACGTGAGGTTACTGACTTTGCCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCT-TGCCTTGCACCATGCCACGAATGGTGGCAGAATACtgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Spaln_aa2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTACTGACTTTGCCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Spaln_nt2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGAC-GGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTACTGACTTTGCCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTG-CCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Pairagon GGAGTTCGTGGAACGCGAGGTGACCGACTTCG-CCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTACTGACTTTGCCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGCCT-TGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Exonerate_protein2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTACTGACTTTGCCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from Exonerate_coding2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTACTGACTTTGCCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata Alignment from GeneWise GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC ggcacaaaacttagaactagcttaatacgtttgactgactttgtccccagAGAGTTAGTTGAACGTGAGGTTACTGACTTTGCCCCAATGGAACCCAGGAGTTGTGGTATATGTGAACTCTTGCCTTGCACCATGCCACGAATGGTGGCAGAATACTgtatgtccagctgaatgagggcaggggtatcaagtatttaatatgtcata #### Ms4a10_ID3085_2 --> 0 - 0 Original Alignment GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACA-GTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACACGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATC-ACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from CESAR GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACA-GTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACACGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGT-ATCACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Spaln_aa2Genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACA-GTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACAcGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCA-CTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Spaln_nt2Genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACA-GTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACACGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTAT-CACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Pairagon GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACA-GTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACACGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTAT-CACTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Exonerate_protein2genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACA-GTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTAT--CCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACACGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCA---CTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from Exonerate_coding2genome GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACA-GTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTAT--CCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACACGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCA---CTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa Alignment from GeneWise GGCTTTCACATCGCCATTGCTTTTGCACACTTGGCCTTTGGTGGCTACTTGATCTCCACA-GTCAAGAATCTGCACCTGGTGGTGTTGAAGTGCTGGTATCCACTCTGGGGAACTGTCTCT gtccaaccacagatcagcattagtaaggctttctgtgtcctcactttcagGGATTTCACATTACCATTGCCTTTGCTCATCTAGCCTTCGGTGGGTACTTGATCTCCACACGTCAAGAATCTGCACCTTGTGGTACTGAAATGTTGGTATCA-CTTTGGGGAACAGTCTCAgtaagggagtgcctatagcaaccagtgaggtgcctacggatgactacaaa #### Ms4a2_ID3243_2 --> 1 - 0 Original Alignment tGCACCTGACATTGAACTCTTGGAA-GCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgaggtctgttcaggacactggtagcgagttcggttttatccctgcagtGCACCTGACATTGAGCTCCTGGAACGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACAT-GCGGACTTTTCTGAAAAAAGAACTTGAGTTCCTGGGTgtattattgttggcttatttgtcaatgtcaaaagcattgccttctccaaa Alignment from CESAR tGCACCTGACATTGAACTCTTGGAA-GCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgaggtctgttcaggacactggtagcgagttcggttttatccctgcagtGCACCTGACATTGAGCTCCTGGAACGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACA-TGCGGACTTTTCTGAAAAAAGAACTTGAGTTCCTGGGTgtattattgttggcttatttgtcaatgtcaaaagcattgccttctccaaa Alignment from Spaln_aa2Genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgaggtctgttcaggacactggtagcgagttcggttttatccctgcagTGCACCTGACATTGAGCTCCTGGAACGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGCGGACTTTTCTGAAAAAAGAACTTGAGTTCCTGGGTgtattattgttggcttatttgtcaatgtcaaaagcattgccttctccaaa Alignment from Spaln_nt2Genome TGCACCTGACATTGAACTCTTGGAA-GCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgaggtctgttcaggacactggtagcgagttcggttttatccctgcagTGCACCTGACATTGAGCTCCTGGAACGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACAT-GCGGACTTTTCTGAAAAAAGAACTTGAGTTCCTGGGTgtattattgttggcttatttgtcaatgtcaaaagcattgccttctccaaa Alignment from Pairagon TGCACCTGACATTGAACTCTTGGAA-GCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgaggtctgttcaggacactggtagcgagttcggttttatccctgcagTGCACCTGACATTGAGCTCCTGGAACGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACAT-GCGGACTTTTCTGAAAAAAGAACTTGAGTTCCTGGGTgtattattgttggcttatttgtcaatgtcaaaagcattgccttctccaaa Alignment from Exonerate_protein2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgaggtctgttcaggacactggtagcgagttcggttttatccctgcagTGCACCTGACATTGAGCTCCTGGAACGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGCGGACTTTTCTGAAAAAAGAACTTGAGTTCCTGGGTgtattattgttggcttatttgtcaatgtcaaaagcattgccttctccaaa Alignment from Exonerate_coding2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgaggtctgttcaggacactggtagcgagttcggttttatccctgcagTGCACCTGACATTGAGCTCCTGGAACGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGCGGACTTTTCTGAAAAAAGAACTTGAGTTCCTGGGTgtattattgttggcttatttgtcaatgtcaaaagcattgccttctccaaa Alignment from GeneWise TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA attgaggtctgttcaggacactggtagcgagttcggttttatccctgcagTGCACCTGACATTGAGCTCCTGGAACGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGCGGACTTTTCTGAAAAAAGAACTTGAGTTCCTGGGTgtattattgttggcttatttgtcaatgtcaaaagcattgccttctccaaa #### Mta2_ID2533_6 --> 0 - 1 Original Alignment GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCT-GATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg agaccattaatatcagcactaaatcacactgagtggtctatttttcccagGAATGTTTCTTTTATTCATTGGTGTATGAGCCTGTGCAGAAAACACTACTCACACGATCAAGGGGAGAGCAGGGTTGGTTGCACAT-CCAAGCTGCAATTCCAGATCATTTGGCAGAGggtaagtaaaagtctggcttgaatataatttgttctctcaactatatcaat Alignment from CESAR GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCT-GATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg agaccattaatatcagcactaaatcacactgagtggtctatttttcccagGAATGTTTCTTTTATTCATTGGTGTATGAGCCTGTGCAGAAAACACTACTCACACGATCAAGGGGAGAGCAGGGTTGGTTGCACA-TCCAAGCTGCAATTCCAGATCATTTGGCAGAGggtaagtaaaagtctggcttgaatataatttgttctctcaactatatcaat Alignment from Spaln_aa2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG agaccattaatatcagcactaaatcacactgagtggtctatttttcccagGAATGTTTCTTTTATTCATTGGTGTATGAGCCTGTGCAGAAAACACTACTCACACGATCAAGGGGAGAGCAGGGTTGGTTGCACATCCAAGCTGCAATTCCAGATCATTTGGCAGAGGgtaagtaaaagtctggcttgaatataatttgttctctcaactatatcaat Alignment from Spaln_nt2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCT-GATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG agaccattaatatcagcactaaatcacactgagtggtctatttttcccagGAATGTTTCTTTTATTCATTGGTGTATGAGCCTGTGCAGAAAACACTACTCACACGATCAAGGGGAGAGCAGGGTTGGTTGCACA-TCCAAGCTGCAATTCCAGATCATTTGGCAGAGGgtaagtaaaagtctggcttgaatataatttgttctctcaactatatcaat Alignment from Pairagon GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGC-TGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG agaccattaatatcagcactaaatcacactgagtggtctatttttcccagGAATGTTTCTTTTATTCATTGGTGTATGAGCCTGTGCAGAAAACACTACTCACACGATCAAGGGGAGAGCAGGGTTGGTTGCACA-TCCAAGCTGCAATTCCAGATCATTTGGCAGAGGgtaagtaaaagtctggcttgaatataatttgttctctcaactatatcaat Alignment from Exonerate_protein2genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG agaccattaatatcagcactaaatcacactgagtggtctatttttcccagGAATGTTTCTTTTATTCATTGGTGTATGAGCCTGTGCAGAAAACACTACTCACACGATCAAGGGGAGAGCAGGGTTGGTTGCACATCCAAGCTGCAATTCCAGATCATTTGGCAGAGGgtaagtaaaagtctggcttgaatataatttgttctctcaactatatcaat Alignment from Exonerate_coding2genome agaccattaatatcagcactaaatcacactgagtggtctatttttcccaggaatgtttcttttattcattggtgtatgagcctgtgcagaaaacactactcacacgatcaaggggagagcagggttggttgcacatccaagctgcaattccagatcatttggcagagggtaagtaaaagtctggcttgaatataatttgttctctcaactatatcaat Alignment from GeneWise GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGG agaccattaatatcagcactaaatcacactgagtggtctatttttcccagGAATGTTTCTTTTATTCATTGGTGTATGAGCCTGTGCAGAAAACACTACTCACACGATCAAGGGGAGAGCAGGGTTGGTTGCACATCCAAGCTGCAATTCCAGATCATTTGGCAGAGGgtaagtaaaagtctggcttgaatataatttgttctctcaactatatcaat #### Mta2_ID2534_7 --> 2 - 2 Original Alignment gaGAATCAGATAATCGAAACCAACAGAAGATG-GAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctaggaGAGTCAGATAACAGAAACCAACAGATGATGCGAGATGAAAGTCTGGGACCCAGGAAATCCAC-TACAGACCAGCAGAATGACCAGTTCCTAATTGTGGCTcggtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from CESAR gaGAATCAGATAATCGAAACCAACAGAAGATG-GAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctaggaGAGTCAGATAACAGAAACCAACAGATGATGCGAGATGAAAGTCTGGGACCCAGGAAATCCAC-TACAGACCAGCAGAATGACCAGTTCCTAATTGTGGCTcggtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Spaln_aa2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGCGAGATGAAAGTCTGGGACCCAGGAAATCCACTACAGACCAGCAGAATGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Spaln_nt2Genome GAGAATCAGATAATCGAAACCAACAGAAGATG-GAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGCGAGATGAAAGTCTGGGACCCAGGAAATCCACT-ACAGACCAGCAGAATGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Pairagon GAGAATCAGATAATCGAAACCAACAGAAGATG-GAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGCGAGATGAAAGTCTGGGACCCAGGAAATCCACT-ACAGACCAGCAGAATGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Exonerate_protein2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGCGAGATGAAAGTCTGGGACCCAGGAAATCCACTACAGACCAGCAGAATGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from Exonerate_coding2genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGCGAGATGAAAGTCTGGGACCCAGGAAATCCACTACAGACCAGCAGAATGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat Alignment from GeneWise GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG gtgcaacttctacagcccaaagaggttctgccagcccttatcatccctagGAGAGTCAGATAACAGAAACCAACAGATGATGCGAGATGAAAGTCTGGGACCCAGGAAATCCACTACAGACCAGCAGAATGACCAGTTCCTAATTGTGGCTCGgtactgaaaggttaggaggacacataggtgcactacatcttattctggat #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGC-TCAATT------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGAT---ATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCCTCCATTTCCATTCAAAAGTCCAGCCTAGACATGA-TGCA------GCTACCACGGGTATAATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGC-AGC------TCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCCTCCATTTCCATTCAAAAGTCCAGCCTAGACATG-ATGCAGCTACCACGGGTATA---ATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Spaln_aa2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCAC---ATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagCGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCCTCCATTTCCATTCAAAAGTCCAGCCTAGACATGATGCAGCTACCACGGGTATAATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Spaln_nt2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGC-------TCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATA-TCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagCGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCCTCCATTTCCATTCAAAAGTCCAGCCTAGACATGA-TGCAGCTACCACG----GGTATAATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Pairagon gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcgctgtgaggacttttgtacgggctctagattgtaattgcctccatttccattcaaaagtccagcctagacatgatgcagctaccacgggtataatcaccctggtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Exonerate_protein2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGC---TCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagCGCTGTGAGGACTTTTGTACGGGCTCTAGATTGTAATTGCCTCCATTTCCATTCAAAAGTCCAGCCTAGACATGATGCAGCTACCACGGGTATAATCACCCTGgtaagtaccaagtcacaaatatttttgtatgataagccaagtgtggagta Alignment from Exonerate_coding2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAAT gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcgctgtgaggacttttgtacgggctctagattgtaattgcctccatttccattcaaaagtccagcctagacatgatgcagctaccacgggtataatcaccctggtaagTACCAAGTCACAAATATTTTTGTATGATAAGCCAAGTGTGGAGTA Alignment from GeneWise ACCTTCGCGAGAGCCCTAGACTGCAGCAGC---TCAAT gccaatatggcatccaacatgaggaatcacactgtggtgtgtctccacagcgctgtgaggacttttgtacgggctctagattgtaattgcctccatttccattcaaaagtccagcctagacatgatgcagctaccacgggtataatcaccctggtaagtaccaagTCACAAATATTTTTGTATGATAAGCCAAGTGTGGAGTA #### Mta2_ID2537_10 --> 0 - 0 Original Alignment CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaatcaaacactactcagccttcttctgttccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAG-CCGGTATATTCAGCAGgtaagtcgagatacaagcaaaccagaatcaaaggtgatcagcagtctgtt Alignment from CESAR CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaatcaaacactactcagccttcttctgttccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA-GCCGGTATATTCAGCAGgtaagtcgagatacaagcaaaccagaatcaaaggtgatcagcagtctgtt Alignment from Spaln_aa2Genome CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaatcaaacactactcagccttcttctgttccagCTACCCTGGAAGTCAcCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGC-CGGTATATTCAGCAGgtaagtcgagatacaagcaaaccagaatcaaaggtgatcagcagtctgtt Alignment from Spaln_nt2Genome CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaatcaaacactactcagccttcttctgttccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAG-CCGGTATATTCAGCAGgtaagtcgagatacaagcaaaccagaatcaaaggtgatcagcagtctgtt Alignment from Pairagon CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaatcaaacactactcagccttcttctgttccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAG-CCGGTATATTCAGCAGgtaagtcgagatacaagcaaaccagaatcaaaggtgatcagcagtctgtt Alignment from Exonerate_protein2genome CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACA--GACCGGTATATTCAGCAG aaaaagacaaggtgaccaatcaaacactactcagccttcttctgttccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGC---CGGTATATTCAGCAGgtaagtcgagatacaagcaaaccagaatcaaaggtgatcagcagtctgtt Alignment from Exonerate_coding2genome CTACCCTGGAAGTCA-CTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCA aaaaagacaaggtgaccaatcaaacactactcagccttcttctgttccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGCCGGTATATTCAGCAGgtaagtcgagatacaagcaaaccagaatcaaaggtgatcagcagtctgtt Alignment from GeneWise CTACCCTGGAAG-TCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG aaaaagacaaggtgaccaatcaaacactactcagccttcttctgttccagCTACCCTGGAAGTCACCTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGC-CGGTATATTCAGCAGgtaagtcgagatacaagcaaaccagaatcaaaggtgatcagcagtctgtt #### Mta2_ID2539_12 --> 1 - 1 Original Alignment tACCAAGCCAAACCCTAACCAGATCATTTCT-GTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagcACAAAGCCAAATCCAAACCAGATCATCTCTCGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAG-ACTGACTTGTGAGAGCTGTCATagtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from CESAR tACCAAGCCAAACCCTAACCAGATCATTTCT-GTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagcACAAAGCCAAATCCAAACCAGATCATCTCTCGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAG-ACTGACTTGTGAGAGCTGTCATagtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Spaln_aa2Genome TACCAAGCCAAACCCTAACCAGATCATTTCT-GTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCAAACCAGATCATCTCTcGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGA-CTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Spaln_nt2Genome TACCAAGCCAAACCCTAACCAGATCATTTCT-GTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCAAACCAGATCATCTCTCGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAA-AGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Pairagon TACCAAGCCAAACCCTAACCAGATCATTTCT-GTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCAAACCAGATCATCTCTCGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGA-CTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Exonerate_protein2genome TACCAAGCCAAACCCTAACCAGATCATTTCT-GTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAG--GGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCAAACCAGATCATCTCTCGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGA---CTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from Exonerate_coding2genome AAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTATACCAAGCCAAACCCTAACCAGATCATTTCTGT---GGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA GCCTGCAGTAGGAGAAAGTCTAGTGGCCTTTTTTTTTTCATGTAACTAAGCACAAAGCCAAATCCAAACCAGATCATCTCT--CGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAA-AGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt Alignment from GeneWise TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA gcctgcagtaggagaaagtctagtggccttttttttttcatgtaactaagCACAAAGCCAAATCCAAACCAGATCATCTCTCGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAAGACTGACTTGTGAGAGCTGTCATAgtgagttacacatctgatatatccctactattaggtatttatggtttgtt #### Mta2_ID2540_13 --> 2 - 0 Original Alignment ccACACAGTCTGCCCAGTGGTATGCCTGGGGACCC-CCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagcaACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTT-TTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from CESAR ccACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCT-AACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagcaACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCT-TTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Spaln_aa2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Spaln_nt2Genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACC-CCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCT-TTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Pairagon CCACACAGTCTGCCCAGTGGTATGCCTGGGGACC-CCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTT-TTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Exonerate_protein2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from Exonerate_coding2genome CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga Alignment from GeneWise CCACACAGTCTGCCCAGTGGTATGCCTGGGGACCCCCTAACATGCAGTGCCGACTTTGTGCTTCCTGTTGGATTTATTGGAAGAAATACGGGGGACTGAAGACCCCTACCCAACTTGAAGGGGCTGCTCGGGGCACCACA gaatcactgtaatacagtaattcttttatctctgatttcactcttcccagCAACACAGTCTGCACAGTGGTATGCCTGGGGACCACCCCAATATGCAGTACCGACTTTGTGCTTCTTTTGGGTTTATTGGAAGACATATGGAGGCTTGAAAACTCCTACGCAGCTAGAAGGAGCAGCTCGGATAACAACCgtaagggtgagtgtgtctggagcgaccataagaactgaaggtaaggaaga #### Mta2_ID2542_15 --> 2 - 1 Original Alignment gcTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTG-AAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg gctggtgaccctggagacctttctctcccctttcctttcttcttctctaggcTCAATCCGATTTCCTAAGTCTGCCAAGACTCCATTGCAAAATTCACCCTCTTGTGCGGCTGCCTTTGG-AACTATCATCAAAGATCTGggtacagaggatcacattcccaagctatgtcactgttcattgtttttccca Alignment from CESAR gcTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTG-AAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGg gctggtgaccctggagacctttctctcccctttcctttcttcttctctaggcTCAATCCGATTTCCTAAGTCTGCCAAGACTCCATTGCAAAATTCACCCTCTTGTGCGGCTGCCTTTG-GAACTATCATCAAAGATCTGggtacagaggatcacattcccaagctatgtcacgaatttctaattctcttt Alignment from Spaln_aa2Genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctcccctttcctttcttcttctctagGCTCAATCCGATTTCCTAAGTCTGCCAAGACTCCATTGCAAAATTCACCCTCTTGTGCGGCTGCCTTTGGAACTATCATCAAAGATCTGGgtacagaggatcacattcccaagctatgtcactgttcattgtttttccca Alignment from Spaln_nt2Genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTG-AAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctcccctttcctttcttcttctctagGCTCAATCCGATTTCCTAAGTCTGCCAAGACTCCATTGCAAAATTCACCCTCTTGTGCGGCTGCCTTTGG-AACTATCATCAAAGATCTGGgtacagaggatcacattcccaagctatgtcactgttcattgtttttccca Alignment from Pairagon GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTG-AAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctcccctttcctttcttcttctctagGCTCAATCCGATTTCCTAAGTCTGCCAAGACTCCATTGCAAAATTCACCCTCTTGTGCGGCTGCCTTTGG-AACTATCATCAAAGATCTGGgtacagaggatcacattcccaagctatgtcactgttcattgtttttccca Alignment from Exonerate_protein2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctcccctttcctttcttcttctctagGCTCAATCCGATTTCCTAAGTCTGCCAAGACTCCATTGCAAAATTCACCCTCTTGTGCGGCTGCCTTTGGAACTATCATCAAAGATCTGGgtacagaggatcacattcccaagctatgtcactgttcattgtttttccca Alignment from Exonerate_coding2genome GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTGG gctggtgaccctggagacctttctctcccctttcctttcttcttctctagGCTCAATCCGATTTCCTAAGTCTGCCAAGACTCCATTGCAAAATTCACCCTCTTGTGCGGCTGCCTTTGGAACTATCATCAAAGATCTGGgtacagaggatcacattcccaagctatgtcactgttcattgtttttccca Alignment from GeneWise GCTCGATCCGACTTCCTAAGGCTGCCAAGACGCCACTGAAAATTCACCCTCTGGTGCGGCTGCCCTTGGCAACTATCGTCAAAGATCTG--------------------------------------------------- gctggtgaccctggagacctttctctcccctttcctttcttcttctctagGCTCAATCCGATTTCCTAAGTCTGCCAAGACTCCATTGCAAAATTCACCCTCTTGTGCGGCTGCCTTTGGAACTATCATCAAAGATCTGGGTACAGAGGATCACATTCCCAAGCTATGTCACTGTTCATTGTTTTTCCCA #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCA-ATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatcacattcccaagctatgtcacgaatttctaattctctttttaggtGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCACATCAACAGAAACCAACTGACTCAGAACCGAG-CCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCA-ATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT agaggatcacattcccaagctatgtcacgaatttctaattctctttttaggtGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCACATCAACAGAAACCAACTGACTCAGAACC-GAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCACATCAACAGAAACCAACTGACTCAGAACCGAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCA-ATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCACATCAACAGAAACCAACTGACTCAGAACCGA-GCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCA-ATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCACATCAACAGAAACCAACTGACTCAGAACCGA-GCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCACATCAACAGAAACCAACTGACTCAGAACCGAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gaaggatcacattcccaagctatgtcacgaatttctaattctctttttagGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCACATCAACAGAAACCAACTGACTCAGAACCGAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt Alignment from GeneWise ----------------------------------------------CTGGTGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT GAAGGATCACATTCCCAAGCTATGTCACGAATTTCTAATTCTCTTTTTAGGTGCACAGTCACTTCTAAAGCCAAAAACACCCAGGGGTACTGAGACACCACATCAACAGAAACCAACTGACTCAGAACCGAGCCTGGGGGGAATTATGGTGAAACGCTCATACGAGACAgtagggtgaccagaacaagagcataccagtaattaccttacttttttctt #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCT-TCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag taaattcccagccacatccagggatggcctctcttggtggactgtcccagATGGCAGGTGCAGGGGTCCCCTTCTCTGTGAATGGAAGGCCCCTGGCTCTCAGGGATTCGTTCAAGCTCTCAGCCAGCAGCCAAGCGCC-AAAATTGAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTaggtaagtaatgagtgaatcaggaaaagctgataaccaatcatatctggaag Alignment from CESAR ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCT-TCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag taaattcccagccacatccagggatggcctctcttggtggactgtcccagATGGCAGGTGCAGGGGTCCCCTTCTCTGTGAATGGAAGGCCCCTGGCTCTCAGGGATTCGTTCAAGCTCTCAGCCAGCAGCCAAGCGCC-AAAATTGAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTaggtaagtaatgagtgaatcaggaaaagctgataaccaatcatatctggaag Alignment from Spaln_aa2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCT-TCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccagccacatccagggatggcctctcttggtggactgtcccagATGGCAGGTGCAGGGGTCCCCTTCTCTGTGAATGGAAGGCCCCTGGCTcTCAGGGATTCGTTCAAGCTCTCAGCCAGCAGCCAAGCGCCA-AAATTGAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagtaatgagtgaatcaggaaaagctgataaccaatcatatctggaag Alignment from Spaln_nt2Genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCT-TCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccagccacatccagggatggcctctcttggtggactgtcccagATGGCAGGTGCAGGGGTCCCCTTCTCTGTGAATGGAAGGCCCCTGGCTCTCAGGGATTCGTTCAAGCTCTCAGCCAGCAGCCAAGCGCCA-AAATTGAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagtaatgagtgaatcaggaaaagctgataaccaatcatatctggaag Alignment from Pairagon ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCT-TCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccagccacatccagggatggcctctcttggtggactgtcccagATGGCAGGTGCAGGGGTCCCCTTCTCTGTGAATGGAAGGCCCCTGGCTCTCAGGGATTCGTTCAAGCTCTCAGCCAGCAGCCAAGCGCCA-AAATTGAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagtaatgagtgaatcaggaaaagctgataaccaatcatatctggaag Alignment from Exonerate_protein2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccagccacatccagggatggcctctcttggtggactgtcccagATGGCAGGTGCAGGGGTCCCCTTCTCTGTGAATGGAAGGCCCCTGGCTCTCAGGGATTCGTTCAAGCTCTCAGCCAGCAGCCAAGCGCCAAAATTGAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagtaatgagtgaatcaggaaaagctgataaccaatcatatctggaag Alignment from Exonerate_coding2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccagccacatccagggatggcctctcttggtggactgtcccagATGGCAGGTGCAGGGGTCCCCTTCTCTGTGAATGGAAGGCCCCTGGCTCTCAGGGATTCGTTCAAGCTCTCAGCCAGCAGCCAAGCGCCAAAATTGAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagtaatgagtgaatcaggaaaagctgataaccaatcatatctggaag Alignment from GeneWise ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAG------AAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG taaattcccagccacatccagggatggcctctcttggtggactgtcccagATGGCAGGTGCAGGGGTCCCCTTCTCTGTGAATGGAAGGCCCCTGGCT------CTCAGGGATTCGTTCAAGCTCTCAGCCAGCAGCCAAGCGCCAAAATTGAACCCTGCTGAGGCTCCCAATCCAGTGGTATTTGTAGCTACGAAGGATGCTAGgtaagtaatgagtgaatcaggaaaagctgataaccaatcatatctggaag #### Myrf_ID2721_16 --> 1 - 0 Original Alignment cCATGCAGGGAGCCAGTTTAGC-CGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagcCATGCTGGTAGTGAATTTAGTCAGGACTGGCAGTGTCCCTCACAAAAAAAGGCCCCCCA-GCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from CESAR cCATGCAGGGAGCCAGTTTAGC-CGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagcCATGCTGGTAGTGAATTTAGTCAGGACTGGCAGTGTCCCTCACAAAAAAAGGCCCC-CCAGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Spaln_aa2Genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTCAGGACTGGCAGTGTCCCTCACAAAAAAAGGCCCCCCAGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Spaln_nt2Genome CCATGCAGGGAGCCAGTTTAGCCGGG-CAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTCAGGACTGGCAGTGTCCCTCACAAAAAAAGGCCCCC-CAGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Pairagon CCATGCAGGGAGCCAGTTTAGCC-GGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTCAGGACTGGCAGTGTCCCTCACAAAAAAAGGCCCCCC-AGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Exonerate_protein2genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagCCATGCTGGTAGTGAATTTAGTCAGGACTGGCAGTGTCCCTCACAAAAAAAGGCCCCCCAGCTTGCCAATAAGgcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from Exonerate_coding2genome GAGGCCCCCTAAAC GGAAAGATCCGCAGgtgttttatgcatttactaaattgaatgttttgtagccatgctggtagtgaatttagtcaggactggcagtgtccctcacaaaaaaaggccccccagcttgccaataaggcaagtcggtccaacagccacatacacttctacccattcatagagttgcc Alignment from GeneWise GGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAGTCA ggaaagatccgcaggtgttttatgcatttactaaattgaatgttttgtagccatgctggtagtgaatttagtcagGACTGGCAGTGTCCCTCACAAAAAAAGGCCCCCCAGCTTGCCAATAAGGCAAgtcggtccaacagccacatacacttctacccattcatagagttgcc #### Myrf_ID2722_15 --> 0 - 2 Original Alignment GAGCGAATCTTCATGGAGAATGTGGGGGCTGTG-AAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCag tggtgggtggataaaatgagcagttcccgttcctataatcacatttacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGA-TCGCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCaggtagggcaacaaacaatatggacagtagactaaggtaagaagaggagggg Alignment from CESAR GAGCGAATCTTCATGGAGAATGTGGGGGCTGTG-AAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCag tggtgggtggataaaatgagcagttcccgttcctataatcacatttacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAG-ATCGCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCaggtagggcaacaaacaatatggacagtagactaaggtaagaagaggagggg Alignment from Spaln_aa2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG tggtgggtggataaaatgagcagttcccgttcctataatcacatttacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGATCGCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtagggcaacaaacaatatggacagtagactaaggtaagaagaggagggg Alignment from Spaln_nt2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTG-AAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG tggtgggtggataaaatgagcagttcccgttcctataatcacatttacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGA-TCGCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtagggcaacaaacaatatggacagtagactaaggtaagaagaggagggg Alignment from Pairagon GAGCGAATCTTCATGGAGAATGTGGGGGCTGTG-AAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG tggtgggtggataaaatgagcagttcccgttcctataatcacatttacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGA-TCGCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtagggcaacaaacaatatggacagtagactaaggtaagaagaggagggg Alignment from Exonerate_protein2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG tggtgggtggataaaatgagcagttcccgttcctataatcacatttacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGATCGCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtagggcaacaaacaatatggacagtagactaaggtaagaagaggagggg Alignment from Exonerate_coding2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG tggtgggtggataaaatgagcagttcccgttcctataatcacatttacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGATCGCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtagggcaacaaacaatatggacagtagactaaggtaagaagaggagggg Alignment from GeneWise GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAG tggtgggtggataaaatgagcagttcccgttcctataatcacatttacagGAGCGAATCTTCATGGAGAATGTGGGGGTTGTACAAGGAGTTATGCAAACTGAGAGACAACCTAGAGATCGCATTGATGAGTTGGAACGATGGAGCCACAAGTTGGCTAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACCGGCAGCTCAGGGGCTTTCAGgtagggcaacaaacaatatggacagtagactaaggtaagaagaggagggg #### Myrf_ID2724_13 --> 0 - 1 Original Alignment GTGGACACCACCGAGCAGCTGAAG-AGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg gtgcccctcaaccactggagccctgtgcctgtccttattttgctctgtagGTGGATGCCACTGAACACCTAAAGCAGGATCTCACGGACACGTCTAGTGCACT-CAGGTACAAGCCAGAGTTTCCTACTAGTGCAGGCATTGAAGCCACTGCACCAGAGACTggtaagtatgtgtgtaagggttcctagctatgcctggctttttcttgttaa Alignment from CESAR GTGGACACCACCGAGCAGCTGAAG-AGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAg gtgcccctcaaccactggagccctgtgcctgtccttattttgctctgtagGTGGATGCCACTGAACACCTAAAGCAGGATCTCACGGACACGTCTAGTGCAC-TCAGGTACAAGCCAGAGTTTCCTACTAGTGCAGGCATTGAAGCCACTGCACCAGAGACTggtaagtatgtgtgtaagggttcctagctatgcctggctttttcttgttaa Alignment from Spaln_aa2Genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgcccctcaaccactggagccctgtgcctgtccttattttgctctgtagGTGGATGCCACTGAACACCTAAAGCAGGATCTCACGGACACGTCTAGTGCACTCAGGTACAAGCCAGAGTTTCCTACTAGTGCAGGCATTGAAGCCACTGCACCAGAGACTGgtaagtatgtgtgtaagggttcctagctatgcctggctttttcttgttaa Alignment from Spaln_nt2Genome GTGGACACCACCGAGCAGCTGAAG-AGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgcccctcaaccactggagccctgtgcctgtccttattttgctctgtagGTGGATGCCACTGAACACCTAAAGCAGGATCTCACGGACACGTCTAGTGCACT-CAGGTACAAGCCAGAGTTTCCTACTAGTGCAGGCATTGAAGCCACTGCACCAGAGACTGgtaagtatgtgtgtaagggttcctagctatgcctggctttttcttgttaa Alignment from Pairagon GTGGACACCACCGAGCAGCTGAAG-AGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgcccctcaaccactggagccctgtgcctgtccttattttgctctgtagGTGGATGCCACTGAACACCTAAAGCAGGATCTCACGGACACGTCTAGTGCACT-CAGGTACAAGCCAGAGTTTCCTACTAGTGCAGGCATTGAAGCCACTGCACCAGAGACTGgtaagtatgtgtgtaagggttcctagctatgcctggctttttcttgttaa Alignment from Exonerate_protein2genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgcccctcaaccactggagccctgtgcctgtccttattttgctctgtagGTGGATGCCACTGAACACCTAAAGCAGGATCTCACGGACACGTCTAGTGCACTCAGGTACAAGCCAGAGTTTCCTACTAGTGCAGGCATTGAAGCCACTGCACCAGAGACTGgtaagtatgtgtgtaagggttcctagctatgcctggctttttcttgttaa Alignment from Exonerate_coding2genome GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgcccctcaaccactggagccctgtgcctgtccttattttgctctgtagGTGGATGCCACTGAACACCTAAAGCAGGATCTCACGGACACGTCTAGTGCACTCAGGTACAAGCCAGAGTTTCCTACTAGTGCAGGCATTGAAGCCACTGCACCAGAGACTGgtaagtatgtgtgtaagggttcctagctatgcctggctttttcttgttaa Alignment from GeneWise GTGGACACCACCGAGCAGCTGAAGAGGATCTCTCGGATGCGGCTGGTGCACTACAGATACAAGCCTGAGTTCGCTGCTAGCGCAGGCATTGAAGCCACCGCACCGGAGACAG gtgcccctcaaccactggagccctgtgcctgtccttattttgctctgtagGTGGATGCCACTGAACACCTAAAGCAGGATCTCACGGACACGTCTAGTGCACTCAGGTACAAGCCAGAGTTTCCTACTAGTGCAGGCATTGAAGCCACTGCACCAGAGACTGgtaagtatgtgtgtaagggttcctagctatgcctggctttttcttgttaa #### Myrf_ID2725_12 --> 0 - 0 Original Alignment GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAA-CGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aaataattgactcaccatgattgagataatacgtcttttgttgctttcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACCGGGCACAGCTA---GATACAGTTTTTCACC-TGGCCGTGTGGGTATTAACTCTGAGTTGCCTGATGATGCATTAGTTGTACATGGGAACATAAAGGTAATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtaacatgtgcagagatgcacatgcatacatgggtttggtggcatagttg Alignment from CESAR GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAA-CGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aaataattgactcaccatgattgagataatacgtcttttgttgctttcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACCGGGCACAGCTA---GATACAGTTTTTCAC-CTGGCCGTGTGGGTATTAACTCTGAGTTGCCTGATGATGCATTAGTTGTACATGGGAACATAAAGGTAATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtaacatgtgcagagatgcacatgcatacatgggtttggtggcatagttg Alignment from Spaln_aa2Genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aaataattgactcaccatgattgagataatacgtcttttgttgctttcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACCGGGCACAGCTAGATACAGT---TTTTCACCTGGCCGTGTGGGTATTAACTCTGAGTTGCCTGATGATGCATTAGTTGTACATGGGAACATAAAGGTAATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtaacatgtgcagagatgcacatgcatacatgggtttggtggcatagttg Alignment from Spaln_nt2Genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAAC-GGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aaataattgactcaccatgattgagataatacgtcttttgttgctttcagGCCTCTAACCCAGGGCCATT---GAGTGATAGTGATGTGTTATGGCAACCGGGCACAGCT---AGATACAGTTTTTCACC-TGGCCGTGTGGGTATTAACTCTGAGTTGCCTGATGATGCATTAGTTGTACATGGGAACATAAAGGTAATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtaacatgtgcagagatgcacatgcatacatgggtttggtggcatagttg Alignment from Pairagon GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAA-CGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aaataattgactcaccatgattgagataatacgtcttttgttgctttcagGCCTCTAACCCAGGGCCATT---GAGTGATAGTGATGTGTTATGGCAACCGGGCACAGCT---AGATACAGTTTTTCACC-TGGCCGTGTGGGTATTAACTCTGAGTTGCCTGATGATGCATTAGTTGTACATGGGAACATAAAGGTAATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtaacatgtgcagagatgcacatgcatacatgggtttggtggcatagttg Alignment from Exonerate_protein2genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aaataattgactcaccatgattgagataatacgtcttttgttgctttcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACCGGGCACAGCTAGATACAGT---TTTTCACCTGGCCGTGTGGGTATTAACTCTGAGTTGCCTGATGATGCATTAGTTGTACATGGGAACATAAAGGTAATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtaacatgtgcagagatgcacatgcatacatgggtttggtggcatagttg Alignment from Exonerate_coding2genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aaataattgactcaccatgattgagataatacgtcttttgttgctttcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACCGGGCACAGCTAGATACAGT---TTTTCACCTGGCCGTGTGGGTATTAACTCTGAGTTGCCTGATGATGCATTAGTTGTACATGGGAACATAAAGGTAATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtaacatgtgcagagatgcacatgcatacatgggtttggtggcatagttg Alignment from GeneWise GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG aaataattgactcaccatgattgagataatacgtcttttgttgctttcagGCCTCTAACCCAGGGCCATTG---AGTGATAGTGATGTGTTATGGCAACCGGGCACAGCTAGATACAGT---TTTTCACCTGGCCGTGTGGGTATTAACTCTGAGTTGCCTGATGATGCATTAGTTGTACATGGGAACATAAAGGTAATGGGTTCCCTTATGCACCTTTCTGATCTGCAGGCCAAGGACCATGTGCAGGAGgtaacatgtgcagagatgcacatgcatacatgggtttggtggcatagttg #### Myrf_ID2732_6 --> 1 - 1 Original Alignment aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCC-AACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg gc actactctagtgacaaggaggaatgaaggctcacttgcattgtctttcagaCTACCACCACACCCTTCCAAGAAGAGGAAGCATTCTGAAACACCCCCCCAACACACTCAATGCCCAAATGTTGAATG-GATGATTAAGCAGGAGCCTGGAACTGTGACAACCTTACCGCTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACATAAAGGCCCACTCTCACCTGATACTGGATCACTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGGCACCCCCCAGGTGCACCCTCTCCTggtgagtaggccccattcagatctagtgacttcaggtttgtgcctttaggg Alignment from CESAR aCTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCC-AACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAg gc actactctagtgacaaggaggaatgaaggctcacttgcattgtctttcagaCTACCACCACACCCTTCCAAGAAGAGGAAGCATTCTGAAACACCCCCCCAACACACTCAATGCCCAAATGTTGAATG-GATGATTAAGCAGGAGCCTGGAACTGTGACAACCTTACCGCTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACATAAAGGCCCACTCTCACCTGATACTGGATCACTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGGCACCCCCCAGGTGCACCCTCTCCTggtgagtaggccccattcagatctagttgttttaaactgaaattcccaggg Alignment from Spaln_aa2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactctagtgacaaggaggaatgaaggctcacttgcattgtctttcagACTACCACCACACCCTTCCAAGAAGAGGAAGCATTCTGAAACACCCCCCCAACACACTCAATGCCCAAATGTTGAATGGATGATTAAGCAGGAGCCTGGAACTGTGACAACCTTACCGCTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACATAAAGGCCCACTCTCACCTGATACTGGATCACTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGGCACCCCCCAGGTGCACCCTCTCCTGgtgagtaggccccattcagatctagtgacttcaggtttgtgcctttagGG Alignment from Spaln_nt2Genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCC-AACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactctagtgacaaggaggaatgaaggctcacttgcattgtctttcagACTACCACCACACCCTTCCAAGAAGAGGAAGCATTCTGAAACACCCCCCCAACACACTCAATGCCCAAATGTTGAATGG-ATGATTAAGCAGGAGCCTGGAACTGTGACAACCTTACCGCTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACATAAAGGCCCACTCTCACCTGATACTGGATCACTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGGCACCCCCCAGGTGCACCCTCTCCTGgtgagtaggccccattcagatctagtgacttcaggtttgtgcctttagGG Alignment from Pairagon ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCA-CCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactctagtgacaaggaggaatgaaggctcacttgcattgtctttcagACTACCACCACACCCTTCCAAGAAGAGGAAGCATTCTGAAACACCCCCCCAACACACTCAATGCCCAAATGTTGAATGG-ATGATTAAGCAGGAGCCTGGAACTGTGACAACCTTACCGCTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACATAAAGGCCCACTCTCACCTGATACTGGATCACTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGGCACCCCCCAGGTGCACCCTCTCCTGgtgagtaggccccattcagatctagtgacttcaggtttgtgcctttagGG Alignment from Exonerate_protein2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactctagtgacaaggaggaatgaaggctcacttgcattgtctttcagACTACCACCACACCCTTCCAAGAAGAGGAAGCATTCTGAAACACCCCCCCAACACACTCAATGCCCAAATGTTGAATGGATGATTAAGCAGGAGCCTGGAACTGTGACAACCTTACCGCTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACATAAAGGCCCACTCTCACCTGATACTGGATCACTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGGCACCCCCCAGGTGCACCCTCTCCTGgtgagtaggccccattcagatctagtgacttcaggtttgtgcctttagGG Alignment from Exonerate_coding2genome ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactctagtgacaaggaggaatgaaggctcacttgcattgtctttcagACTACCACCACACCCTTCCAAGAAGAGGAAGCATTCTGAAACACCCCCCCAACACACTCAATGCCCAAATGTTGAATGGATGATTAAGCAGGAGCCTGGAACTGTGACAACCTTACCGCTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACATAAAGGCCCACTCTCACCTGATACTGGATCACTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGGCACCCCCCAGGTGCACCCTCTCCTGgtgagtaggccccattcagatctagtgacttcaggtttgtgcctttagGG Alignment from GeneWise ACTCCCTCCACACCCCTCTAAGAAGAGGAAGCACTCTGAATCACCCCCCAACACCCTCAATGCCCAAATGCTGAACGGAATGATCAAGCAGGAACCTGGGACTGTCACAGCCTTGCCTCCACACCCTGCCAGAGCCCCATCCCCTCCATGGCCTCCTCAAGGCCCACTGTCACCTGGCACTGGATCCTTGCCCCTCAGCATTGCCCGAGCCCAGACTCCACCCTGGCACCCGCCAGGTGCACCCTCCCCAG GC actactctagtgacaaggaggaatgaaggctcacttgcattgtctttcagACTACCACCACACCCTTCCAAGAAGAGGAAGCATTCTGAAACACCCCCCCAACACACTCAATGCCCAAATGTTGAATGGATGATTAAGCAGGAGCCTGGAACTGTGACAACCTTACCGCTGCACCCTGCCAGAGTCCCTTCACCTCCATGGTTACATAAAGGCCCACTCTCACCTGATACTGGATCACTGGCTCTCAGTACAGCCCGGGCTCAAACTCCACCTTGGCACCCCCCAGGTGCACCCTCTCCTGgtgagtaggccccattcagatctagtgacttcaggtttgtgcctttagGG #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAGGTA-CGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag ttacatgtctctgttgtgtgcaggtactataatgtgctttctattttaagcTACGAAGTACAGCTAGAAAGCAAGGTACAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTC-CCAGCTAATGGCCAACaggtgaggagcatctaggaagatttgaatcaccgcaggttggacctgagaat Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAGGTA-CGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACag ttacatgtctctgttgtgtgcaggtactataatgtgctttctattttaagcTACGAAGTACAGCTAGAAAGCAAGGTACAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATT-CCCAGCTAATGGCCAACaggtgaggagcatctaggaagatttgaatcaccgcaggttggacctgagaat Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTA-CGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctctgttgtgtgcaggtactataatgtgctttctattttaagCTACGAAGTACAGCTAGAAAGCAAGGTAcAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCC-CAGCTAATGGCCAACAGgtgaggagcatctaggaagatttgaatcaccgcaggttggacctgagaat Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTAC-GGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctctgttgtgtgcaggtactataatgtgctttctattttaagCTACGAAGTACAGCTAGAAAGCAAGGTACAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTC-CCAGCTAATGGCCAACAGgtgaggagcatctaggaagatttgaatcaccgcaggttggacctgagaat Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAGGTAC-GGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctctgttgtgtgcaggtactataatgtgctttctattttaagCTACGAAGTACAGCTAGAAAGCAAGGTACAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCC-CAGCTAATGGCCAACAGgtgaggagcatctaggaagatttgaatcaccgcaggttggacctgagaat Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctctgttgtgtgcaggtactataatgtgctttctattttaagCTACGAAGTACAGCTAGAAAGCAAGGTACAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCCCAGCTAATGGCCAACAGgtgaggagcatctaggaagatttgaatcaccgcaggttggacctgagaat Alignment from Exonerate_coding2genome CTATGAAGTGCAGCTGGAAAGCAAGGTA-CGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATC ttacatgtctctgttgtgtgcaggtactataatgtgctttctattttaagCTACGAAGTACAGCTAGAAAGCAAGGTACAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTcccagctaatggccaacaggtgaggagcatctaggaagatttgaatcaccgcaggttggacctgagaat Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG ttacatgtctctgttgtgtgcaggtactataatgtgctttctattttaagCTACGAAGTACAGCTAGAAAGCAAGGTACAGGCAGAAAGGCCTAGAGAAGTTTCTCATTCAGATTCCCAGCTAATGGCCAACAGgtgaggagcatctaggaagatttgaatcaccgcaggttggacctgagaat #### Naaladl1_ID1443_2 --> 1 - 1 Original Alignment aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTG-CTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg caccatttaaaatttcaattctcctgcactttgtcaccctgacgttgtagaGAGCTTGCAAAGGAGCCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTCCCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAG-CAAGACCTATGAATACCGGGTGTTGCTTGCATTCCCTAATGCA---GAGGCCAACAGTGTAGAAGTTggtgagtatcagaagtcactaggcagcacacgacctcagctctgcctctgc Alignment from CESAR aGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTG-CTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg caccatttaaaatttcaattctcctgcactttgtcaccctgacgttgtagaGAGCTTGCAAAGGAGCCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTCCCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAG-CAAGACCTATGAATACCGGGTGTTGCTTGCATTCCCTAATGCAGAG---GCCAACAGTGTAGAAGTTggtgagtatcagaagtcactaggcagcacactccttacttggtctgtctgc Alignment from Spaln_aa2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG caccatttaaaatttcaattctcctgcactttgtcaccctgacgttgtagAGAGCTTGCAAAGGAGCCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTCCCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCAAGACCTATGAATACCGGGTGTTGCTTGCATTCCCTAATGCAGAG---GCCAACAGTGTAGAAGTTGgtgagtatcagaagtcactaggcagcacacgacctcagctctgcctctgc Alignment from Spaln_nt2Genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTG-CTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG caccatttaaaatttcaattctcctgcactttgtcaccctgacgttgtagAGAGCTTGCAAAGGAGCCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTCCCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAG-CAAGACCTATGAATACCGGGTGTTGCTTGCATTCCCTAATGCAGAG--GCC-AACAGTGTAGAAGTTGgtgagtatcagaagtcactaggcagcacacgacctcagctctgcctctgc Alignment from Pairagon AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCT-GCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG caccatttaaaatttcaattctcctgcactttgtcaccctgacgttgtagAGAGCTTGCAAAGGAGCCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTCCCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAG-CAAGACCTATGAATACCGGGTGTTGCTTGCATTCCCTAATGCAG---AGGCCAACAGTGTAGAAGTTGgtgagtatcagaagtcactaggcagcacacgacctcagctctgcctctgc Alignment from Exonerate_protein2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG caccatttaaaatttcaattctcctgcactttgtcaccctgacgttgtagAGAGCTTGCAAAGGAGCCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTCCCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCAAGACCTATGAATACCGGGTGTTGCTTGCATTCCCTAATGCAGAG---GCCAACAGTGTAGAAGTTGgtgagtatcagaagtcactaggcagcacacgacctcagctctgcctctgc Alignment from Exonerate_coding2genome AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG caccatttaaaatttcaattctcctgcactttgtcaccctgacgttgtagAGAGCTTGCAAAGGAGCCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTCCCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCAAGACCTATGAATACCGGGTGTTGCTTGCATTCCCTAATGCAGAG---GCCAACAGTGTAGAAGTTGgtgagtatcagaagtcactaggcagcacacgacctcagctctgcctctgc Alignment from GeneWise CTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG caccatttaaaatttcaattctcctgcactttgtcaccctgacgttgtagagagCTTGCAAAGGAGCCACATGTTGCCACCAGTACTCGAGATGATGCCCTGGTTCAGCTCCCTGTTGGCACGCTGGAAGGATACAGCACCAGGATTGGACTCAGCAAGACCTATGAATACCGGGTGTTGCTTGCATTCCCTAATGCAGAGGCC---AACAGTGTAGAAGTTGgtgagtatcagaagtcactaggcagcacacgacctcagctctgcctctgc #### Naaladl1_ID1444_3 --> 2 - 0 Original Alignment tgGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTC-GAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG gaatatcagaagtcactaggcagcacactccttacttggtctgtctgcagttGGCCCCAATGGAACAACGTTCCACTCCTTTCAACCTTTCCAAAAGGAATATAATTGGAGAGCAGGCAGGGC-TAATGCATTGCAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgcatgttaacgatttaagatggtttcctccctaaattgctgggttcagac Alignment from CESAR tgGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAG-AATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG gagtatcagaagtcactaggcagcacactccttacttggtctgtctgcagttGGCCCCAATGGAACAACGTTCCACTCCTTTCAACCTTTCCAAAAGGAATATAATTGGAGAGCAGGCAGGG-CTAATGCATTGCAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgcatgttaacgatttaagatggtttcctccctaaattgctgggttcagac Alignment from Spaln_aa2Genome TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG gaatatcagaagtcactaggcagcacactccttacttggtctgtctgcagTTGGCCCCAATGGAACAACGTTCCACTCCTTTCAACCTTTCCAAAAGGAATATAATTGGAGAGCAGGCAGGGCTAATGCATTGCAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgcatgttaacgatttaagatggtttcctccctaaattgctgggttcagac Alignment from Spaln_nt2Genome TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAG-AATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG gaatatcagaagtcactaggcagcacactccttacttggtctgtctgcagTTGGCCCCAATGGAACAACGTTCCACTCCTTTCAACCTTTCCAAAAGGAATATAATTGGAGAGCAGGCAGGG-CTAATGCATTGCAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgcatgttaacgatttaagatggtttcctccctaaattgctgggttcagac Alignment from Pairagon TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAA-GAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG gaatatcagaagtcactaggcagcacactccttacttggtctgtctgcagTTGGCCCCAATGGAACAACGTTCCACTCCTTTCAACCTTTCCAAAAGGAATATAATTGGAGAGCAGGCAGGG-CTAATGCATTGCAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgcatgttaacgatttaagatggtttcctccctaaattgctgggttcagac Alignment from Exonerate_protein2genome TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG gaatatcagaagtcactaggcagcacactccttacttggtctgtctgcagTTGGCCCCAATGGAACAACGTTCCACTCCTTTCAACCTTTCCAAAAGGAATATAATTGGAGAGCAGGCAGGGCTAATGCATTGCAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgcatgttaacgatttaagatggtttcctccctaaattgctgggttcagac Alignment from Exonerate_coding2genome TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAG gaatatcagaagtcactaggcagcacactccttacttggtctgtctgcagTTGGCCCCAATGGAACAACGTTCCACTCCTTTCAACCTTTCCAAAAGGAATATAATTGGAGAGCAGGCAGGGCTAATGCATTGCAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAgcatgttaacgatttaagatggtttcctccctaaattgctgggttcagac Alignment from GeneWise TGGGCCCCAATGGAACAACCTTCCACTCCTTCCAACCCTTCGAGAAGAATCTGACCGGGGAGCAGGCGGGGCCCAATGTATTGCAACCTTATGCTGCCTACGCTCCCCCTGGGACTCCAAAGGGCC gaatatcagaagtcactaggcagcacactccttacttggtctgtctgcagTTGGCCCCAATGGAACAACGTTCCACTCCTTTCAACCTTTCCAAAAGGAATATAATTGGAGAGCAGGCAGGGCTAATGCATTGCAACCATATGCTGCCTATGCTCCTCCAGGGACCCCTAAAGCATgttaacgatttaagatggtttcctccctaaattgctgggttcagac #### Naaladl1_ID1447_6 --> 1 - 2 Original Alignment tAACCTCACCGGAACCTCTGCC-CCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagtAACCTCACAGGAACTTCTGCCCCCTACCTTCTGGCAGAGAGCTCTAGGCT-TGAATATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAaggtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from CESAR tAACCTCACCGGAACCTCTGCC-CCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagtAACCTCACAGGAACTTCTGCCCCCTACCTTCTGGCAGAGAGCTCTAGGC-TTGAATATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAaggtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Spaln_aa2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCCTACCTTCTGGCAGAGAGCTCTAGGCTTGAATATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Spaln_nt2Genome TAACCTCACCGGAACCTCTGCCCC-TGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCCTACCTTCTGGCAGAGAGCTCTAGGCT-TGAATATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Pairagon TAACCTCACCGGAACCTCTG-CCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCCTACCTTCTGGCAGAGAGCTCTAGGCT-TGAATATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Exonerate_protein2genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCCTACCTTCTGGCAGAGAGCTCTAGGCTTGAATATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from Exonerate_coding2genome gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagtaacctcacaggaacttctgccccctaccttctggcagagagctctaggcttgaatataagctaggtcctgggtttgatcctaatgaaagtttccctgatggaaggtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc Alignment from GeneWise TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG gaataattggatctaatcacacatcatggtctgtctcgctgtgtctgcagTAACCTCACAGGAACTTCTGCCCCCTACCTTCTGGCAGAGAGCTCTAGGCTTGAATATAAGCTAGGTCCTGGGTTTGATCCTAATGAAAGTTTCCCTGATGGAAGgtgaggcactgagctgaatgaccttgggtgtgcccccagaatcactgtcc #### Naaladl1_ID1454_13 --> 1 - 0 Original Alignment cCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCA-TTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagcCTT---------GGGGCTGGTAGTGACTATGCAGCACTTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTT-TACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from CESAR cCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCA-TTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagcCTT---------GGGGCTGGTAGTGACTATGCAGCACTTTGTTCACTTCGCAGGCATCACATCTATGGATTTTG-CTTTACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Spaln_aa2Genome CCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCA-TTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagC---------CTTGGGGCTGGTAGTGACTATGCAGCAcTTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGC-TTTACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Spaln_nt2Genome CCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCA-TTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagCCT--------TGGG-GCTGGTAGTGACTATGCAGCACTTTGTTCACTTCGCAGGCATCACATCTATGGATTTTG-CTTTACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Pairagon CCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCA-TTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagC---------CTTGGGGCTGGTAGTGACTATGCAGCACTTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTT-TACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Exonerate_protein2genome CCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCA-TTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCG attaaggtccagggagactctttttacacccttgctgtctgTCCCCACAGCCTTGGGGCTGGTAGTGACTATGCAGCACTTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTTACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from Exonerate_coding2genome attaaggtccagggagactctttttacacccttgctgtctgtccccacagccttggggctggtagtgactatgcagcactttgttcacttcgcaggcatcacatctatggattttgctttacctatgatcaggtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca Alignment from GeneWise CCTGGGCACACTGGGCGCTGGCAGTGACTATGCCGCATTCGTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGG attaaggtccagggagactctttttacacccttgctgtctgtccccacagCCTTGGG---------GCTGGTAGTGACTATGCAGCACTTTGTTCACTTCGCAGGCATCACATCTATGGATTTTGCTTTACCTATGATCAGgtgagttaagtttgtggcatggcaacaaaaggggactagtaaggcaacca #### Naaladl1_ID1455_14 --> 0 - 1 Original Alignment AGCAAGACCTCG-GCCAGGATCTACCCCACCTACCACACAGCATTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTg gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCACGCCAGGATCTACCCATCCTATTATGCTGCATTCGATGCACTTG-CTATGTTGAAAAATTCCTGGACCCAggtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from CESAR AGCAAGACCTCG-GCCAGGATCTACCCCACCTACCACACAGCATTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTg gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCACGCCAGGATCTACCCATCCTATTATGCTGCATTCGATGCACTT-GCTATGTTGAAAAATTCCTGGACCCAggtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Spaln_aa2Genome AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCATTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCACGCCAGGATCTACCCATCCTATTATGCTGCATTCGATGCACTTGCTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Spaln_nt2Genome AGCAAGACCTCG-GCCAGGATCTACCCCACCTACCACACAGCATTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCACGCCAGGATCTACCCATCCTATTATGCTGCATTCGATGCACTTG-CTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Pairagon AGCAAGACCTCG-GCCAGGATCTACCCCACCTACCACACAGCATTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCACGCCAGGATCTACCCATCCTATTATGCTGCATTCGATGCACTTG-CTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Exonerate_protein2genome AGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCATTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagAGCAAGACCTCACGCCAGGATCTACCCATCCTATTATGCTGCATTCGATGCACTTGCTATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from Exonerate_coding2genome GTTCACTTCCTGGGCATCACGTCCATGGACCTTGCCTACACCTATGACCGGAGCAAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCATTTGAT--ACATTTGATTATGTGGAGAAGTTTCTGGACCCTG ACCCAC---ATTTCCGTCTACTGGTTA---CTTATTGTTCTCTATTATAGAGCAAGACCTCACGCCAGGATCTACCCATCCTATTATGCTGCATTCGATGCACTTGC---TATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt Alignment from GeneWise --AAGACCTCGGCCAGGATCTACCCCACCTACCACACAGCATTTGATACATTTGATTATGTGGAGAAGTTTCTGGACCCTG gttctcacccacatttccgtctactggttacttattgttctctattatagagCAAGACCTCACGCCAGGATCTACCCATCCTATTATGCTGCATTCGATGCACTTGC-TATGTTGAAAAATTCCTGGACCCAGgtaagactcctctggtgatgtgacacaaccacaggcttgaccagcggagt #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTA-CAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacaggcTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTG-TACTCAATTAGAAAAGCAGAATGTAAGCTTGggtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from CESAR gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTA-CAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGg gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacaggcTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTT-GTACTCAATTAGAAAAGCAGAATGTAAGCTTGggtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTAC-AGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTT-GTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Pairagon GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTA-CAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTT-GTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from Exonerate_coding2genome gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacaggctttagtagccagcaggctgttgcccggactgctgggagtgtgcttctccagctcagtgatagcctcttcctgcccctaaatgttagtgactatagtgagaccttgccaaagttttcttcaggcagcacaagaagcccttgtactcaattagaaaagcagaatgtaagcttgggtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt Alignment from GeneWise GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG gaaggtgaaacttggatttggtctctattagccaccatcttgtcttacagGCTTTAGTAGCCAGCAGGCTGTTGCCCGGACTGCTGGGAGTGTGCTTCTCCAGCTCAGTGATAGCCTCTTCCTGCCCCTAAATGTTAGTGACTATAGTGAGACCTTGCCAAAGTTTTCTTCAGGCAGCACAAGAAGCCCTTGTACTCAATTAGAAAAGCAGAATGTAAGCTTGGgtgagccccaacatcttgagcccccagcggtggaatctacagaggcaagt #### Naaladl1_ID1458_17 --> 1 - 2 Original Alignment tCCTCTGCAGGTACGAATGGTCAATGACCAG-CTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagtCCTCTGCAGGTTCAGATGGTTAATGATCAACCTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCAT-CCCAGAGGAGAGGCATTACaggtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from CESAR tCCTCTGCAGGTACGAATGGTCAATGACCAG-CTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagtCCTCTGCAGGTTCAGATGGTTAATGATCAACCTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCA-TCCCAGAGGAGAGGCATTACaggtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Spaln_aa2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTAATGATCAACCTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Spaln_nt2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGC-TGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTAATGATCAACCTAATGCTATTAGAGTGTGCATTTCTGAA-CCCAAGGGCATCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Pairagon TCCTCTGCAGGTACGAATGGTCAATGACCAG-CTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTAATGATCAACCTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGC-ATCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Exonerate_protein2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTAATGATCAACCTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from Exonerate_coding2genome agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagtcctctgcaggttcagatggttaatgatcaacctaatgctattagagtgtgcatttctgaacccaagggcatcccagaggagaggcattacaggtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac Alignment from GeneWise TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACAG agagatacatagcccaatgaacagaacgtatcccttttttaaattaacagTCCTCTGCAGGTTCAGATGGTTAATGATCAACCTAATGCTATTAGAGTGTGCATTTCTGAACCCAAGGGCATCCCAGAGGAGAGGCATTACAGgtgagtcagtgtaaattgagctgccgacttgcttagaactagagttcaac #### Ndufv1_ID275_7 --> 2 - 0 Original Alignment gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGAT-GCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttataggtGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCC---ACATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATCGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAG-AATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from CESAR gtGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGAT-GCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttataggtGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATCGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACA-GAATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Spaln_aa2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGAT-GCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATcGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGA----ATCATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Spaln_nt2Genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGAT-GCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCA---CATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATCGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAG----AATCATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Pairagon GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGAT-GCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCA---CATTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATCGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAG----AATCATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Exonerate_protein2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGAT-GCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATCGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGAATCATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from Exonerate_coding2genome GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGAT-GCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATCGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGAATCATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt Alignment from GeneWise GTGGTGTCACAGGTGGCTGGGACAACCTCCTTGCTGTGATTCCTGGTGGCTCATCTACTCCACTGATTCCCAAATCTGTGTGTGAGACCGTGCTAATGGACTTCGATGCACTGGTGCAGGCTCAGACAGGCCTGGGCACGGCTGCAGTTATTGTTATGGATCGCTCG ggggtgcttgcaaagaatgcttcttacatttattgtaatgtctcttatagGTGGTGTAACAGGCGGCTGGGACAATCTGCTTGCTGTGACACCAGGTGGATCATCCACA---TTAATTCCCAAATCTGTTTGTGAGACAGTGCTAATGGATTTTGATCGCTCTAGTGCAGGCTCAGACAGGGCTGGGAACAGCCACAGAATC---ATGGATCGTTTGgtaagtggtcataagcaccctcatgcttgtcactatgatgtgtgtttttt #### Ndufv1_ID276_6 --> 2 - 1 Original Alignment gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGC-ACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcaggaGTGTTTGGCTGTCCCACCACTGTGACCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGA-TGAGAAACATACTggtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from CESAR gaGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGC-ACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTg gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcaggaGTGTTTGGCTGTCCCACCACTGTGACCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGA-TGAGAAACATACTggtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Spaln_aa2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGC-ACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCcACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGAT-GAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Spaln_nt2Genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGC-ACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGA-TGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Pairagon GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTG-CACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGA-TGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Exonerate_protein2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGC-ACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATGAGAAACATACTGGtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from Exonerate_coding2genome GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGC-ACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCTG gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATGAGAAACATACTGGtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa Alignment from GeneWise GAGTGTTTGGATGCCCCACAACTGTGGCCAATGTGGAGACAGTGGCTGTGTCCCCCACCATTTGCCGTCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGAGAACGCAATTCAGGTACCAAATTGTTTAACATCTCTGGCCATGTCAACCACCCCTGC-ACTGTGGAGGAAGAGATGTCTGTGCCACTGAAAGAGCTGATTGAGAAACATGCT gatggtgcttgattatgactcagttaatcaatccctgtgtgtcttttcagGAGTGTTTGGCTGTCCCACCACTGTGACCAATGTTAAAACAGTGGCTGTGTCCCCCACAATCTGTCGCCGTGGGGGCACCTGGTTTGCTGGCTTTGGCCGGGAGCACAATTCAGGTACAAAATTGTTCAACATCTTTGGCCATGTCAACCGCCCATGCCACTGTGGAGGAAGAGATGGCAGTACCCCTCAAGGAGCTGATGAGAAACATACTGgtaaagctttagccaattaaaggtcagggcatcagaggggtgcttgcaaa #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGC-AAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCTGGCAGGCCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCA-TTCTGTAGGCCCCAAGGACATGACTGCTcagtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from CESAR ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGC-AAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCTGGCAGGCCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCA-TTCTGTAGGCCCCAAGGACATGACTGCTcagtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Spaln_aa2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCTGGCAGGCCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Spaln_nt2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGC-AAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCTGGCAGGCCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCAT-TCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Pairagon ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGG-CAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCTGGCAGGCCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCAT-TCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCTGGCAGGCCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCTGGCAGGCCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCATTCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc Alignment from GeneWise ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGT---TCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA ggcctgtggggcactcagctatatagaatattccttttcttcttttccagATATGTAACTATGAGGGACCCAGAAAGATTGTCGTTGACCTGGCAACACACAGTGACCCACCTCGTGCACATGCCCACAGTCTGGCAGGCCAAGCAGTGTTCAGAAGTCGGGGTATGTGCCAT---TCTGTAGGCCCCAAGGACATGACTGCTCAgtgagtcgcttaacagtcttggagctaatccaagggatatctggatgtcc #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATG-ATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ataggtgacactgtataatttatccagaagcttctgccttgcctttgcaggTTCAACAATTTCGGC------CATGTAACCAAAAAGAACATGATGGAGATAATGCATACAAAGACTGCACAGGCAGCGTCTTCAATCCA-ACCACAGGGCCTAACTggtgagaaacagaatgtgtcttggatggtgctcataagttgactatggaag Alignment from CESAR aTTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATG-ATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg ataggtgacactgtataatttatccagaagcttctgccttgcctttgcaggTTCAACAATTTCGGC------CATGTAACCAAAAAGAACATGATGGAGATAATGCATACAAAGACTGCACAGGCAGCGTCTTCAATCC-AACCACAGGGCCTAACTggtgagaaacagaatgtgtcttggatggtgctcataagttgactatggaag Alignment from Spaln_aa2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ataggtgacactgtataatttatccagaagcttctgccttgcctttgcagGTTCAACAATTTCGGC------CATGTAACCAAAAAGAACATGATGGAGATAATGCATACAAAGACTGCACAGGCAGCGTCTTCAATCCAACCACAGGGCCTAACTGgtgagaaacagaatgtgtcttggatggtgctcataagttgactatggaag Alignment from Spaln_nt2Genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATG-ATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ataggtgacactgtataatttatccagaagcttctgccttgcctttgcagGTTCAACAATTTCGG------CCATGTAACCAAAAAGAACATGATGGAGATAATGCATACAAAGACTGCACAGGCAGCGTCTTCAATCCAA-CCACAGGGCCTAACTGgtgagaaacagaatgtgtcttggatggtgctcataagttgactatggaag Alignment from Pairagon ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATG-ATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ataggtgacactgtataatttatccagaagcttctgccttgcctttgcagGTTCAACAATTTCGGC------CATGTAACCAAAAAGAACATGATGGAGATAATGCATACAAAGACTGCACAGGCAGCGTCTTCAATCCAA-CCACAGGGCCTAACTGgtgagaaacagaatgtgtcttggatggtgctcataagttgactatggaag Alignment from Exonerate_protein2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ataggtgacactgtataatttatccagaagcttctgccttgcctttgcagGTTCAACAATTTCGGC------CATGTAACCAAAAAGAACATGATGGAGATAATGCATACAAAGACTGCACAGGCAGCGTCTTCAATCCAACCACAGGGCCTAACTGgtgagaaacagaatgtgtcttggatggtgctcataagttgactatggaag Alignment from Exonerate_coding2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ataggtgacactgtataatttatccagaagcttctgccttgcctttgcagGTTCAACAATTTCGGC------CATGTAACCAAAAAGAACATGATGGAGATAATGCATACAAAGACTGCACAGGCAGCGTCTTCAATCCAACCACAGGGCCTAACTGgtgagaaacagaatgtgtcttggatggtgctcataagttgactatggaag Alignment from GeneWise ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG ataggtgacactgtataatttatccagaagcttctgccttgcctttgcagGTTCAACAATTTCGGC------CATGTAACCAAAAAGAACATGATGGAGATAATGCATACAAAGACTGCACAGGCAGCGTCTTCAATCCAACCACAGGGCCTAACTGgtgagaaacagaatgtgtcttggatggtgctcataagttgactatggaag #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAG-AAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa agggcaatttattacttgccctacccatgtcctgaatctcgatgttgcagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGCAAAGTTATGGATTTGAGCATTGTACGGCTAC-CTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCagtaagtctgacctgcacaaacataagcaataagatttcagttgaaaggtc Alignment from CESAR agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAG-AAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa agggcaatttattacttgccctacccatgtcctgaatctcgatgttgcagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGCAAAGTTATGGATTTGAGCATTGTACGGCTA-CCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCagtaagtctgacctgcacaaacataagcaataagatttcagttgaaaggtc Alignment from Spaln_aa2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccatgtcctgaatctcgatgttgcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGCAAAGTTATGGATTTGAGCATTGTACGGCTACCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtaagtctgacctgcacaaacataagcaataagatttcagttgaaaggtc Alignment from Spaln_nt2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAA-AGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccatgtcctgaatctcgatgttgcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGCAAAGTTATGGATTTGAGCATTGTACGGCTAC-CTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtaagtctgacctgcacaaacataagcaataagatttcagttgaaaggtc Alignment from Pairagon AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAG-AAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccatgtcctgaatctcgatgttgcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGCAAAGTTATGGATTTGAGCATTGTACGGCTAC-CTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtaagtctgacctgcacaaacataagcaataagatttcagttgaaaggtc Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccatgtcctgaatctcgatgttgcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGCAAAGTTATGGATTTGAGCATTGTACGGCTACCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtaagtctgacctgcacaaacataagcaataagatttcagttgaaaggtc Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccatgtcctgaatctcgatgttgcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGCAAAGTTATGGATTTGAGCATTGTACGGCTACCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtaagtctgacctgcacaaacataagcaataagatttcagttgaaaggtc Alignment from GeneWise AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCA agggcaatttattacttgccctacccatgtcctgaatctcgatgttgcagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGCAAAGTTATGGATTTGAGCATTGTACGGCTACCTTCTCTGCTTTCCTTAGGGCCAGTGATGGTTCTTTCTCCTTACCCCTAAAGCCTGTAATCTCTCAACCAATCCATGATAGCAgtaagtctgacctgcacaaacataagcaataagatttcagttgaaaggtc #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment acGACATTGAGGTTCGGTTCTATGAGGATGAT-GAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG acctgcctctgtaccttcatatcactgatcttcccctcccccgtttccagatGACATCGAGGTTCAATTCTATGAGGATGATCGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTT-CACAGATGTATATAAACAGgtgagtcaactgaacataattcatattccctgtggtgagtacatgtacat Alignment from CESAR acGACATTGAGGTTCGGTTCTATGAGGATGAT-GAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG acctgcctctgtaccttcatatcactgatcttcccctcccccgtttccagatGACATCGAGGTTCAATTCTATGAGGATGATCGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCT-TCACAGATGTATATAAACAGgtgagtcaactgaacataattcatattccctgtggtgagtacatgtacat Alignment from Spaln_aa2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGAT-GAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG acctgcctctgtaccttcatatcactgatcttcccctcccccgtttccagATGACATCGAGGTTCAATTCTATGAGGATGATcGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTTC-ACAGATGTATATAAACAGgtgagtcaactgaacataattcatattccctgtggtgagtacatgtacat Alignment from Spaln_nt2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGAT-GAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG acctgcctctgtaccttcatatcactgatcttcccctcccccgtttccagATGACATCGAGGTTCAATTCTATGAGGATGATCGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCT-TCACAGATGTATATAAACAGgtgagtcaactgaacataattcatattccctgtggtgagtacatgtacat Alignment from Pairagon ACGACATTGAGGTTCGGTTCTATGAGGATGAT-GAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG acctgcctctgtaccttcatatcactgatcttcccctcccccgtttccagATGACATCGAGGTTCAATTCTATGAGGATGATCGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCT-TCACAGATGTATATAAACAGgtgagtcaactgaacataattcatattccctgtggtgagtacatgtacat Alignment from Exonerate_protein2genome ACGACATTGAGGTTCGGTTCTATGAGGATGAT-GAGAATGGATGGCAAGCCTTTGGGGACTTCTCT--CCCACAGACGTTCATAAACAG acctgcctctgtaccttcatatcactgatcttcccctcccccgtttccagATGACATCGAGGTTCAATTCTATGAGGATGATCGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTTC---ACAGATGTATATAAACAGgtgagtcaactgaacataattcatattccctgtggtgagtacatgtacat Alignment from Exonerate_coding2genome ACGACATTGAGGTTCGGTTCTATGAGGATGAT-GAGAATGGATGGCAAGCCTTTGGGGACTTCTCT--CCCACAGACGTTCATAAACAG acctgcctctgtaccttcatatcactgatcttcccctcccccgtttccagATGACATCGAGGTTCAATTCTATGAGGATGATCGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTTC---ACAGATGTATATAAACAGgtgagtcaactgaacataattcatattccctgtggtgagtacatgtacat Alignment from GeneWise ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG acctgcctctgtaccttcatatcactgatcttcccctcccccgtttccagATGACATCGAGGTTCAATTCTATGAGGATGATCGAGAATGGGTGGCAAGCCTTTGGGGACTTCTCTTCACAGATGTATATAAACAGgtgagtcaactgaacataattcatattccctgtggtgagtacatgtacat #### Nfkb2_ID9833_11 --> 2 - 1 Original Alignment acAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAG-CCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg tgtacatgcttgtatttattaagcctcataatgtttttattttttcacagacAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTACCTACTTTCTCGCAGCCCCTTTGGGGGTGGGACCCATATGGGTGGAC-CTTTGGTGGGTCCGCGGGGGGTTATGGAGATGCTGGAGGAagtaaccaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from CESAR acAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAG-CCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAg tgtacatgcttgtatttattaagcctcataatgtttttattttttcacagacAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTACCTACTTTCTCGCAGCCCCTTTGGGGGTGGGACCCATATGGGTGGA-CCTTTGGTGGGTCCGCGGGGGGTTATGGAGATGCTGGAGGAagtaaccaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Spaln_aa2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG tgtacatgcttgtatttattaagcctcataatgtttttattttttcacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTACCTACTTTCTCGCAGCCCCTTTGGGGGTGGGACCCATATGGGTGGACCTTTGGTGGGTCCGCGGGGGGTTATGGAGATGCTGGAGGAAgtaaccaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Spaln_nt2Genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCC-TTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG tgtacatgcttgtatttattaagcctcataatgtttttattttttcacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTACCTACTTTCTCGCAGCCCCTTTGGGGGTGGGACCCATATGGGTGGACCTT-TGGTGGGTCCGCGGGGGGTTATGGAGATGCTGGAGGAAgtaaccaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Pairagon ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAG-CCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG tgtacatgcttgtatttattaagcctcataatgtttttattttttcacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTACCTACTTTCTCGCAGCCCCTTTGGGGGTGGGACCCATATGGGTGGACCTT-TGGTGGGTCCGCGGGGGGTTATGGAGATGCTGGAGGAAgtaaccaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Exonerate_protein2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG tgtacatgcttgtatttattaagcctcataatgtttttattttttcacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTACCTACTTTCTCGCAGCCCCTTTGGGGGTGGGACCCATATGGGTGGACCTTTGGTGGGTCCGCGGGGGGTTATGGAGATGCTGGAGGAAgtaaccaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from Exonerate_coding2genome ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG tgtacatgcttgtatttattaagcctcataatgtttttattttttcacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTACCTACTTTCTCGCAGCCCCTTTGGGGGTGGGACCCATATGGGTGGACCTTTGGTGGGTCCGCGGGGGGTTATGGAGATGCTGGAGGAAgtaaccaagaaaaatggaaggagaaagaaagaagattagttgatgatatt Alignment from GeneWise ACAAGGAGGAAGTGCAGAGGAAGCGGAGAAAGGCCTTGCCCACCTTCTCCCAGCCCTTCGGGGGCGGATCCCACATGGGTGGAGGTTCTGGGGGCTCCGCTGGGGGTTATGGAGGCGCTGGAGGAG tgtacatgcttgtatttattaagcctcataatgtttttattttttcacagACAAGGAAGAA------AGTAAAAGGAGGAAGTCGTTACCTACTTTCTCGCAGCCCCTTTGGGGGTGGGACCCATATGGGTGGACCTTTGGTGGGTCCGCGGGGGGTTATGGAGATGCTGGAGGAAgtaaccaagaaaaatggaaggagaaagaaagaagattagttgatgatatt #### Nfkb2_ID9834_12 --> 2 - 1 Original Alignment gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCC-GGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcaggtGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCACGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAA-ACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTAGACACACTGCATCGAagcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from CESAR gtGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCC-GGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAg atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcaggtGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCACGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGA-AACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTAGACACACTGCATCGAagcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Spaln_aa2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCACGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAAACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTAGACACACTGCATCGAAgcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Spaln_nt2Genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATC-CGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCACGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGA-AACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTAGACACACTGCATCGAAgcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Pairagon GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATC-CGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCG---------------------------------------------------- atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCACGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAA-ACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTAGACACACTGCATCGAAGCATGTGTTGGCACGAATCAACACATGCTATTAAAGGAGCAACACAGGAT Alignment from Exonerate_protein2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAG atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCACGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAAACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTAGACACACTGCATCGAAgcatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from Exonerate_coding2genome GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAGCT atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCACGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAAACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTAGACACACTGCATCGAAGCatgtgttggcacgaatcaacacatgctattaaaggagcaacacaggat Alignment from GeneWise GTGGCAGCCTCGGCTTTTTCTCCTCCTCCTTGGCCTACAACCCCTACCAATCCGGTGCAGCCCCAATGGGCTGCTATCCGGGTGGGGGAGGTGGAGCGCAGATGGCCGGTTCTAGACGGGACACCGATGCTGGCGAGGGGGCAGAGGAGCCCAGGACGCCCCCGGAGGCTCCCCAGGGCGAACCACAGGCCCTTGACACACTGCAGCGAGCTCGC- atattgcctttgtaaggaccctgattaatcaccccgcttcccctctgcagGTGGAAGCCTTGGTTTCCTATCCCCCCCTTTGGCCTATAATCCATATCAACCACGGTGCTTCCCCTATGGGTTATTATCTGGGTGGGGGGGGCGGAAACAAACGGCTGGGTCTAGACGTGACACCGACGCTGGTGAGGGTCCTAAGGAGCCCAGGACGCCCCCAGAGGCTCCCCAGGGTGAACCACAAGCCCTAGACACACTGCATCGAAGCATGTgttggcacgaatcaacacatgctattaaaggagcaacacaggat #### Nfkb2_ID9837_15 --> 0 - 1 Original Alignment ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGT-GCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaatcacagagtgcaaggttatccctctggcatatttccttctccagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTCGTGGACCCCACACTACTGGAAAGACACGAA---T-CGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAAGAGCTCAGGGCAGGAGGAGCAGCTGCCCCTGAGCTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCTGAGTTTGAGggtaagtgctaaaagccatggcatgatgaatccagaagtgtcagtagtcag Alignment from CESAR ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGT-GCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGT---GCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg ttgtaatcacagagtgcaaggttatccctctggcatatttccttctccagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTCGTGGACCCCACACTACTGGAAAGACAC---GAAT-CGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAAGAGCTCAGGGCAGGAGGAGCAGCTGCCCCTGAGCTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCTGAGTTTGAGggtaagtgctaaaagccatggcatgatgaatccagaagtgtcagtagtcag Alignment from Spaln_aa2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGG CAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaatcacagagtgcaaggttatccctctggcatatttccttctccagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTCGTGGACCCCACACTACTGGAAAGACACGA---ATCGCACTCCACCTGGCTCACACCTgtgaaaatttcttgccatcttggacctctcaagagctcagggcagGAGGAGCAGCTGCCCCTGAGCTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCTGAGTTTGAGGgtaagtgctaaaagccatggcatgatgaatccagaagtgtcagtagtcag Alignment from Spaln_nt2Genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGT-GCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGG CAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaatcacagagtgcaaggttatccctctggcatatttccttctccagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTCGTGGACCCCACACTACTGGAAAGACACGAA----TCGCACTCCACCTGGCTCACACCTgtgaaaatttcttgccatcttggacctctcaagagctcagggcagGAGGAGCAGCTGCCCCTGAGCTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCTGAGTTTGAGGgtaagtgctaaaagccatggcatgatgaatccagaagtgtcagtagtcag Alignment from Pairagon ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGT-GCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCAGGTGCTGCA---GCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaatcacagagtgcaaggttatccctctggcatatttccttctccagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTCGTGGACCCCACACTACTGGAAAGACACGAA----TCGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAAGAGCTCAGGGCAGGAGGAGCAGCTGCCCCTGAGCTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCTGAGTTTGAGGgtaagtgctaaaagccatggcatgatgaatccagaagtgtcagtagtcag Alignment from Exonerate_protein2genome ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGT-GCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTC CGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaatcacagagtgcaaggttatccctctggcatatttccttctccagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTCGTGGACCCCACACTACTGGAAAGACACGAATCGCACTCCACCTGGCTCACACCTgtgaaaatttcttgccatcttggacctctcaagagctcaggGCAGGAGGAGCAGCTGCCCCTGAGCTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCTGAGTTTGAGGgtaagtgctaaaagccatggcatgatgaatccagaagtgtcagtagtcag Alignment from Exonerate_coding2genome ttgtaatcacagagtgcaaggttatccctctggcatatttccttctccagaccccgctgcaccttgctttaattactgggcagaaaagagtggtgagctttctgctgcaggtgggtcgtggaccccacactactggaaagacacgaatcgcactccacctggctcacacctgtgaaaatttcttgccatcttggacctctcaagagctcagggcaggaggagcagctgcccctgagctgttgcaggctttgttacgcagtgaagcccatgctgtaccacatatacatatgcctgagtttgagggtaagtgctaaaagccatggcatgatgaatccagaagtgtcagtagtcag Alignment from GeneWise ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCT------------------------------------------CTCCGGGCA---GGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG ttgtaatcacagagtgcaaggttatccctctggcatatttccttctccagACCCCGCTGCACCTTGCTTTAATTACTGGGCAGAAAAGAGTGGTGAGCTTTCTGCTGCAGGTGGGTCGTGGACCCCACACTACTGGAAAGACA---CGAATCGCACTCCACCTGGCTCACACCTGTGAAAATTTCTTGCCATCTTGGACCTCTCAAGAGCTCAGGGCAGGAGGAGCAGCTGCCCCTGAGCTGTTGCAGGCTTTGTTACGCAGTGAAGCCCATGCTGTACCACATATA---CATATGCCTGAGTTTGAGGgtaagtgctaaaagccatggcatgatgaatccagaagtgtcagtagtcag #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCAC-CTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttgcttgtttgtgaccagactctgtgttatttttctgttcttttcagCTGCATGCCAATGTCAATACTTGGACTTTTGCTGCAAATACACCACTCCACCCTGGCAGCTGGACTTGGATCCCCAACACTTT-TCACCTCCTTCTAAAAGCTggcaagtcctccaattacctgtgactacaaaactcagggcttggggtgcaa Alignment from CESAR CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCAC-CTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gatttgcttgtttgtgaccagactctgtgttatttttctgttcttttcagCTGCATGCCAATGTCAATACTTGGACTTTTGCTGCAAATACACCACTCCACCCTGGCAGCTGGACTTGGATCCCCAACACTT-TTCACCTCCTTCTAAAAGCTggcaagtcctccaattacctgtgactacaaaactcagggcttggggtgcaa Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCAC-CTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtgttatttttctgttcttttcagCTGCATGCCAATGTCAATACTTGGACTTTTGCTGCAAATACACCACTCCACcCTGGCAGCTGGACTTGGATCCCCAACACTTTT-CACCTCCTTCTAAAAGCTGgcaagtcctccaattacctgtgactacaaaactcagggcttggggtgcaa Alignment from Spaln_nt2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCA-CCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtgttatttttctgttcttttcagCTGCATGCCAATGTCAATACTTGGACTTTTGCTGCAAATACACCACTCCACCCTGGCAGCTGGACTTGGATCCCCAACACTT-TTCACCTCCTTCTAAAAGCTGgcaagtcctccaattacctgtgactacaaaactcagggcttggggtgcaa Alignment from Pairagon CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCA-CCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtgttatttttctgttcttttcagCTGCATGCCAATGTCAATACTTGGACTTTTGCTGCAAATACACCACTCCACCCTGGCAGCTGGACTTGGATCCCCAACACTT-TTCACCTCCTTCTAAAAGCTGgcaagtcctccaattacctgtgactacaaaactcagggcttggggtgcaa Alignment from Exonerate_protein2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gatttgcttgtttgtgaccagactctgtgttatttttctgttcttttcagCTGCATGCCAATGTCAATACTTGGACTTTTGCTGCAAATACACCACTCCACCCTGGCAGCTGGACTTGGATCCCCAACACTTTTCACCTCCTTCTAAAAGCTGgcaagtcctccaattacctgtgactacaaaactcagggcttggggtgcaa Alignment from Exonerate_coding2genome gatttgcttgtttgtgaccagactctgtgttatttttctgttcttttcagctgcatgccaatgtcaatacttggacttttgctgcaaatacaccactccaccctggcagctggacttggatccccaacacttttcacctccttctaaaagctggcaagtcctccaattacctgtgactacaaaactcagggcttggggtgcaa Alignment from GeneWise CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTGGT-- gatttgcttgtttgtgaccagactctgtgttatttttctgttcttttcagCTGCATGCCAATGTCAATACTTGGACTTTTGCTGCAAATACACCACTCCACCCTGGCAGCTGGACTTGGATCCCCAACACTTTTCACCTCCTTCTAAAAGCTGGCAAgtcctccaattacctgtgactacaaaactcagggcttggggtgcaa #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG taccccaatgcctcaatttacctttcaaatgagcatgcgcattcccccaggtGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGCCCCTTGCCATCTCCCTCAACTTCTGGGA-TGATTCTGACTCTGAGGGGCCTGAAACAGACACCCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCACAGCACAAAGgtgagtaaatggagtctgtgactgtttcgaaaggactcgggtggttgtac Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG taccccaatgcctcaatttacctttcaaatgagcatgcgcattcccccaggtGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGCCCCTTGCCATCTCCCTCAACTTCTGGG-ATGATTCTGACTCTGAGGGGCCTGAAACAGACACCCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCACAGCACAAAGgtgagtaaatggagtctgtgactgtttcgaaaggactcgggtggttgtac Alignment from Spaln_aa2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG taccccaatgcctcaatttacctttcaaatgagcatgcgcattcccccagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGCCCCTTGCCATCTCCCTCAACTTCTGGGATGATTCTGACTCTGAGGGGCCTGAAACAGACACCCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCACAGCACAAAGgtgagtaaatggagtctgtgactgtttcgaaaggactcgggtggttgtac Alignment from Spaln_nt2Genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG taccccaatgcctcaatttacctttcaaatgagcatgcgcattcccccagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGCCCCTTGCCATCTCCCTCAACTTCTGGGA-TGATTCTGACTCTGAGGGGCCTGAAACAGACACCCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCACAGCACAAAGgtgagtaaatggagtctgtgactgtttcgaaaggactcgggtggttgtac Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTG-TGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAGGTGA taccccaatgcctcaatttacctttcaaatgagcatgcgcattcccccagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGCCCCTTGCCATCTCCCTCAACTTCTGGGA-TGATTCTGACTCTGAGGGGCCTGAAACAGACACCCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCACAGCACAAAGGTGAgtaaatggagtctgtgactgtttcgaaaggactcgggtggttgtac Alignment from Exonerate_protein2genome GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG taccccaatgcctcaatttacctttcaaatgagcatgcgcattcccccagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGCCCCTTGCCATCTCCCTCAACTTCTGGGATGATTCTGACTCTGAGGGGCCTGAAACAGACACCCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCACAGCACAAAGgtgagtaaatggagtctgtgactgtttcgaaaggactcgggtggttgtac Alignment from Exonerate_coding2genome taccccaatgcctcaatttacctttcaaatgagcatgcgcattcccccaggtgctgacacccatacagagaatgaagagccactgctgccccttgccatctccctcaacttctgggatgattctgactctgaggggcctgaaacagacacccaaagaaccttccacggtcatacccctcttgacctcactcacagcacaaaggtgagtaaatggagtctgtgactgtttcgaaaggactcgggtggttgtac Alignment from GeneWise GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG taccccaatgcctcaatttacctttcaaatgagcatgcgcattcccccagGTGCTGACACCCATACAGAGAATGAAGAGCCACTGCTGCCCCTTGCCATCTCCCTCAACTTCTGGGATGATTCTGACTCTGAGGGGCCTGAAACAGACACCCAAAGAACCTTCCACGGTCATACCCCTCTTGACCTCACTCACAGCACAAAGgtgagtaaatggagtctgtgactgtttcgaaaggactcgggtggttgtac #### Nfkb2_ID9841_19 --> 0 - 1 Original Alignment GTG---AAGACTCTG-CTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACCTTCTAAACACTGCTCAGAATTCCACAGAGCCAC-CTTGGCCCCCCCGACGCCAGTAggtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from CESAR GTGAAG---ACTCTG-CTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACCTTCTAAACACTGCTCAGAATTCCACAGAGCCAC-CTTGGCCCCCCCGACGCCAGTAggtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Spaln_aa2Genome GTG---AAGACTCTG-CTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTAcCTTCTAAACACTGCTCAGAATTCCACAGAGCCACCTTG-GCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Spaln_nt2Genome GTGAAGA---CTCTGC-TGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACCTTCTAAACACTGCTCAGAATTCCACAGAGCCA-CCTTGGCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Pairagon GTGAAG--------ACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTAC----CTTCTAAACACTGCTCAGAATTCCACAGAGCCA-CCTTGGCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Exonerate_protein2genome GTG---AAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG tgatagggagagatacccccccattaggagcccttgcctgtgtgccacagGTGAAAAAAACACTACCTTCTAAACACTGCTCAGAATTCCACAGAGCCACCTTGGCCCCCCCGACGCCAGTAGgtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from Exonerate_coding2genome tgatagggagagatacccccccattaggagcccttgcctgtgtgccacaggtgaaaaaaacactaccttctaaacactgctcagaattccacagagccaccttggcccccccgacgccagtaggtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa Alignment from GeneWise tgatagggagagatacccccccattaggagcccttgcctgtgtgccacaggtgaaaaaaacactaccttctaaacactgctcagaattccacagagccaccttggcccccccgacgccagtaggtacaactgcatgccatggcttgcaggggagggattgagggctttcttaa #### Noc3l_ID7658_17 --> 2 - 0 Original Alignment gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTT-CTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT accaacatcatcctaccaatgaacacctaggatgtgtgtcttccctgcaggcACGACTAATGATGGCATAGGGATAGTACTTCACTGCTTGGATGTCATGGTTAGTAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATCGCCTTCATCAAGCATCTTTGTACCCTGGCATTGCAAGTTCCTTCCAAATTCAAGCAATGGGCTTCTACCAACCA-AAGGGTACTGATGCATgtaaggtcaagggccttgaggtggtgcaggtcaatcaggctacagtctag Alignment from CESAR gtGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTT-CTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT accaacatcatcctaccaatgaacacctaggatgtgtgtcttccctgcaggcACGACTAATGATGGCATAGGGATAGTACTTCACTGCTTGGATGTCATGGTTAGTAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATCGCCTTCATCAAGCATCTTTGTACCCTGGCATTGCAAGTTCCTTCCAAATTCAAGCAATGGGCTTCTACCAACC-AAAGGGTACTGATGCATgtaaggtcaagggccttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Spaln_aa2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT accaacatcatcctaccaatgaacacctaggatgtgtgtcttccctgcagGCACGACTAATGATGGCATAGGGATAGTACTTCACTGCTTGGATGTCATGGTTAGTAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATCGCCTTCATCAAGCATCTTTGTACCCTGGCATTGCAAGTTCCTTCCAAATTCAAGCAATGGGCTTCTACCAACCAAAGGGTACTGATGCATgtaaggtcaagggccttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Spaln_nt2Genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAG-GTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT accaacatcatcctaccaatgaacacctaggatgtgtgtcttccctgcagGCACGACTAATGATGGCATAGGGATAGTACTTCACTGCTTGGATGTCATGGTTAGTAAATGCAGAAAGCATGTCTC---TCAGAGGGCTATCGCCTTCATCAAGCATCTTTGTACCCTGGCATTGCAAGTTCCTTCCAAATTCAAGCAATGGGCTTCTACCAACCA-AAGGGTACTGATGCATgtaaggtcaagggccttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Pairagon GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTT-CTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT accaacatcatcctaccaatgaacacctaggatgtgtgtcttccctgcagGCACGACTAATGATGGCATAGGGATAGTACTTCACTGCTTGGATGTCATGGTTAGTAAATGCAGAAAGCATGTCTC---TCAGAGGGCTATCGCCTTCATCAAGCATCTTTGTACCCTGGCATTGCAAGTTCCTTCCAAATTCAAGCAATGGGCTTCTACCAACCA-AAGGGTACTGATGCATgtaaggtcaagggccttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Exonerate_protein2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT accaacatcatcctaccaatgaacacctaggatgtgtgtcttccctgcagGCACGACTAATGATGGCATAGGGATAGTACTTCACTGCTTGGATGTCATGGTTAGTAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATCGCCTTCATCAAGCATCTTTGTACCCTGGCATTGCAAGTTCCTTCCAAATTCAAGCAATGGGCTTCTACCAACCAAAGGGTACTGATGCATgtaaggtcaagggccttgaggtggtgcaggtcaatcaggctacagtctag Alignment from Exonerate_coding2genome GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT accaacatcatcctaccaatgaacacctaggatgtgtgtcttccctgcagGCACGACTAATGATGGCATAGGGATAGTACTTCACTGCTTGGATGTCATGGTTAGTAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATCGCCTTCATCAAGCATCTTTGTACCCTGGCATTGCAAGTTCCTTCCAAATTCAAGCAATGGGCTTCTACCAACCAAAGGGTACTGATGCATgtaaggtcaagggccttgaggtggtgcaggtcaatcaggctacagtctag Alignment from GeneWise GTGCCACCAACGACGGCATTGAGATTGTGCTCCACTGCCTCGATGTCATGCTAAGCAAGCGCAGAAAGCAGGTTTCTCATCAGCGAGCTCTTGCCTTCATCAAACGCCTTTGTACACTTGCTCTGCAGGTTCTTCCAAATTCAAGCATTGGCCTTTTAGCAACTACCAGGATATTGATGCAT accaacatcatcctaccaatgaacacctaggatgtgtgtcttccctgcagGCACGACTAATGATGGCATAGGGATAGTACTTCACTGCTTGGATGTCATGGTTAGTAAATGCAGAAAGCATGTCTCT---CAGAGGGCTATCGCCTTCATCAAGCATCTTTGTACCCTGGCATTGCAAGTTCCTTCCAAATTCAAGCAATGGGCTTCTACCAACCAAAGGGTACTGATGCATgtaaggtcaagggccttgaggtggtgcaggtcaatcaggctacagtctag #### Noc3l_ID7659_16 --> 2 - 1 Original Alignment gtGATGTTTTAAATATTGAC-CCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg cattctgccaccctttcatttcaataaaaaatctgtttgtttccttgcaggaGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCA------CAAACAC-ATTTACATTGCATGCAggtgagttattgtagcttaaagcctttatatgcagtaatgctagtattaga Alignment from CESAR gtGATGTTTTAAATATTGAC-CCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAg cattctgccaccctttcatttcaataaaaaatctgtttgtttccttgcaggaGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCA------CAAACA-CATTTACATTGCATGCAggtgagttattgtagcttaaagcctttatatgcagtaatgctagtattaga Alignment from Spaln_aa2Genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACA---CTGTTCACATTACATGCAG cattctgccaccctttcatttcaataaaaaatctgtttgtttccttgcagGAGATGATTTGAATATTGACCCCAATGAAATT---------TTATACCCCACAAACACATTTACATTGCATGCAGgtgagttattgtagcttaaagcctttatatgcagtaatgctagtattaga Alignment from Spaln_nt2Genome GTGATGTTTTAAATATTGACCCGA-TGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattctgccaccctttcatttcaataaaaaatctgtttgtttccttgcagGAGATGATTTGAATATTGACCCCAATGAAATTTTATA-----CCCCACAA-ACAC-ATTTACATTGCATGCAGgtgagttattgtagcttaaagcctttatatgcagtaatgctagtattaga Alignment from Pairagon ----------------------------------------------------GATGTTTTAAATATTGA-CCCGATGAAATTCTAT---------ACACATCTCTACAAGACACTGTTCACATTACATGCAG CATTCTGCCACCCTTTCATTTCAATAAAAAATCTGTTTGTTTCCTTGCAGGAGATGATTTGAATATTGACCCCAATGAAATTTTATACCCCACAAACACA----------------TTTACATTGCATGCAGgtgagttattgtagcttaaagcctttatatgcagtaatgctagtattaga Alignment from Exonerate_protein2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAG cattctgccaccctttcatttcaataaaaaatctgtttgtttccttgcagGAGATGATTTGAATATTGACCCCAATGAAATTTTA------TACCCCACAAACACATTTACATTGCATGCAGgtgagttattgtagcttaaagcctttatatgcagtaatgctagtattaga Alignment from Exonerate_coding2genome cattctgccaccctttcatttcaataaaaaatctgtttgtttccttgcaggagatgatttgaatattgaccccaatgaaattttataccccacaaacacatttacattgcatgcaggtgagttattgtagcttaaagcctttatatgcagtaatgctagtattaga Alignment from GeneWise GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACA---CTGTTCACATTACATGCAG cattctgccaccctttcatttcaataaaaaatctgtttgtttccttgcagGAGATGATTTGAATATTGACCCCAATGAAATT---------TTATACCCCACAAACACATTTACATTGCATGCAGgtgagttattgtagcttaaagcctttatatgcagtaatgctagtattaga #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGATGATTTCCAACTCCAACCA-CCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCC-AGTTCGAATC---------CATCACATTggtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from CESAR CTCAGTGTGGATGATTTCCAACTCCAACCA-CCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCg tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAG-GCCAGTTCGAATC---------CATCACATTggtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Spaln_aa2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCCaGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCAGTTCGAATCCATCACA------TTGGTAAgtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Spaln_nt2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGG-CCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Pairagon CTCAGTGTGGATGATTTCCAACTCCAACCACCT-GTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGG-CCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from Exonerate_coding2genome tcatcattgatacccattaaaaagtactaccacccctgatctctacccagcttggagtcgatgatctccagcttcaaccccccagtttcctttcgattgaggtcaggttcaggccagttcgaatccatcacattggtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca Alignment from GeneWise CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG tcatcattgatacccattaaaaagtactaccacccctgatctctacccagCTTGGAGTCGATGATCTCCAGCTTCAACCCCCCAGTTTCCTTTCGATTGAGGTCAGGTTCAGGCCAGTTCGAATC---------CATCACATTGgtaagtgggcagaattgtgtagactattatgcagtgcatggtcagcaaca #### Npm3_ID9577_3 --> 0 - 0 Original Alignment CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAA-GTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAACGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTT-TGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from CESAR CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAA-GTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAACGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTT-TTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Spaln_aa2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAACGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTTTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Spaln_nt2Genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAA-GTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAACGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTT-TTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Pairagon CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAA-GTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAACGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTT-TTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAA-GTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTT--CCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAACGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTTT---GTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcttcttcagccggtattatcaaacgcaaatcctcaaatttaaatttcagCTCTGCCTTACTGAGGCCGCCACTGATGAGTGTAATGTGATAGAACGTTGTTGCTCGGGACTATGGCAACCAGGAAATTGCAGTTTTGTTGCAAACCTCAGGCTGTATTGCCAACCAATGgtaaggttgaagcactcattactgtggggacctaatgttcaatcatcatt #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccaggtTGTGAGCTCTCTGATCACCACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATG-CACAGAGCAGGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from CESAR gtTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccaggtTGTGAGCTCTCTGATCACCACACGTTCATTCACTTTCAATGTTGCAGAGGAAGAT-GCACAGAGCAGGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGCACAGAGCAGGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Spaln_nt2Genome GTTGTGAGCTCTCCGGCCAC-ACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATG-CACAGAGCAGGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Pairagon GTTGTGAGCTCTCCGGCCA-CACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATG-CACAGAGCAGGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGCACAGAGCAGGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from Exonerate_coding2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGCACAGAGCAGGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc Alignment from GeneWise GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG gacttggttcaggatgtgcctagaaggcgcttcctgctctccctgtccagGTTGTGAGCTCTCTGATCACCACACGTTCATTCACTTTCAATGTTGCAGAGGAAGATGCACAGAGCAGGTGCTTGCGTTGAACATGgtaggtggtgcaagaaaatttggttcagcacacccttggtcttatctttc #### Nrxn2_ID1761_12 --> 2 - 1 Original Alignment gtAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTG-GTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGg tgcataagagacttcctgctgatttctctattgccctggtcttctttcaggtAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCACATGGTGAGGGTGCGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTG-CAATGTGACTGTGGAGggtaggtggttgagactgcccctgtggttgggagtcctgctcaatctcatt Alignment from CESAR gtAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTG-GTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGg tgcataagagacttcctgctgatttctctattgccctggtcttctttcaggtAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCACATGGTGAGGGTGCGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTT-GCAATGTGACTGTGGAGggtaggtggttgagactgcccctgtggttgggagtcctgctcaatctcatt Alignment from Spaln_aa2Genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcataagagacttcctgctgatttctctattgccctggtcttctttcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCACATGGTGAGGGTGCGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGCAATGTGACTGTGGAGGgtaggtggttgagactgcccctgtggttgggagtcctgctcaatctcatt Alignment from Spaln_nt2Genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTG-GTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcataagagacttcctgctgatttctctattgccctggtcttctttcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCACATGGTGAGGGTGCGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTG-CAATGTGACTGTGGAGGgtaggtggttgagactgcccctgtggttgggagtcctgctcaatctcatt Alignment from Pairagon GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTG-GTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcataagagacttcctgctgatttctctattgccctggtcttctttcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCACATGGTGAGGGTGCGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTG-CAATGTGACTGTGGAGGgtaggtggttgagactgcccctgtggttgggagtcctgctcaatctcatt Alignment from Exonerate_protein2genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcataagagacttcctgctgatttctctattgccctggtcttctttcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCACATGGTGAGGGTGCGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGCAATGTGACTGTGGAGGgtaggtggttgagactgcccctgtggttgggagtcctgctcaatctcatt Alignment from Exonerate_coding2genome GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcataagagacttcctgctgatttctctattgccctggtcttctttcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCACATGGTGAGGGTGCGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGCAATGTGACTGTGGAGGgtaggtggttgagactgcccctgtggttgggagtcctgctcaatctcatt Alignment from GeneWise GTAAAGGCCCCGAGACACTGTTTGCGGGGCACAAGCTGAATGACAATGAATGGCACACGGTGAGGGTGGTCCGGCGTGGCAAGAGCCTGCAGCTGTCCGTGGACAACGTGACTGTGGAGG tgcataagagacttcctgctgatttctctattgccctggtcttctttcagGTAAAGGTCCTGAAACACTGTTTGCAGGGCACAAACTAAATGACAATGAGTGGCACATGGTGAGGGTGCGTCCAGCATGGCAAGAGCCTCCAGCTATTTGTTGCAATGTGACTGTGGAGGgtaggtggttgagactgcccctgtggttgggagtcctgctcaatctcatt #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTG-ATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTCATGCGTTATGCAGACCTCTACACATCCTCATTCA-TAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from CESAR AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTG-ATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTCATGCGTTATGCAGACCTCTACACATCCTCATTCA-TAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Spaln_aa2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTCATGCGTTATGCAGACCTCTACACATCCTCATTCATAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Spaln_nt2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTG-ATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTCATGCGTTATGCAGACCTCTACACATCCTCATTCAT-AACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Pairagon ---------------------------------------------TTAAGAAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAG-TGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG GGATTGCCAAAGGATTAGATACTGGCACCTTTTTCTTGTCTACATTTAAGGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTCATGCGTTATGCAGACCTCTACACATCCTCATTCAT-AACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Exonerate_protein2genome AGACGGATTAAGAAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgTCTACATTTAAGGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTCATGCGTTATGCAGACCTCTACACATCCTCATTCATAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from Exonerate_coding2genome TTAAGAAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatTTAAGGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTCATGCGTTATGCAGACCTCTACACATCCTCATTCATAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta Alignment from GeneWise AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG ggattgccaaaggattagatactggcacctttttcttgtctacatttaagGAAGTAACTCATGATATGGATATGTGCTATGGCATGATGGGAAGTTTGTTCCGGAGTAGCTCCCAGCAGACACTCTTTGCCAGCTTAGTTCATGCGTTATGCAGACCTCTACACATCCTCATTCATAACCTACTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCACGTCCTGgtgagcactggtctatatggctaccacatgatgcaacatcagagtcacta #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagaccaatgagaaaggtgagaaaaaaaaaaatctccttttagAAAACTGGAAAACTACAAAAATGGC---TACACAGGCCCTTTACAACAT---G-TGTCTATTCTGGGggtgagtaggccattggcctgcaaggggtcttttcatggaaggtactcttt Alignment from CESAR AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgagtaccagaccaatgagaaaggtgagaaaaaaaaaaatctccttttagAAAACTGGAAAACTACAAAAATGGC---TACACAGGCCCTTTACAACAT---G-TGTCTATTCTGGGggtgagtaggccattggcctgcaaggggtcttttcatggaaggtactcttt Alignment from Spaln_aa2Genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagaccaatgagaaaggtgagaaaaaaaaaaatctccttttagAAAACTGGAAAACTACAAAAATGGCTACAC---AGGCCCTTTACAACATGT---GTCTATTCTGGGGgtgagtaggccattggcctgcaaggggtcttttcatggaaggtactcttt Alignment from Spaln_nt2Genome AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagaccaatgagaaaggtgagaaaaaaaaaaatctccttttagAAAACTGGAAAACTACAAAAATGG---CTACACAGGCCCTTTACAACATG----TGTCTATTCTGGGGgtgagtaggccattggcctgcaaggggtcttttcatggaaggtactcttt Alignment from Pairagon AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgagtaccagaccaatgagaaaggtgagaaaaaaaaaaatctccttttagAAAACTGGAAAACTACAAAAATGG---CTACACAGGCCCTTTACAACATG----TGTCTATTCTGGGGgtgagtaggccattggcctgcaaggggtcttttcatggaaggtactcttt Alignment from Exonerate_protein2genome AAAACTGGAAAACTG-AAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGGGTT tgagtaccagaccaatgagaaaggtgagaaaaaaaaaaatctccttttagAAAACTGGAAAACTACAAAAATGGC---TACACAGGCCCTTTACAACAT---GTGTCTATTCTGGGGGTGAgtaggccattggcctgcaaggggtcttttcatggaaggtactcttt Alignment from Exonerate_coding2genome tgagtaccagaccaatgagaaaggtgagaaaaaaaaaaatctccttttagaaaactggaaaactacaaaaatggctacacaggccctttacaacatgtgtctattctgggggtgagtaggccattggcctgcaaggggtcttttcatggaaggtactcttt Alignment from GeneWise --------------ACTGGAAAACTGAAAATTGGCACCTACA tgagtaccagaccaatgagaaaggtgagaaaaaaaaaaatctccttttagaaaactggaaaactacaaaaatggctacacaggccctttacaacatgtgtctattctgggggtgagtagGCCATTGGCCTGCAAGGGGTCTTTTCATGGAAGGTACTCTTT #### Nudt22_ID1972_3 --> 0 - 2 Original Alignment GTGAACCTGCCA-CTGCACACCTTGAGCCAGCCACTGTTGTTGGGAATCGCTTGCAATGAGACCAGCGCGGGCAGAGCCAGTGCAGAGTTCTATGTCca ctaatgataggatttattccattgacttttcacttccctttgcttcccagGTAAACCTGCCACCTCCACATCCTGAGCCAGCCACTGTTGT-GAGGATTGCTTGCAACCAGACAAGTGCAGGC---ACTAGTGCAGAGTTCTATGTCcagtaagtgaaggcatggtgtgggcaaggtactcaacaagggaggatctaga Alignment from CESAR GTGAACCTGCCA-CTGCACACCTTGAGCCAGCCACTGTTGTTGGGAATCGCTTGCAATGAGACCAGCGCGGGCAGAGCCAGTGCAGAGTTCTATGTCca ctaatgataggatttattccattgacttttcacttccctttgcttcccagGTAAACCTGCCACCTCCACATCCTGAGCCAGCCACTGT-TGTGAGGATTGCTTGCAACCAGACAAGTGCAGGC---ACTAGTGCAGAGTTCTATGTCcagtaagtgaaggcatggtgtgggcaaggtactcaacaagggaggatctaga Alignment from Spaln_aa2Genome GTGAACCTGCCACTGCACACCTTGAGCCAGCCACTGTTGTTGGGAATCGCTTGCAATGAGACCAGCGCGGGCAGAGCCAGTGCAGAGTTCTATGTCCA ctaatgataggatttattccattgacttttcacttccctttgcttcccagGTAAACCTGCCACCTCCACATCCTGAGCCAGCCACTGTTGTGAGGATTGCTTGCAACCAGACAAGTGCAGGC---ACTAGTGCAGAGTTCTATGTCCAgtaagtgaaggcatggtgtgggcaaggtactcaacaagggaggatctaga Alignment from Spaln_nt2Genome GTGAACCTGCCAC-TGCACACCTTGAGCCAGCCACTGTTGTTGGGAATCGCTTGCAATGAGACCAGCGCGGGCAGAGCCAGTGCAGAGTTCTATGTCCA ctaatgataggatttattccattgacttttcacttccctttgcttcccagGTAAACCTGCCACCTCCACATCCTGAGCCAGCCACTGTTG-TGAGGATTGCTTGCAACCAGACAAGTGCAGGCA---CTAGTGCAGAGTTCTATGTCCAgtaagtgaaggcatggtgtgggcaaggtactcaacaagggaggatctaga Alignment from Pairagon GTGAACCTGCCA-CTGCACACCTTGAGCCAGCCACTGTTGTTGGGAATCGCTTGCAATGAGACCAGCGCGGGCAGAGCCAGTGCAGAGTTCTATGTCCA ctaatgataggatttattccattgacttttcacttccctttgcttcccagGTAAACCTGCCACCTCCACATCCTGAGCCAGCCACTGTTG-TGAGGATTGCTTGCAACCAGACAAGTGCAGGCA---CTAGTGCAGAGTTCTATGTCCAgtaagtgaaggcatggtgtgggcaaggtactcaacaagggaggatctaga Alignment from Exonerate_protein2genome GTGAACCTGCCACTGCACACCTTGAGCCAGCCACTGTTGTTGGGAATCGCTTGCAATGAGACCAGCGCGGGCAGAGCCAGTGCAGAGTTCTATGTCCA ctaatgataggatttattccattgacttttcacttccctttgcttcccagGTAAACCTGCCACCTCCACATCCTGAGCCAGCCACTGTTGTGAGGATTGCTTGCAACCAGACAAGTGCAGGC---ACTAGTGCAGAGTTCTATGTCCAgtaagtgaaggcatggtgtgggcaaggtactcaacaagggaggatctaga Alignment from Exonerate_coding2genome ctaatgataggatttattccattgacttttcacttccctttgcttcccaggtaaacctgccacctccacatcctgagccagccactgttgtgaggattgcttgcaaccagacaagtgcaggcactagtgcagagttctatgtccagtaagtgaaggcatggtgtgggcaaggtactcaacaagggaggatctaga Alignment from GeneWise GTGAACCTGCCACTGCACACCTTGAGCCAGCCACTGTTGTTGGGAATCGCTTGCAATGAGACCAGCGCGGGCAGAGCCAGTGCAGAGTTCTATGTCCA ctaatgataggatttattccattgacttttcacttccctttgcttcccagGTAAACCTGCCACCTCCACATCCTGAGCCAGCCACTGTTGTGAGGATTGCTTGCAACCAGACAAGTGCAGGC---ACTAGTGCAGAGTTCTATGTCCAgtaagtgaaggcatggtgtgggcaaggtactcaacaagggaggatctaga #### Nudt8_ID268_3 --> 0 - 0 Original Alignment GAAAAGGCAACCATAGTC-CCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attcacaacagacatccggatttgactgtttggtcctctcacacctgcagGACAAGGCAAGCTTAGTCCCCTGTTCTTGCAAATGTGGGCCCTTTGGATTTAC-GAGCCTGAGGCCCAATCTTGAGGAGgtaagtggaacacaattttggactagtggacttaggagtggatgcgtgtc Alignment from CESAR GAAAAGGCAACCATAGTC-CCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attcacaacagacatccggatttgactgtttggtcctctcacacctgcagGACAAGGCAAGCTTAGTCCCCTGTTCTTGCAAATGTGGGCCCTTTGGATTTA-CGAGCCTGAGGCCCAATCTTGAGGAGgtaagtggaacacaattttggactagtggacttaggagtggatgcgtgtc Alignment from Spaln_aa2Genome GAAAAGGCAACCATAGTC-CCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attcacaacagacatccggatttgactgtttggtcctctcacacctgcagGACAAGGCAAGCTTAGTCcCCTGTTCTTGCAAATGTGGGCCCTTTGGATTTACG-AGCCTGAGGCCCAATCTTGAGGAGgtaagtggaacacaattttggactagtggacttaggagtggatgcgtgtc Alignment from Spaln_nt2Genome GAAAAGGCAACCATAGTCCCA-GTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attcacaacagacatccggatttgactgtttggtcctctcacacctgcagGACAAGGCAAGCTTAGTCCCCTGTTCTTGCAAATGTGGGCCCTTTGGATTTAC-GAGCCTGAGGCCCAATCTTGAGGAGgtaagtggaacacaattttggactagtggacttaggagtggatgcgtgtc Alignment from Pairagon GAAAAGGCAACCATAGTCCCA-GTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attcacaacagacatccggatttgactgtttggtcctctcacacctgcagGACAAGGCAAGCTTAGTCCCCTGTTCTTGCAAATGTGGGCCCTTTGGATTTAC-GAGCCTGAGGCCCAATCTTGAGGAGgtaagtggaacacaattttggactagtggacttaggagtggatgcgtgtc Alignment from Exonerate_protein2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attcacaacagacatccggatttgactgtttggtcctctcacacctgcagGACAAGGCAAGCTTAGTCCCCTGTTCTTGCAAATGTGGGCCCTTTGGATTTACGAGCCTGAGGCCCAATCTTGAGGAGgtaagtggaacacaattttggactagtggacttaggagtggatgcgtgtc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG attcacaacagacatccggatttgactgtttggtcctctcacacctgcagGACAAGGCAAGCTTAGTCCCCTGTTCTTGCAAATGTGGGCCCTTTGGATTTACGAGCCTGAGGCCCAATCTTGAGGAGgtaagtggaacacaattttggactagtggacttaggagtggatgcgtgtc #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment TTTCACTATGAAAATACACGG-GCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG ttgagtagcctcatccggtgaggaatatagtgttcatcttctttcctcagTTTCATCATGAAAATACACGCCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCA-ATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtgagcgcagccaaaattagagaatggactggtcgtatctacttttctac Alignment from CESAR TTTCACTATGAAAATACACGG-GCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG ttgagtagcctcatccggtgaggaatatagtgttcatcttctttcctcagTTTCATCATGAAAATACACGCCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCC-AATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtgagcgcagccaaaattagagaatggactggtcgtatctacttttctac Alignment from Spaln_aa2Genome TTTCACTATGAAAATACACGG-GCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcctcatccggtgaggaatatagtgttcatcttctttcctcagTTTCATCATGAAAATACACGCcAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCAA-TTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtgagcgcagccaaaattagagaatggactggtcgtatctacttttctac Alignment from Spaln_nt2Genome TTTCACTATGAAAATACACGGGCC-CATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG ttgagtagcctcatccggtgaggaatatagtgttcatcttctttcctcagTTTCATCATGAAAATACACGCCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTC-CAATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtgagcgcagccaaaattagagaatggactggtcgtatctacttttctac Alignment from Pairagon TTTCACTATGAAAATACACGGGCC---CATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcctcatccggtgaggaatatagtgttcatcttctttcctcagTTTCATCATGAAAATACAC--GCCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCA-ATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtgagcgcagccaaaattagagaatggactggtcgtatctacttttctac Alignment from Exonerate_protein2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcctcatccggtgaggaatatagtgttcatcttctttcctcagTTTCATCATGAAAATACACGCCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCAATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtgagcgcagccaaaattagagaatggactggtcgtatctacttttctac Alignment from Exonerate_coding2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAG---ATCCAGGATCGAGAAAACAGAAGG ttgagtagcctcatccggtgaggaatatagtgttcatcttctttcctcagTTTCATCATGAAAATACACGCCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCAATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtgagcgcagccaaaattagagaatggactggtcgtatctacttttctac Alignment from GeneWise TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATC---CAGGATCGAGAAAACAGAAGG ttgagtagcctcatccggtgaggaatatagtgttcatcttctttcctcagTTTCATCATGAAAATACACGCCAATCATTTCTTTGTAGAGGATGCAACTACTGGTTCCAATTAAAAGGTGTGAACCATCAGATCATCCAGGATCGAGAGAACAGACGGgtgagcgcagccaaaattagagaatggactggtcgtatctacttttctac #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment atTTGGTGGCCCAGAACATCGATGTT-GTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagatTTGGTAGCTCAGAACATTGTCGTACATTCTAAACCGGAGGAGTTGCATGGCAGCAA-ACTTCGTACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from CESAR atTTGGTGGCCCAGAACATCGATGTT-GTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagatTTGGTAGCTCAGAACATTGTCGTACATTCTAAACCGGAGGAGTTGCATGGCAGCAA-ACTTCGTACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Spaln_aa2Genome ATTTGGTGGCCCAGAACATCGATGTT-GTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTAcATTCTAAACCGGAGGAGTTGCATGGCAGCAAA-CTTCGTACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Spaln_nt2Genome ATTTGGTGGCCCAGAACATCGATGTTG-TTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTACATTCTAAACCGGAGGAGTTGCATGGCAG-CAAACTTCGTACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Pairagon ATTTGGTGGCCCAGAACATCGATGTTG----TTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACAT---TGTCGTACATTCTAAACCGGAGGAGTTGCATGGCAGCAAACTT-CGTACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTACATTCTAAACCGGAGGAGTTGCATGGCAGCAAACTTCGTACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from Exonerate_coding2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTACATTCTAAACCGGAGGAGTTGCATGGCAGCAAACTTCGTACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg Alignment from GeneWise ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG aggggcccccattttgattagttgtctgatagttttctttaccattctagATTTGGTAGCTCAGAACATTGTCGTACATTCTAAACCGGAGGAGTTGCATGGCAGCAAACTTCGTACCATCAAGGATAACATTCCTGAGgtgtgttttattctctctgtgataattaatcgcgtttacttaattggatg #### Nxf1_ID2354_14 --> 1 - 2 Original Alignment gTACTATGTAATTTATGAC-TCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg ttgcagtaacaaggggtttataaatattattgtattacttctggtctcaggTACTTTGTCATTTGTGACCCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACC-TGACGGTGCTTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCaggtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from CESAR gTACTATGTAATTTATGACTCA-GGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg ttgcagtaacaaggggtttataaatattattgtattacttctggtctcaggTACTTTGTCATTTGTGACCCTAGGAGACCGTCAGGGTCTCCAGCATGCCTAC-CTGACGGTGCTTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCaggtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Spaln_aa2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCTGACGGTGCTTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Spaln_nt2Genome GTACTATGTAATTTATGACTC-AGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACC-TGACGGTGCTTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Pairagon GTACTATGTAATTTATGACTC-AGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACC-TGACGGTGCTTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Exonerate_protein2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCTGACGGTGCTTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from Exonerate_coding2genome ttgcagtaacaaggggtttataaatattattgtattacttctggtctcaggtactttgtcatttgtgaccctaggagaccgtcagggtctccagcatgcctacctgacggtgcttgttgctctctaagcatcccatacaaccctcaaaaccctgtcaggtacttgtacatccattactctatttggcactgtaaaactaactgcaatc Alignment from GeneWise GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG ttgcagtaacaaggggtttataaatattattgtattacttctggtctcagGTACTTTGTCATTTGTGACCCTAGGAGACCGTCAGGGTCTCCAGCATGCCTACCTGACGGTGCTTGTTGCTCTCTAAGCATCCCATACAACCCTCAAAACCCTGTCAGgtacttgtacatccattactctatttggcactgtaaaactaactgcaatc #### Nxf1_ID2356_16 --> 2 - 0 Original Alignment ccCAGCGGTTCCGACTCTTAAAG-CATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagccCAGCGATTCTGC---CTAAAGCCATACACGTTTGAATGTAGTTGCCTTTC-TAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from CESAR ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagccCAGCGATTCTGCCTA--AAGCCATACACGTTTGAATGTAGTTGCCTTTC-TAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from Spaln_aa2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTCTGCCTAA--AGCCATACACGTTTGAATGTAGTTGCCTTTCTAAT-GCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from Spaln_nt2Genome CCCAGCGGTTCCGACTCTTAAAGC-ATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTCTG---CCTAAAGCCATACACGTTTGAATGTAGTTGCCTTTCT-AATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from Pairagon CCCAGCGGTTCCGACTCTTAAAG-CATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTCTG---CCTAAAGCCATACACGTTTGAATGTAGTTGCCTTTCT-AATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAGACAgtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from Exonerate_protein2genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGT gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTCTGCCTAAAGCCATACACG---TTTGAATGTAGTTGCCTTTCTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAGACAGTAAGCGTCTGCTTGatggttatctgtttaattgagaccaaaaagtgagg Alignment from Exonerate_coding2genome gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagcccagcgattctgcctaaagccatacacgtttgaatgtagttgcctttctaatgctttacccaaaactcaacatgacgtcaatgcatttgtagtagacataagtgcacagacagtaagcgtctgcttgatggttatctgtttaattgagaccaaaaagtgagg Alignment from GeneWise CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTC- gaatttaggggtttaattctaaagcttgaaatacaatcttttattttaagCCCAGCGATTCTGCCTAAAGCCATACACG---TTTGAATGTAGTTGCCTTTCTAATGCTTTACCCAAAACTCAACATGACGTCAATGCATTTGTAGTAGACATAAGTGCACAGACAGTAAGCGTCTGCTTGATGGTTATCTgtttaattgagaccaaaaagtgagg #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGA-GATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg tggtaactctttagtacctcaaggcactgacttgacctttcttgccaaagtaGATGGGAAGTTTCGACGATTCTTTACATGCCTATGCCAGGACATTCATTGCAG-TCCTGCAAGTAATACGgggtaagtagccccgattgattaacaatgagaggaatggaggacagaacagt Alignment from CESAR tgGATGGGAAGTCTCGA-GATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAgg tggtaactctttagtacctcaaggcactgacttgacctttcttgccaaagtaGATGGGAAGTTTCGACGATTCTTTACATGCCTATGCCAGGACATTCATTGCAG-TCCTGCAAGTAATACGgggtaagtagccccgattgattaacaatgagaggaatggaggacagaacagt Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG tggtaactctttagtacctcaaggcactgacttgacctttcttgccaaagTAGATGGGAAGTTTCGACGATTCTTTACATGCCTATGCCAGGACATTCATTGCAGTCCTGCAAGTAATACGGGgtaagtagccccgattgattaacaatgagaggaatggaggacagaacagt Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGA-GATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG tggtaactctttagtacctcaaggcactgacttgacctttcttgccaaagTAGATGGGAAGTTTCGACGATTCTTTACATGCCTATGCCAGGACATTCATTGCAG-TCCTGCAAGTAATACGGGgtaagtagccccgattgattaacaatgagaggaatggaggacagaacagt Alignment from Pairagon TGGATGGGAAGTCTCGA-GATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG tggtaactctttagtacctcaaggcactgacttgacctttcttgccaaagTAGATGGGAAGTTTCGACGATTCTTTACATGCCTATGCCAGGACATTCATTGCAG-TCCTGCAAGTAATACGGGgtaagtagccccgattgattaacaatgagaggaatggaggacagaacagt Alignment from Exonerate_protein2genome AGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGG tggtaactctttagtacctcaaggcactgacttgacctttcttgccaaAGTAGATGGGAAGTTTCGACGATTCTTTACATGCCTATGCCAGGACATTCATTGCAGTCCTGCAAGTAATACGGGgtaagtagccccgattgattaacaatgagaggaatggaggacagaacagt Alignment from Exonerate_coding2genome tggtaactctttagtacctcaaggcactgacttgacctttcttgccaaagtagatgggaagtttcgacgattctttacatgcctatgccaggacattcattgcagtcctgcaagtaatacggggtaagtagccccgattgattaacaatgagaggaatggaggacagaacagt Alignment from GeneWise tggtaactctttagtacctcaaggcactgacttgacctttcttgccaaagtagatgggaagtttcgacgattctttacatgcctatgccaggacattcattgcagtcctgcaagtaatacggggtaagtagccccgattgattaacaatgagaggaatggaggacagaacagt #### Pacs1_ID876_18 --> 2 - 2 Original Alignment agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGA-GCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt tttgaggtatactggaacactactcttactaatgtgttttgctttttcagaaCCACTAGATGTGGTGGGTCATGTGATGCTGTACATCAATGGTCTCTATAACAACACACCAGCTTCCTATCACAGAAG-TATGCTGACCTGCAGACATAAGttgtaagtccatgatgagaactttcaggagaccaggttacactaatagatga Alignment from CESAR agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGA-GCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt tttgaggtatactggaacactactcttactaatgtgttttgctttttcagaaCCACTAGATGTGGTGGGTCATGTGATGCTGTACATCAATGGTCTCTATAACAACACACCAGCTTCCTATCACAGAA-GTATGCTGACCTGCAGACATAAGttgtaagtccatgatgagaactttcaggagaccaggttacactaatagatga Alignment from Spaln_aa2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tttgaggtatactggaacactactcttactaatgtgttttgctttttcagAACCACTAGATGTGGTGGGTCATGTGATGCTGTACATCAATGGTCTCTATAACAACACACCAGCTTCCTATCACAGAAGTATGCTGACCTGCAGACATAAGTTgtaagtccatgatgagaactttcaggagaccaggttacactaatagatga Alignment from Spaln_nt2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAG-CTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tttgaggtatactggaacactactcttactaatgtgttttgctttttcagAACCACTAGATGTGGTGGGTCATGTGATGCTGTACATCAATGGTCTCTATAACAACACACCAGCTTCCTATCACAGAAG-TATGCTGACCTGCAGACATAAGTTgtaagtccatgatgagaactttcaggagaccaggttacactaatagatga Alignment from Pairagon AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGG-AGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tttgaggtatactggaacactactcttactaatgtgttttgctttttcagAACCACTAGATGTGGTGGGTCATGTGATGCTGTACATCAATGGTCTCTATAACAACACACCAGCTTCCTATCACAGAAG-TATGCTGACCTGCAGACATAAGTTgtaagtccatgatgagaactttcaggagaccaggttacactaatagatga Alignment from Exonerate_protein2genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tttgaggtatactggaacactactcttactaatgtgttttgctttttcagAACCACTAGATGTGGTGGGTCATGTGATGCTGTACATCAATGGTCTCTATAACAACACACCAGCTTCCTATCACAGAAGTATGCTGACCTGCAGACATAAGTTgtaagtccatgatgagaactttcaggagaccaggttacactaatagatga Alignment from Exonerate_coding2genome tttgaggtatactggaacactactcttactaatgtgttttgctttttcagaaccactagatgtggtgggtcatgtgatgctgtacatcaatggtctctataacaacacaccagcttcctatcacagaagtatgctgacctgcagacataagttgtaagtccatgatgagaactttcaggagaccaggttacactaatagatga Alignment from GeneWise AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT tttgaggtatactggaacactactcttactaatgtgttttgctttttcagAACCACTAGATGTGGTGGGTCATGTGATGCTGTACATCAATGGTCTCTATAACAACACACCAGCTTCCTATCACAGAAGTATGCTGACCTGCAGACATAAGTTgtaagtccatgatgagaactttcaggagaccaggttacactaatagatga #### Pacs1_ID877_17 --> 2 - 1 Original Alignment gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATAT-AGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg atgctaattgtatgtttggaatgagtaacattccctgttcctgtgtgcaggcTCACATCCTGTAGCC------ATAGGCTCTGTGGACAGCAGGTATCAGCAGTACTTTTCTAGATCCTGCATCAAAAG-TCTATTCAGCCAGTCAGAGCCCCTGGTGTCAggtgagtcccattagtagcagtttgctacctttggtactatctcctatgac Alignment from CESAR gtTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATAT-AGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAg atgctaattgtatgtttggaatgagtaacattccctgttcctgtgtgcaggcTCACATCCTGTAGCC------ATAGGCTCTGTGGACAGCAGGTATCAGCAGTACTTTTCTAGATCCTGCA-TCAAAAGTCTATTCAGCCAGTCAGAGCCCCTGGTGTCAggtgagtcccattagtagcagtttgctacctttggtactatctcctatgac Alignment from Spaln_aa2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG atgctaattgtatgtttggaatgagtaacattccctgttcctgtgtgcagGCTCACATCCTGTAGCC------ATAGGCTCTGTGGACAGCAGGTATCAGCAGTACTTTTCTAGATCCTGCATCAAAAGTCTATTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgagtcccattagtagcagtttgctacctttggtactatctcctatgac Alignment from Spaln_nt2Genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATAT-AGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG atgctaattgtatgtttggaatgagtaacattccctgttcctgtgtgcagGCTCACATCCTGTAGCCA------TAGGCTCTGTGGACAGCAGGTATCAGCAGTACTTTTCTAGATCCTGCATCAAAAG-TCTATTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgagtcccattagtagcagtttgctacctttggtactatctcctatgac Alignment from Pairagon ----------------------------------------------------TCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATAT-AGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG ATGCTAATTGTATGTTTGGAATGAGTAACATTCCCTGTTCCTGTGTGCAGGCTCACATCCTGTAGCCA------TAGGCTCTGTGGACAGCAGGTATCAGCAGTACTTTTCTAGATCCTGCATCAAAAG-TCTATTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgagtcccattagtagcagtttgctacctttggtactatctcctatgac Alignment from Exonerate_protein2genome GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG atgctaattgtatgtttggaatgagtaacattccctgttcctgtgtgcagGCTCACATCCTGTAGCC------ATAGGCTCTGTGGACAGCAGGTATCAGCAGTACTTTTCTAGATCCTGCATCAAAAGTCTATTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgagtcccattagtagcagtttgctacctttggtactatctcctatgac Alignment from Exonerate_coding2genome atgctaattgtatgtttggaatgagtaacattccctgttcctgtgtgcaggctcacatcctgtagccataggctctgtggacagcaggtatcagcagtacttttctagatcctgcatcaaaagtctattcagccagtcagagcccctggtgtcaggtgagtcccattagtagcagtttgctacctttggtactatctcctatgac Alignment from GeneWise GTTCTCATCCAGTGGCCAAATACTTGGGCTCAGTAGATAGTAGATATAGCAGCACCTTTCTTGATTCTGCCTGGAGAGACCTATTCAGTCGCTCAGAGCCTCCAGTGTCAG atgctaattgtatgtttggaatgagtaacattccctgttcctgtgtgcagGCTCACATCCTGTAGCC------ATAGGCTCTGTGGACAGCAGGTATCAGCAGTACTTTTCTAGATCCTGCATCAAAAGTCTATTCAGCCAGTCAGAGCCCCTGGTGTCAGgtgagtcccattagtagcagtttgctacctttggtactatctcctatgac #### Patl1_ID3332_17 --> 0 - 2 Original Alignment TTTGGCTTGTCA-CTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg tgaccatggggttcgatatctgaacatgcagccactcattcaccctccagTTTGGGTTGTCACCTGCTCTTAATCCTACTGAGCCGAGGAGAAG-CCTGCAGAGCTCTGATCCAGCTATAGAACTTACGCAGAATAATCAGtggtgagctactgtagcgggccatgtgaatcaactttgttgccttccatgtc Alignment from CESAR TTTGGCTTGTCA-CTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGtg tgaccatggggttcgatatctgaacatgcagccactcattcaccctccagTTTGGGTTGTCACCTGCTCTTAATCCTACTGAGCCGAGGAGAA-GCCTGCAGAGCTCTGATCCAGCTATAGAACTTACGCAGAATAATCAGtggtgagctactgtagcgggccatgtgaatcaactttgttgccttccatgtc Alignment from Spaln_aa2Genome -TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccatggggttcgatatctgaacatgcagccactcattcaccctccagTTTGGGTTGTCACCTGCTCTTAATCCTACTGAGCCGAGGAGAAGC-CTGCAGAGCTCTGATCCAGCTATAGAACTTACGCAGAATAATCAGTGgtgagctactgtagcgggccatgtgaatcaactttgttgccttccatgtc Alignment from Spaln_nt2Genome TTTGGCTTGTCAC-TGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccatggggttcgatatctgaacatgcagccactcattcaccctccagTTTGGGTTGTCACCTGCTCTTAATCCTACTGAGCCGAGGAGAAGC-CTGCAGAGCTCTGATCCAGCTATAGAACTTACGCAGAATAATCAGTGgtgagctactgtagcgggccatgtgaatcaactttgttgccttccatgtc Alignment from Pairagon TTTGGCTTGTCA-CTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccatggggttcgatatctgaacatgcagccactcattcaccctccagTTTGGGTTGTCACCTGCTCTTAATCCTACTGAGCCGAGGAGAAG-CCTGCAGAGCTCTGATCCAGCTATAGAACTTACGCAGAATAATCAGTGgtgagctactgtagcgggccatgtgaatcaactttgttgccttccatgtc Alignment from Exonerate_protein2genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccatggggttcgatatctgaacatgcagccactcattcaccctccagTTTGGGTTGTCACCTGCTCTTAATCCTACTGAGCCGAGGAGAAGCCTGCAGAGCTCTGATCCAGCTATAGAACTTACGCAGAATAATCAGTGgtgagctactgtagcgggccatgtgaatcaactttgttgccttccatgtc Alignment from Exonerate_coding2genome TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccatggggttcgatatctgaacatgcagccactcattcaccctccagTTTGGGTTGTCACCTGCTCTTAATCCTACTGAGCCGAGGAGAAGCCTGCAGAGCTCTGATCCAGCTATAGAACTTACGCAGAATAATCAGTGgtgagctactgtagcgggccatgtgaatcaactttgttgccttccatgtc Alignment from GeneWise TTTGGCTTGTCACTGCTCCTAATCCTACTAAGCCGTGGAGAAGACCTACAGAGTTCAGATCCTGCTATAGAATCAACGCAAAATAACCAGTG tgaccatggggttcgatatctgaacatgcagccactcattcaccctccagTTTGGGTTGTCACCTGCTCTTAATCCTACTGAGCCGAGGAGAAGCCTGCAGAGCTCTGATCCAGCTATAGAACTTACGCAGAATAATCAGTGgtgagctactgtagcgggccatgtgaatcaactttgttgccttccatgtc #### Patl1_ID3333_18 --> 1 - 2 Original Alignment gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAA-CCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacaggACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACCTCGACTTCTATTCCACCAAACCTAGCATCTT-TTTATCCCGCTTTGTTGACCGGCAAAAACTGAATCTGCTAGAGACCAAACTCaagttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from CESAR gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAA-CCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacaggACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACCTCGACTTCTATTCCACCAAACCTAGCATCTTTTT-ATCCCGCTTTGTTGACCGGCAAAAACTGAATCTGCTAGAGACCAAACTCaagttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Spaln_aa2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACCTCGACTTCTATTCCACCAAACCTAGCATCTTTTTATCCCGCTTTGTTGACCGGCAAAAACTGAATCTGCTAGAGACCAAACTCAAgttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Spaln_nt2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAAC-CAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACCTCGACTTCTATTCCACCAAACCTAGCAT-CTTTTTATCCCGCTTTGTTGACCGGCAAAAACTGAATCTGCTAGAGACCAAACTCAAgttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Pairagon GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAAC-CAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACCTCGACTTCTATTCCACCAAACCTAGCAT-CTTTTTATCCCGCTTTGTTGACCGGCAAAAACTGAATCTGCTAGAGACCAAACTCAAgttgaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Exonerate_protein2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTG ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACCTCGACTTCTATTCCACCAAACCTAGCATCTTTTTATCCCGCTTTGTTGACCGGCAAAAACTGAATCTGCTAGAGACCAAACTCAAGTTGaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from Exonerate_coding2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTG ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACCTCGACTTCTATTCCACCAAACCTAGCATCTTTTTATCCCGCTTTGTTGACCGGCAAAAACTGAATCTGCTAGAGACCAAACTCAAGTTGaaattgtcacactttttctgctttgtcaggtcagataaactgattg Alignment from GeneWise GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAGGGGATACGG ccccaagttggtgtagctctcatctgtcgagtctgtttgtaattccacagGACAGAAGTGATGTTTATGGCAGCCCAAGAACTGGTCCGGATCCTGCAAGTAGCCCTTTCCAACCTCGACTTCTATTCCACCAAACCTAGCATCTTTTTATCCCGCTTTGTTGACCGGCAAAAACTGAATCTGCTAGAGACCAAACTCAAGTTGAAATTGTCACACTTTttctgctttgtcaggtcagataaactgattg #### Pcnxl3_ID1160_33 --> 1 - 1 Original Alignment aCTTCATAAG---GGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGAC-TCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAg tatgtttacgtgcttcacctcatgcagcgtctcttattattttgttttaggCTTCATAAGAAGGGTTGTGGTGCCGGCTGCAATAGTGGAGGTAATCTTGATGATCGCAGATTGTGGTCGGGGTGGTGGCTTGGCTTCCC-CGGCAACCATCCTCCCTTGGTTCACCCTACGCCAGACAATGTGGCAggtagaggcaagatcttaagaaaattatgaactgaaatgttggccgggtcc Alignment from CESAR aCTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGAC-TCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAg tatgtttacgtgcttcacctcatgcagcgtctcttattattttgttttaggCTTCATAAGAAGGGTTGTGGTGCCGGCTGCAATAGTGGAGGTAATCTTGATGATCGCAGATTGTGGTCGGGGTGGTGGCTTGGCTTCC-CCGGCAACCATCCTCCCTTGGTTCACCCTACGCCAGACAATGTGGCAggtagaggcaagatcttaagaaaattatgaactgaaatgttggccgggcaa Alignment from Spaln_aa2Genome ACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG tatgtttacgtgcttcacctcatgcagcgtctcttattattttgttttagGCTTCATAAGAAGGGTTGTGGTGCCGGCTGCAATAGTGGAGGTAATCTTGATGATCGCAGATTGTGGTCGGGGTGGTGGCTTGGCTTCCCCGGCAACCATCCTCCCTTGGTTCACCCTACGCCAGACAATGTGGCAGgtagaggcaagatcttaagaaaattatgaactgaaatgttggccgggtcc Alignment from Spaln_nt2Genome ACTTCATAAG---GGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGA-CTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG tatgtttacgtgcttcacctcatgcagcgtctcttattattttgttttagGCTTCATAAGAAGGGTTGTGGTGCCGGCTGCAATAGTGGAGGTAATCTTGATGATCGCAGATTGTGGTCGGGGTGGTGGCTTGGCTTCCC-CGGCAACCATCCTCCCTTGGTTCACCCTACGCCAGACAATGTGGCAGgtagaggcaagatcttaagaaaattatgaactgaaatgttggccgggtcc Alignment from Pairagon ACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGA-CTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG tatgtttacgtgcttcacctcatgcagcgtctcttattattttgttttagGCTTCATAAGAAGGGTTGTGGTGCCGGCTGCAATAGTGGAGGTAATCTTGATGATCGCAGATTGTGGTCGGGGTGGTGGCTTGGCTTCCC-CGGCAACCATCCTCCCTTGGTTCACCCTACGCCAGACAATGTGGCAGgtagaggcaagatcttaagaaaattatgaactgaaatgttggccgggtcc Alignment from Exonerate_protein2genome ACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG tatgtttacgtgcttcacctcatgcagcgtctcttattattttgttttagGCTTCATAAGAAGGGTTGTGGTGCCGGCTGCAATAGTGGAGGTAATCTTGATGATCGCAGATTGTGGTCGGGGTGGTGGCTTGGCTTCCCCGGCAACCATCCTCCCTTGGTTCACCCTACGCCAGACAATGTGGCAGgtagaggcaagatcttaagaaaattatgaactgaaatgttggccgggtcc Alignment from Exonerate_coding2genome tatgtttacgtgcttcacctcatgcagcgtctcttattattttgttttaggcttcataagaagggttgtggtgccggctgcaatagtggaggtaatcttgatgatcgcagattgtggtcggggtggtggcttggcttccccggcaaccatcctcccttggttcaccctacgccagacaatgtggcaggtagaggcaagatcttaagaaaattatgaactgaaatgttggccgggtcc Alignment from GeneWise ACTTCATAAG---GGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG tatgtttacgtgcttcacctcatgcagcgtctcttattattttgttttagGCTTCATAAGAAGGGTTGTGGTGCCGGCTGCAATAGTGGAGGTAATCTTGATGATCGCAGATTGTGGTCGGGGTGGTGGCTTGGCTTCCCCGGCAACCATCCTCCCTTGGTTCACCCTACGCCAGACAATGTGGCAGgtagaggcaagatcttaagaaaattatgaactgaaatgttggccgggtcc #### Pcnxl3_ID1163_30 --> 1 - 0 Original Alignment cCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTT-CACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatcctttgaaatggagaggcttctccttttttcctattccagcTTAGAGCCCTTCCTGTATGACCTGCGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCTCCCCGTGATGAGTGG---------GACATAGATTTATTGCCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAA-GCTTCATCATCATCAGgtaagcataattgagcagtgtaggagcaggtgtctcctttaccttgtacc Alignment from CESAR cCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTT-CACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatcctttgaaatggagaggcttctccttttttcctattccagcTTAGAGCCCTTCCTGTATGACCTGCGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCTCCCCGTGATGAGTGG---------GACATAGATTTATTGCCACCAGGTTGTGGCACCAGGGGTACGTATGGCCC-TAAGCTTCATCATCATCAGgtaagcataattgagcagtgtaggagcaggtgtctcctttaccttgtacc Alignment from Spaln_aa2Genome CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTT-CACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG cctcaatgatcctttgaaatggagaggcttctccttttttcctattccagCTTAGAGCCCTTCCTGTATGACCTGCGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCTCCCCGTGATGAGTGG---------GACATAGATTTATTGcCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAGCTTCATCATCatcaggtaagcataattgagcagtgtaggagcaggtgtctcctttaccttgtacc Alignment from Spaln_nt2Genome CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTC-ACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCA------G cctcaatgatcctttgaaatggagaggcttctccttttttcctattccagCTTAGAGCCCTTCCTGTATGACCTGCGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCTCCCCGTGATGAGTGG---------GACATAGATTTATTGCCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCT-AAGCTTCATCATCATCAGgtaagcataattgagcagtgtaggagcaggtgtctcctttaccttgtacc Alignment from Pairagon CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGG--------TCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCAC----------------------------------------------------------- cctcaatgatcctttgaaatggagaggcttctccttttttcctattccagCTTAGAGCCCTTCCTGTATGACCTGCGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCTCCCCGTGATGAGTGGGACATAGATTTATTGC----------------CACCAGGTTGTGGCACCAGGGGTACGTATGGCCCT-AAGCTTCATCATCATCAGGTAAGCATAATTGAGCAGTGTAGGAGCAGGTGTCTCCTTTACCTTGTACC Alignment from Exonerate_protein2genome CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTT-CACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT-----CACCAG cctcaatgatcctttgaaatggagaggcttctccttttttcctattccagCTTAGAGCCCTTCCTGTATGACCTGCGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCTCCCCGTGATGAGTGG---------GACATAGATTTATTGCCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAGCTTCATCATCATCAGgtaagcataattgagcagtgtaggagcaggtgtctcctttaccttgtacc Alignment from Exonerate_coding2genome cctcaatgatcctttgaaatggagaggcttctccttttttcctattccagcttagagcccttcctgtatgacctgcgagctctgtttaagggagatttcaggatcacctctccccgtgatgagtgggacatagatttattgccaccaggttgtggcaccaggggtacgtatggccctaagcttcatcatcatcaggtaagcataattgagcagtgtaggagcaggtgtctcctttaccttgtacc Alignment from GeneWise CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTT------CACCAG cctcaatgatcctttgaaatggagaggcttctccttttttcctattccagCTTAGAGCCCTTCCTGTATGACCTGCGAGCTCTGTTTAAGGGAGATTTCAGGATCACCTCTCCCCGTGATGAGTGG---------GACATAGATTTATTGCCACCAGGTTGTGGCACCAGGGGTACGTATGGCCCTAAGCTTCATCATCATCAGgtaagcataattgagcagtgtaggagcaggtgtctcctttaccttgtacc #### Pcnxl3_ID1164_29 --> 0 - 2 Original Alignment CCCGTGGACCAGGACTGGAATTCACCG-TTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag gggatgttgtcctgggctcttttagtaatcctgctttttttaaatttaagCCTGTGGAACAGGATTGGAATTCACCACTTGGTTACATCATGCTTTGGCTTGTGTGTGTTGGGTC-CCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCaggtaagtgcctgcacacagctaaagaagacccaacaacccattgctagact Alignment from CESAR CCCGTGGACCAGGACTGGAATTCACCG-TTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCag gggatgttgtcctgggctcttttagtaatcctgctttttttaaatttaagCCTGTGGAACAGGATTGGAATTCACCACTTGGTTACATCATGCTTTGGCTTGTGTGTGTTGGGT-CCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCaggtaagtgcctgcacacagctaaagaagacccaacaacccattgctagact Alignment from Spaln_aa2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttgtcctgggctcttttagtaatcctgctttttttaaatttaagCCTGTGGAACAGGATTGGAATTCACCACTTGGTTACATCATGCTTTGGCTTGTGTGTGTTGGGTCCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcacacagctaaagaagacccaacaacccattgctagact Alignment from Spaln_nt2Genome CCCGTGGACCAGGACTGGAATTCACCG-TTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttgtcctgggctcttttagtaatcctgctttttttaaatttaagCCTGTGGAACAGGATTGGAATTCACCACTTGGTTACATCATGCTTTGGCTTGTGTGTGTTGGGTC-CCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcacacagctaaagaagacccaacaacccattgctagact Alignment from Pairagon CCCGTGGACCAGGACTGGAATTCACCG-TTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttgtcctgggctcttttagtaatcctgctttttttaaatttaagCCTGTGGAACAGGATTGGAATTCACCACTTGGTTACATCATGCTTTGGCTTGTGTGTGTTGGGTC-CCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcacacagctaaagaagacccaacaacccattgctagact Alignment from Exonerate_protein2genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttgtcctgggctcttttagtaatcctgctttttttaaatttaagCCTGTGGAACAGGATTGGAATTCACCACTTGGTTACATCATGCTTTGGCTTGTGTGTGTTGGGTCCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcacacagctaaagaagacccaacaacccattgctagact Alignment from Exonerate_coding2genome gggatgttgtcctgggctcttttagtaatcctgctttttttaaatttaagcctgtggaacaggattggaattcaccacttggttacatcatgctttggcttgtgtgtgttgggtcccgggctctgggcacagcagcacacagcatgtcagccaggtaagtgcctgcacacagctaaagaagacccaacaacccattgctagact Alignment from GeneWise CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG gggatgttgtcctgggctcttttagtaatcctgctttttttaaatttaagCCTGTGGAACAGGATTGGAATTCACCACTTGGTTACATCATGCTTTGGCTTGTGTGTGTTGGGTCCCGGGCTCTGGGCACAGCAGCACACAGCATGTCAGCCAGgtaagtgcctgcacacagctaaagaagacccaacaacccattgctagact #### Pcnxl3_ID1167_26 --> 2 - 1 Original Alignment gcGCTGATGACAACAAC-CTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGg acacaatgcacttactttgtttaattgactcctttgttcttcgattgcaggaGCTGATGACAATAACCCTT---TTGCTTTTCTATCAACATTTGACACGCT-ACTGCAACATATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGggtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from CESAR gcGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGg acacaatgcacttactttgtttaattgactcctttgttcttcgattgcaggaGCTGATGACAATAACCCT--TTTGCTTTTCTATCAACATTTGACACGC-TACTGCAACATATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGggtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Spaln_aa2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAACCCT---TTTGCTTTTCTATCAACATTTGACACGCTACTGCAACATATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Spaln_nt2Genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAACC-CTTTTGC-TTTTCTATCAACATTTGACACGCT-ACTGCAACATATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Pairagon GCGCTGATGACAACAACCTCAACTCCATC--------TTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAACC----------CTTTTGCTTTTCTATCAACATTTGACACGCT-ACTGCAACATATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Exonerate_protein2genome GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAAC---CCTTTTGCTTTTCTATCAACATTTGACACGCTACTGCAACATATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from Exonerate_coding2genome acacaatgcacttactttgtttaattgactcctttgttcttcgattgcaggagctgatgacaataacccttttgcttttctatcaacatttgacacgctactgcaacatatgctttgtgatgatctggtcctgggctgctggggcaaccatggtccaggagattgcattgtactggcaccagactacctaaatggacttgtccagctcattgaggttggcaatggtctcatcacctaccagccccatggcctcaagttccggggtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag Alignment from GeneWise GCGCTGATGACAACAACCTCAACTCCATCTTCTATGAGCACTTGACACGCTCGCTGCAGCACACGCTGTGTGGGGATCTGGTGCTGGGCCGCTGGGGCAATTATGGCCCTGGAGACTGCTTTGTCCTGGCCTCTGACTACCTCAACGCGCTAGTGCACCTCATTGAGGTTGGCAATGGCCTCATCACCTTCCAGCTTCGTGGCCTTGAGTTCCGGG acacaatgcacttactttgtttaattgactcctttgttcttcgattgcagGAGCTGATGACAATAAC---CCTTTTGCTTTTCTATCAACATTTGACACGCTACTGCAACATATGCTTTGTGATGATCTGGTCCTGGGCTGCTGGGGCAACCATGGTCCAGGAGATTGCATTGTACTGGCACCAGACTACCTAAATGGACTTGTCCAGCTCATTGAGGTTGGCAATGGTCTCATCACCTACCAGCCCCATGGCCTCAAGTTCCGGGgtaggccttggaatcaagctcgagctaagggtggcccatagacatatgag #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGC-GCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa tcactgtctggccaaagatgtgaagaactcttggctttttcttcccacagatTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGGCTGTTCTCTACTCCACTGAATCCTCTACTGGGTAGTCGCAGTATTCATTACATCATACACAAGCCCCCTCA-ATATTGGGAAAGAGACTACaagtttgccagtaagaaagagcgctgttccagagataccttttgggttgttt Alignment from CESAR acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGC-GCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa tcactgtctggccaaagatgtgaagaactcttggctttttcttcccacagatTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGGCTGTTCTCTACTCCACTGAATCCTCTACTGGGTAGTCGCAGTATTCATTACATCATACACAAGCCCCCTC-AATATTGGGAAAGAGACTACaagtttgccagtaagaaagagcgctgttccagagataccttttgggttgttt Alignment from Spaln_aa2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA tcactgtctggccaaagatgtgaagaactcttggctttttcttcccacagATTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGGCTGTTCTCTACTCCACTGAATCCTCTACTGGGTAGTCGCAGTATTCATTACATCATACACAAGCCCCCTCAATATTGGGAAAGAGACTACAAgtttgccagtaagaaagagcgctgttccagagataccttttgggttgttt Alignment from Spaln_nt2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAG-CGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA tcactgtctggccaaagatgtgaagaactcttggctttttcttcccacagATTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGGCTGTTCTCTACTCCACTGAATCCTCTACTGGGTAGTCGCAGTATTCATTACATCATACACAAGCCCCCTCAA-TATTGGGAAAGAGACTACAAgtttgccagtaagaaagagcgctgttccagagataccttttgggttgttt Alignment from Pairagon ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAG-CGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA tcactgtctggccaaagatgtgaagaactcttggctttttcttcccacagATTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGGCTGTTCTCTACTCCACTGAATCCTCTACTGGGTAGTCGCAGTATTCATTACATCATACACAAGCCCCCTCAA-TATTGGGAAAGAGACTACAAgtttgccagtaagaaagagcgctgttccagagataccttttgggttgttt Alignment from Exonerate_protein2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA tcactgtctggccaaagatgtgaagaactcttggctttttcttcccacagATTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGGCTGTTCTCTACTCCACTGAATCCTCTACTGGGTAGTCGCAGTATTCATTACATCATACACAAGCCCCCTCAATATTGGGAAAGAGACTACAAgtttgccagtaagaaagagcgctgttccagagataccttttgggttgttt Alignment from Exonerate_coding2genome tcactgtctggccaaagatgtgaagaactcttggctttttcttcccacagattcagccatgttgttcctccaagctttgctctcagggctgttctctactccactgaatcctctactgggtagtcgcagtattcattacatcatacacaagccccctcaatattgggaaagagactacaagtttgccagtaagaaagagcgctgttccagagataccttttgggttgttt Alignment from GeneWise ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA tcactgtctggccaaagatgtgaagaactcttggctttttcttcccacagATTCAGCCATGTTGTTCCTCCAAGCTTTGCTCTCAGGGCTGTTCTCTACTCCACTGAATCCTCTACTGGGTAGTCGCAGTATTCATTACATCATACACAAGCCCCCTCAATATTGGGAAAGAGACTACAAgtttgccagtaagaaagagcgctgttccagagataccttttgggttgttt #### Pcnxl3_ID1170_23 --> 0 - 1 Original Alignment CTTTGGGACCTGCTGTACAAGCTG-CGTTTTGTACTGACCTACATTGCACCATGGCAGATCACCTGGGGCTCAGCCTTCCATGCCTTTGCCCAGCCCTTCGCTGTACCAc tgtttgtacctggacttaggcatacgtttgaagatgattttctgttgcagCTATGGGACCTTCTATATAAGCTGCCGTTTTGTATTGACATACATTGCACCATGGCAGATTACCT-GGGTTCAGCCTTCCATGCTTTTGCCCAGCCGTTTGCAGTACCAcgtatgaagctgttctagcttcactgtctggccaaagatgtgaagaaccgt Alignment from CESAR CTTTGGGACCTGCTGTACAAGCTG-CGTTTTGTACTGACCTACATTGCACCATGGCAGATCACCTGGGGCTCAGCCTTCCATGCCTTTGCCCAGCCCTTCGCTGTACCAc tgtttgtacctggacttaggcatacgtttgaagatgattttctgttgcagCTATGGGACCTTCTATATAAGCTGCCGTTTTGTATTGACATACATTGCACCATGGCAGATTACCT-GGGTTCAGCCTTCCATGCTTTTGCCCAGCCGTTTGCAGTACCAcgtatgaagctgttctagcttcactgtctggccaaagatgtgaagaactct Alignment from Spaln_aa2Genome CTTTGGGACCTGCTGTACAAGCTG-CGTTTTGTACTGACCTACATTGCACCATGGCAGATCACCTGGGGCTCAGCCTTCCATGCCTTTGCCCAGCCCTTCGCTGTACCAC tgtttgtacctggacttaggcatacgtttgaagatgattttctgttgcagCTATGGGACCTTCTATATAAGCTGcCGTTTTGTATTGACATACATTGCACCATGGCAGATTACCTG-GGTTCAGCCTTCCATGCTTTTGCCCAGCCGTTTGCAGTACCACgtatgaagctgttctagcttcactgtctggccaaagatgtgaagaaccgt Alignment from Spaln_nt2Genome CTTTGGGACCTGCTGTACAAGCTGC-GTTTTGTACTGACCTACATTGCACCATGGCAGATCACCTGGGGCTCAGCCTTCCATGCCTTTGCCCAGCCCTTCGCTGTACCAC tgtttgtacctggacttaggcatacgtttgaagatgattttctgttgcagCTATGGGACCTTCTATATAAGCTGCCGTTTTGTATTGACATACATTGCACCATGGCAGATTACCT-GGGTTCAGCCTTCCATGCTTTTGCCCAGCCGTTTGCAGTACCACgtatgaagctgttctagcttcactgtctggccaaagatgtgaagaaccgt Alignment from Pairagon CTTTGGGACCTGCTGTACAAGCTG-CGTTTTGTACTGACCTACATTGCACCATGGCAGATCACCTGGGGCTCAGCCTTCCATGCCTTTGCCCAGCCCTTCGCTGTACCAC tgtttgtacctggacttaggcatacgtttgaagatgattttctgttgcagCTATGGGACCTTCTATATAAGCTGCCGTTTTGTATTGACATACATTGCACCATGGCAGATTACCT-GGGTTCAGCCTTCCATGCTTTTGCCCAGCCGTTTGCAGTACCACgtatgaagctgttctagcttcactgtctggccaaagatgtgaagaaccgt Alignment from Exonerate_protein2genome CTTTGGGACCTGCTGTACAAGCTG-CGTTTTGTACTGACCTACATTGCACCATGGCAGATCACCTGG--GGCTCAGCCTTCCATGCCTTTGCCCAGCCCTTCGCTGTACCAC tgtttgtacctggacttaggcatacgtttgaagatgattttctgttgcagCTATGGGACCTTCTATATAAGCTGCCGTTTTGTATTGACATACATTGCACCATGGCAGATTACCTGGGT---TCAGCCTTCCATGCTTTTGCCCAGCCGTTTGCAGTACCACgtatgaagctgttctagcttcactgtctggccaaagatgtgaagaaccgt Alignment from Exonerate_coding2genome tgtttgtacctggacttaggcatacgtttgaagatgattttctgttgcagctatgggaccttctatataagctgccgttttgtattgacatacattgcaccatggcagattacctgggttcagccttccatgcttttgcccagccgtttgcagtaccacgtatgaagctgttctagcttcactgtctggccaaagatgtgaagaaccgt Alignment from GeneWise CTTTGGGACCTGCTGTACAAG-CTGCGTTTTGTACTGACCTACATTGCACCATGGCAGATCACCTGGGGCTCAGCCTTCCATGCCTTTGCCCAGCCCTTCGCTGTACCAC tgtttgtacctggacttaggcatacgtttgaagatgattttctgttgcagCTATGGGACCTTCTATATAAGCTGCCGTTTTGTATTGACATACATTGCACCATGGCAGATTACCTGGGT-TCAGCCTTCCATGCTTTTGCCCAGCCGTTTGCAGTACCACgtatgaagctgttctagcttcactgtctggccaaagatgtgaagaaccgt #### Pcnxl3_ID1174_19 --> 0 - 0 Original Alignment CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGCGTAATGTGTGTTGTGATCGCTGTGCTCATTTTTGCAG-AAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from CESAR CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGCGTAATGTGTGTTGTGATCGCTGTGCTCATTTTTGCA-GAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Spaln_aa2Genome CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGcGTAATGTGTGTTGTGATCGCTGTGCTCATTTTTGCAGA-AGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Spaln_nt2Genome CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGCGTAATGTGTGTTGTGATCGCTGTGCTCATTTTTGCAG-AAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Pairagon CGGGAAGTCTTGCACTCCGACCTG-GTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGCGTAATGTGTGTTGTGATCGCTGTGCTCATTTTTGCAG-AAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Exonerate_protein2genome CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGCGTAATGTGTGTTGTGATCGCTGTGCTCATTTTTGCAGAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from Exonerate_coding2genome taacaggcaatctgaacagtcactgtactttttttttttttaatttttagagggaagttttgcactctgacctgcgtaatgtgtgttgtgatcgctgtgctcatttttgcagaagtgctagcatagtgttcattgctttgaaagtgagggcagcatgaagcacctggataaatctgctgctatcctgactata Alignment from GeneWise CGGGAAGTCTTGCACTCCGACCTGGTGATGTGTGTGGTGATCGCCGTGCTCACCTTTGCCGTCAGTGCCAGCACCGTCTTCATTGCCCTGAAG taacaggcaatctgaacagtcactgtactttttttttttttaatttttagAGGGAAGTTTTGCACTCTGACCTGCGTAATGTGTGTTGTGATCGCTGTGCTCATTTTTGCAGAAGTGCTAGCATAGTGTTCATTGCTTTGAAAgtgagggcagcatgaagcacctggataaatctgctgctatcctgactata #### Pcnxl3_ID1178_15 --> 2 - 1 Original Alignment GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCC-CAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtaagtcacctcaagatagctgaatgctctgtacctccagtaTTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCCAGGTCAACACCTGCCTGACATACCTCTCGGAAC-AATTGATATGCATGGTTTTGGAGGCACAggtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from CESAR GTGGCCACTg tgTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCC-CAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAg GTGGCAACTggtgagtcacctcaagatagctgaatgctctgtacctccagtaTTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCCAGGTCAACACCTGCCTGACATACCTCTCGGAAC-AATTGATATGCATGGTTTTGGAGGCACAggtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Spaln_aa2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCCAGGTCAACACCTGCCTGACATACCTCTCGGAACAATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Spaln_nt2Genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCC-CAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCCAGGTCAACACCTGCCTGACATACCTCTCGGAACA-ATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Pairagon GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCC-CCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCCAGGTCAACACCTGCCTGACATACCTCTCGGAACA-ATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Exonerate_protein2genome GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCCAGGTCAACACCTGCCTGACATACCTCTCGGAACAATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from Exonerate_coding2genome gtggcaactggtaagtcacctcaagatagctgaatgctctgtacctccagtattcaccttatgctttccctttgtcttcctgctggggctcctgcctccaggtcaacacctgcctgacatacctctcggaacaattgatatgcatggttttggaggcacaggtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat Alignment from GeneWise GTGGCCACTG TGTTCACCTTATGCTTTCCGTTCGTCTTCCTCCTGGGCCTCCTGCCCCAGGTCAACACCTGCCTCATGTACCTCCTGGAGCAGATAGACATGCATGGCTTTGGAGGCACAG GTGGCAACTGgtaagtcacctcaagatagctgaatgctctgtacctccagTATTCACCTTATGCTTTCCCTTTGTCTTCCTGCTGGGGCTCCTGCCTCCAGGTCAACACCTGCCTGACATACCTCTCGGAACAATTGATATGCATGGTTTTGGAGGCACAGgtgagatgtgctcggaaaggtctaggccatgaatattacatgtaccaaat #### Pcnxl3_ID1179_14 --> 0 - 1 Original Alignment GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTA-CTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTg tgTTCACCTT caatcacttatagttgctaggcctatgcctctttccccttttgcccaaagGGTCACAACTGGGTGATTGCATACAGTCGTCCTGTTTACTTTTGTATTTGTTGCCTGCCTCATCTGGTTGCTGGATGCACTTGGTACAA-TCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCATTCTTCTTTTGTGCACGAGATGTGGCAACTggtgagtcacctcaagatacccctccactgtctttccccagtaTTCACCTT Alignment from CESAR GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTA-CTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTg tgTTCACCTT caatcacttatagttgctaggcctatgcctctttccccttttgcccaaagGGTCACAACTGGGTGATTGCATACAGTCGTCCTGTTTACTTTTGTATTTGTTGCCTGCCTCATCTGGTTGCTGGATGCACTTGGTACA-ATCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCATTCTTCTTTTGTGCACGAGATGTGGCAACTggtgagtcacctcaagatagctgaatgctctgtacctccagtaTTCACCTT Alignment from Spaln_aa2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caatcacttatagttgctaggcctatgcctctttccccttttgcccaaagGGTCACAACTGGGTGATTGCATACAGTCGTCCTGTTTACTTTTGTATTTGTTGCCTGCCTCATCTGGTTGCTGGATGCACTTGGTACAATCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCATTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgagtcacctcaagatacccctccactgtctttccccagTATTCACCTT Alignment from Spaln_nt2Genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTAC-TCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caatcacttatagttgctaggcctatgcctctttccccttttgcccaaagGGTCACAACTGGGTGATTGCATACAGTCGTCCTGTTTACTTTTGTATTTGTTGCCTGCCTCATCTGGTTGCTGGATGCACTTGGTA-CAATCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCATTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgagtcacctcaagatacccctccactgtctttccccagTATTCACCTT Alignment from Pairagon GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTA-CTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caatcacttatagttgctaggcctatgcctctttccccttttgcccaaagGGTCACAACTGGGTGATTGCATACAGTCGTCCTGTTTACTTTTGTATTTGTTGCCTGCCTCATCTGGTTGCTGGATGCACTTGGTA-CAATCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCATTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgagtcacctcaagatacccctccactgtctttccccagTATTCACCTT Alignment from Exonerate_protein2genome GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caatcacttatagttgctaggcctatgcctctttccccttttgcccaaagGGTCACAACTGGGTGATTGCATACAGTCGTCCTGTTTACTTTTGTATTTGTTGCCTGCCTCATCTGGTTGCTGGATGCACTTGGTACAATCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCATTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgagtcacctcaagatacccctccactgtctttccccagTATTCACCTT Alignment from Exonerate_coding2genome caatcacttatagttgctaggcctatgcctctttccccttttgcccaaagggtcacaactgggtgattgcatacagtcgtcctgtttacttttgtatttgttgcctgcctcatctggttgctggatgcacttggtacaatcaacccttcccacctgtctctctgtatggtctaaccctcttttctgcctcattcttcttttgtgcacgagatgtggcaactggtgagtcacctcaagatacccctccactgtctttccccagtattcacctt Alignment from GeneWise GGCCACAACTGGGTGATTGCATACAGCCGGCCTGTCTACTTCTGTATCTGCTGTCTACTCATCTGGCTGCTGGATGCCCTGGGGACCGCTCAGCCCTTCCCACCTGTCTCTCTGTACGGCCTCACACTCTTCTCTGCCTCTTTCTTCTTTTGTGCCCGAGATGTGGCCACTG TGTTCACCTT caatcacttatagttgctaggcctatgcctctttccccttttgcccaaagGGTCACAACTGGGTGATTGCATACAGTCGTCCTGTTTACTTTTGTATTTGTTGCCTGCCTCATCTGGTTGCTGGATGCACTTGGTACAATCAACCCTTCCCACCTGTCTCTCTGTATGGTCTAACCCTCTTTTCTGCCTCATTCTTCTTTTGTGCACGAGATGTGGCAACTGgtgagtcacctcaagatacccctccactgtctttccccagTATTCACCTT #### Pcnxl3_ID1181_12 --> 1 - 0 Original Alignment gACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACT-GACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctctagacattctaggaagctcagtaatcattttccttctctgctcaggACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGACTACTCTACTTGCCATCCTTGGGTATCTATTGCTCCTAAAGGGGTTCATCACGCGAAATT---ATCTTTCAGTTTTGTCTGGCCATTG-TTCTTGTCAGTATTTTCTACTCAAAgtgagaacttggttctcagttatagatcagtagcgtgcttgctaacaggt Alignment from CESAR gACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACT-GACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctctagacattctaggaagctcagtaatcattttccttctctgctcaggACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGACTACTCTACTTGCCATCCTTGGGTATCTATTGCTCCTAAAGGGGTTCATCACGCGAAATT---ATCTTTCAGTTTTGTCTGGCCATT-GTTCTTGTCAGTATTTTCTACTCAAAgtgagaacttggttctcagttatagatcagtagcgtgcttgctaacaggt Alignment from Spaln_aa2Genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctctagacattctaggaagctcagtaatcattttccttctctgctcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGACTACTCTACTTGCCATCCTTGGGTATCTATTGCTCCTAAAGGGGTTCATCACGCGAAATTATCTTTCAGTTTTGTCT---GGCCATTGTTCTTGTCAGTATTTTCTACTCAAAgtgagaacttggttctcagttatagatcagtagcgtgcttgctaacaggt Alignment from Spaln_nt2Genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACT-GACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctctagacattctaggaagctcagtaatcattttccttctctgctcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGACTACTCTACTTGCCATCCTTGGGTATCTATTGCTCCTAAAGGGGTTCATCACGCGAAAT---TATCTTTCAGTTTTGTCTGGCCATTG-TTCTTGTCAGTATTTTCTACTCAAAgtgagaacttggttctcagttatagatcagtagcgtgcttgctaacaggt Alignment from Pairagon GACACGTGG---GGTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGG--------TCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctctagacattctaggaagctcagtaatcattttccttctctgctcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGACTACTCTACTTGCCATCCTTGGGTATCTATTGCTCCTAAAGGGGTTCATCAC----------GCGAAATTATCTTTCAGTTTTGTCTGGCCATTG-TTCTTGTCAGTATTTTCTACTCAAAgtgagaacttggttctcagttatagatcagtagcgtgcttgctaacaggt Alignment from Exonerate_protein2genome GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctctagacattctaggaagctcagtaatcattttccttctctgctcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGACTACTCTACTTGCCATCCTTGGGTATCTATTGCTCCTAAAGGGGTTCATCACGCGAAATTATCTT---TCAGTTTTGTCTGGCCATTGTTCTTGTCAGTATTTTCTACTCAAAgtgagaacttggttctcagttatagatcagtagcgtgcttgctaacaggt Alignment from Exonerate_coding2genome ttctctagacattctaggaagctcagtaatcattttccttctctgctcaggacacgtggtctagtaatggagaatatttttggtgtaggggtgactactctacttgccatccttgggtatctattgctcctaaaggggttcatcacgcgaaattatctttcagttttgtctggccattgttcttgtcagtattttctactcaaagtgagaacttggttctcagttatagatcagtagcgtgcttgctaacaggt Alignment from GeneWise GACACGTGGG---GTAATGGAGAACATTTTCGGTGTTGGATTGAGCAGCCTGGTTGCCTTCCTGGGATACCTGTTGCTGCTCAAGGGCTTCTTCACTGACATCTGGGTCTTCCAGTTCTGTCTGGTCATCGCCTCCTGTCAGTACTCCCTGCTCAAG ttctctagacattctaggaagctcagtaatcattttccttctctgctcagGACACGTGGTCTAGTAATGGAGAATATTTTTGGTGTAGGGGTGACTACTCTACTTGCCATCCTTGGGTATCTATTGCTCCTAAAGGGGTTCATCACGCGAAATTATCTT---TCAGTTTTGTCTGGCCATTGTTCTTGTCAGTATTTTCTACTCAAAgtgagaacttggttctcagttatagatcagtagcgtgcttgctaacaggt #### Pcx_ID553_3 --> 2 - 0 Original Alignment gtGAGATTGCCATCCGAGTGTTTCGT-GCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccaggtGAGATTGCTATCCGCGTCTTTCGTCGCTTGCAGAGAACTTGGCATCCGCACAGTAGCTG-GTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from CESAR gtGAGATTGCCATCCGAGTGTTTCGT-GCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccaggtGAGATTGCTATCCGCGTCTTTCGTCGCTTGCAGAGAACTTGGCATCCGCACAGTAGCT-GGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Spaln_aa2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTCGCTTGCAGAGAACTTGGCATCCGCACAGTAGCTGGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Spaln_nt2Genome GTGAGATTGCCATCCGAGTGTTTCGT-GCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTCGCTTGCAGAGAACTTGGCATCCGCACAGTAGCTG-GTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Pairagon GTGAGATTGCCATCCGAGTGTTTCGT-GCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTCGCTTGCAGAGAACTTGGCATCCGCACAGTAGCTG-GTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Exonerate_protein2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTCGCTTGCAGAGAACTTGGCATCCGCACAGTAGCTGGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from Exonerate_coding2genome tggtggttcctatccccaggggagggggtctgagcacagcctctccccaggtgagattgctatccgcgtctttcgtcgcttgcagagaacttggcatccgcacagtagctggtattcagaacaggatacagggctaacacacaggcagaaaacagatgagggttaccttcttggtcgtggccttgcacctgtccaaacctatttgcacattccagacatcattagggtttcgaaggtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt Alignment from GeneWise GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG tggtggttcctatccccaggggagggggtctgagcacagcctctccccagGTGAGATTGCTATCCGCGTCTTTCGTCGCTTGCAGAGAACTTGGCATCCGCACAGTAGCTGGTATTCAGAACAGGATACAGGGCTAACACACAGGCAGAAAACAGATGAGGGTTACCTTCTTGGTCGTGGCCTTGCACCTGTCCAAACCTATTTGCACATTCCAGACATCATTAGGGTTTCGAAGgtgagaatcaattatctttacagggggagagaaaagtcccactcatttgt #### Pcx_ID556_6 --> 0 - 1 Original Alignment GAGTTGGAAGAGAATTAC-ACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg ggtggttgtattgaaaatgcctggctgcatcactgaatttcttattgcagGAACTAGAAAAGAATTATCACCAGAGCCTACTCAGAAGCCTTAGCAGCCTTTGGGA-TAGAGCCCTGTTTGTTGAAAACTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGGTCCTGggtaagaaaatagatggctgcaactgtctaacattttcgagagacccaaca Alignment from CESAR GAGTTGGAAGAGAATTAC-ACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAg ggtggttgtattgaaaatgcctggctgcatcactgaatttcttattgcagGAACTAGAAAAGAATTATCACCAGAGCCTACTCAGAAGCCTTAGCAGCCTTTG-GGATAGAGCCCTGTTTGTTGAAAACTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGGTCCTGggtaagaaaatagatggctgcaactgtctaacattttcgagagacccaaca Alignment from Spaln_aa2Genome GAGTTGGAAGAGAATTAC-ACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcatcactgaatttcttattgcagGAACTAGAAAAGAATTATcACCAGAGCCTACTCAGAAGCCTTAGCAGCCTTTGGGAT-AGAGCCCTGTTTGTTGAAAACTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGGTCCTGGgtaagaaaatagatggctgcaactgtctaacattttcgagagacccaaca Alignment from Spaln_nt2Genome GAGTTGGAAGAGAATTA-CACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcatcactgaatttcttattgcagGAACTAGAAAAGAATTATCACCAGAGCCTACTCAGAAGCCTTAGCAGCCTTTGGG-ATAGAGCCCTGTTTGTTGAAAACTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGGTCCTGGgtaagaaaatagatggctgcaactgtctaacattttcgagagacccaaca Alignment from Pairagon GAGTTGGAAGAGAATTA-CACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcatcactgaatttcttattgcagGAACTAGAAAAGAATTATCACCAGAGCCTACTCAGAAGCCTTAGCAGCCTTTGGG-ATAGAGCCCTGTTTGTTGAAAACTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGGTCCTGGgtaagaaaatagatggctgcaactgtctaacattttcgagagacccaaca Alignment from Exonerate_protein2genome GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcatcactgaatttcttattgcagGAACTAGAAAAGAATTATCACCAGAGCCTACTCAGAAGCCTTAGCAGCCTTTGGGATAGAGCCCTGTTTGTTGAAAACTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGGTCCTGGgtaagaaaatagatggctgcaactgtctaacattttcgagagacccaaca Alignment from Exonerate_coding2genome ggtggttgtattgaaaatgcctggctgcatcactgaatttcttattgcaggaactagaaaagaattatcaccagagcctactcagaagccttagcagcctttgggatagagccctgtttgttgaaaactttattggccagccaagccattttgaggagcaggtcctgggtaagaaaatagatggctgcaactgtctaacattttcgagagacccaaca Alignment from GeneWise GAGTTGGAAGAGAATTACACCCGGGCCTACTCCGAGGCCTTGGCAGCCTTTGGGAATGGAGCGTTGTTTGTGGAGAAGTTCATTGAGAAGCCAAGGCACATTGAGGTGCAGATCCTAG ggtggttgtattgaaaatgcctggctgcatcactgaatttcttattgcagGAACTAGAAAAGAATTATCACCAGAGCCTACTCAGAAGCCTTAGCAGCCTTTGGGATAGAGCCCTGTTTGTTGAAAACTTTATTGGCCAGCCAAGCCATTTTGAGGAGCAGGTCCTGGgtaagaaaatagatggctgcaactgtctaacattttcgagagacccaaca #### Pcx_ID563_12 --> 2 - 1 Original Alignment gaCATGTCATGGTGAATGGC-CCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg actctttgaaattgggaaaacagtgaaatgtttaatttctgttgcttaaggaCATGTTATGGTCAATGGACCCTATCTCACCAATCCCAGTCAATGTGACGC-TAGTCCTGTAGATGCTGCTGTTCCAGCAGTCCCTATAggtaaggtataatataccttctgagtgagaaggtgtgtcagagacagcatc Alignment from CESAR gaCATGTCATGGTGAATGGC-CCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg actctttgaaattgggaaaacagtgaaatgtttaatttctgttgcttaaggaCATGTTATGGTCAATGGACCCTATCTCACCAATCCCAGTCAATGTG-ACGCTAGTCCTGTAGATGCTGCTGTTCCAGCAGTCCCTATAggtaaggtataatataccttctgagtgagaaggtgtgtcagagacagcatc Alignment from Spaln_aa2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattgggaaaacagtgaaatgtttaatttctgttgcttaagGACATGTTATGGTCAATGGACCCTATCTCACCAATCCCAGTCAATGTGACGCTAGTCCTGTAGATGCTGCTGTTCCAGCAGTCCCTATAGgtaaggtataatataccttctgagtgagaaggtgtgtcagagacagcatc Alignment from Spaln_nt2Genome GACATGTCATGGTGAATGG-CCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattgggaaaacagtgaaatgtttaatttctgttgcttaagGACATGTTATGGTCAATGGACCCTATCTCACCAATCCCAGTCAATGTGA-CGCTAGTCCTGTAGATGCTGCTGTTCCAGCAGTCCCTATAGgtaaggtataatataccttctgagtgagaaggtgtgtcagagacagcatc Alignment from Pairagon GACATGTCATGGTGAATGG-CCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattgggaaaacagtgaaatgtttaatttctgttgcttaagGACATGTTATGGTCAATGGACCCTATCTCACCAATCCCAGTCAATGTGA-CGCTAGTCCTGTAGATGCTGCTGTTCCAGCAGTCCCTATAGgtaaggtataatataccttctgagtgagaaggtgtgtcagagacagcatc Alignment from Exonerate_protein2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattgggaaaacagtgaaatgtttaatttctgttgcttaagGACATGTTATGGTCAATGGACCCTATCTCACCAATCCCAGTCAATGTGACGCTAGTCCTGTAGATGCTGCTGTTCCAGCAGTCCCTATAGgtaaggtataatataccttctgagtgagaaggtgtgtcagagacagcatc Alignment from Exonerate_coding2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGC actctttgaaattgggaaaacagtgaaatgtttaatttctgttgcttaaggacatgttatggtcaatggaccctatctcaccaatcccagtcaatgtgacgctagtcctgtagatgctgctgttccagcagtccctatagGTAAGGTATAATATACCTTCTGAGTGAGAAGGTGTGTCAGAGACAGCATC Alignment from GeneWise GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG actctttgaaattgggaaaacagtgaaatgtttaatttctgttgcttaagGACATGTTATGGTCAATGGACCCTATCTCACCAATCCCAGTCAATGTGACGCTAGTCCTGTAGATGCTGCTGTTCCAGCAGTCCCTATAGgtaaggtataatataccttctgagtgagaaggtgtgtcagagacagcatc #### Pcx_ID565_14 --> 1 - 0 Original Alignment gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAAC-ATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcaggTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACCATGCTGCTTGGTATGAAATCTGCTGGCAGTG-TGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcac Alignment from CESAR gTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAAC-ATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcaggTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACCATGCTGCTTGGTATGAAATCTGCTGGCAGTGTGGGG-CAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcac Alignment from Spaln_aa2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACCATGCTGCTTGGTATGAAATCTGCTGGCAGTGTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcac Alignment from Spaln_nt2Genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCC-AAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACCATGCTGCTTGGTATGAAATCTGCTGGCAGTG-TGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcac Alignment from Pairagon GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAA-CATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTA---------------------------------------------------- caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACCATGCTGCTTGGTATGAAATCTGCTGGCAGTG-TGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTGGATCTCACATTTTGTGTATTAGGGTATTTAGGCTACTAGGTGTGTCCCCATCTTTACATCATGGCTGAGGCAC Alignment from Exonerate_protein2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACCATGCTGCTTGGTATGAAATCTGCTGGCAGTGTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcac Alignment from Exonerate_coding2genome GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACCATGCTGCTTGGTATGAAATCTGCTGGCAGTGTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcac Alignment from GeneWise GTTCTGTGAGGTGGCCAAAGAGAATGGTATGGACGTCTTCCGAGTCTTTGACTCCCTCAACTACTTGCCAAACATGCTGCTGGGCATGGAAGCAGCAGGCAGTGCTGGGGGTGTGGTGGAGGCTGCCATCTCATACACGGGGGACGTGGCTGACCCTAGTCGCACTAAATACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTGCGAGCTGGCACTCACATCCTGTGCATTAAG caatttgttatagaccacaacgttgtgattttttttttttggtctttcagGTTCTGCGAAGTGGCCAAAGAGAATGACATGGATGTATTTCGTGTCTTCGACTCCCTCAACTATTTACCAAACCATGCTGCTTGGTATGAAATCTGCTGGCAGTGTGGGGCAGTAGTTGAGGCTGCCATATCTTACGCTGGTGAAGTAGCTGACCCTGGTCGCACGAACTACTCACTGGAGTACTACATGGGCTTAGCTGAAGAACTGGTACGAACTGGATCTCACATTTTGTGTATTAGGgtatttaggctactaggtgtgtccccatctttacatcatggctgaggcac #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg tccccatctttacatcatggctgaggcacctggtcttctcctgtctccagGGCATAGCAGGCTTGCTGAAGCCAGCAGCCTGCACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCT-ACAGGAGGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCGTTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAggtaagtaagaagagttgctacaaaaacataatactactcccttctaacgt Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg tccccatctttacatcatggctgaggcacctggtcttctcctgtctccagGGCATAGCAGGCTTGCTGAAGCCAGCAGCCTGCACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGC-TACAGGAGGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCGTTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAggtaagtaagaagagttgctacaaaaacataatactactcccttctaacgt Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tccccatctttacatcatggctgaggcacctggtcttctcctgtctccagGGCATAGCAGGCTTGCTGAAGCCAGCAGCCTGCACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTACAGGAGGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCGTTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaagtaagaagagttgctacaaaaacataatactactcccttctaacgt Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCC-ATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTGG---CAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tccccatctttacatcatggctgaggcacctggtcttctcctgtctccagGGCATAGCAGGCTTGCTGAAGCCAGCAGCCTGCACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTG-CTACAGGAGGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCGTTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaagtaagaagagttgctacaaaaacataatactactcccttctaacgt Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATA-CCCATGATACATCAGGGGCAGGTGTGGCAGCCA--------TGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tccccatctttacatcatggctgaggcacctggtcttctcctgtctccagGGCATAGCAGGCTTGCTGAAGCCAGCAGCCTGCACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCT---------ACAGGAGGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCGTTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaagtaagaagagttgctacaaaaacataatactactcccttctaacgt Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGAT--GTTGTGGACGTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tccccatctttacatcatggctgaggcacctggtcttctcctgtctccagGGCATAGCAGGCTTGCTGAAGCCAGCAGCCTGCACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTACAGGAGGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCGTTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaagtaagaagagttgctacaaaaacataatactactcccttctaacgt Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACC-CATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGAT--GTTGTGGACGTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tccccatctttacatcatggctgaggcacctggtcttctcctgtctccagGGCATAGCAGGCTTGCTGAAGCCAGCAGCCTGCACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTACAGGAGGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCGTTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaagtaagaagagttgctacaaaaacataatactactcccttctaacgt Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG tccccatctttacatcatggctgaggcacctggtcttctcctgtctccagGGCATAGCAGGCTTGCTGAAGCCAGCAGCCTGCACAATGTTAGTTAGCTCCCTGTGGGACCGATCACCTGACCTTCCTCTTCACATCCATACCCCACGATACTTTAGGAGCAGGTGTTGCAGCCACCCTAGCTTGCTACAGGAGGGGGCTGATCTTGTAGAAGTGGTTGCAGTAGATGCCATGTCTGGTATGACCTTACAGCCAAGTATGGGGGCGTTAGTAACCTGCACAAAGGGGACTCCCTCTGAAACAGgtaagtaagaagagttgctacaaaaacataatactactcccttctaacgt #### Pcx_ID567_16 --> 2 - 0 Original Alignment agGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACC-AACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttctttccctttcaactacttttgtacatctgtattttgttctctttcagctTTGCCACTAGAAAAAGTATTTGACTATAGTGGGTATTGGGAAGGTTCTAGGGGACTGTAT------TTTGATTGCATTGCCTCTATGAAAGCTGGTAACTTGGACCTATACAAGAATGAGGTA------------TACACCCAATCAGCATTTCCCAGCACAC------AGACTTGGTT-AAAGTTCAAAGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTTATTGAAgtgcgttagattgcctcatacttctctgctgcacttgcagaagccttgta Alignment from CESAR agGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACC-AACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttctttccctttcaactacttttgtacatctgtattttgttctctttcagctTTGCCACTAGAAAAAGTATTTGACTATAGTGGGTATTGGGAAGGTTCTAGGGGACTGTAT------TTTGATTGCATTGCCTCTATGAAAGCTGGTAACTTGGACCTATACAAGAATGAGGTA------------TACACCCAATCAGCATTTCCCAGCACACAGA------CTTGGT-TAAAGTTCAAAGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTTATTGAAgtgcgttagattgcctcatacttctctgctgcacttgcagaagcctctct Alignment from Spaln_aa2Genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttctttccctttcaactacttttgtacatctgtattttgttctctttcagCTTTGCCACTAGAAAAAGTATTTGACTATAGTGGGTATTGGGAAGGTTCTAGGGGACTGTAT------TTTGATTGCATTGCCTCTATGAAAGCTGGTAACTTGGACCTATACAAGAATGAGGTA------------TACACCCAATCAGCATTTCCCAGCACACAGACTTGGTTA------AAGTTCAAAGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTTATTGAAgtgcgttagattgcctcatacttctctgctgcacttgcagaagccttgta Alignment from Spaln_nt2Genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACC-AACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttctttccctttcaactacttttgtacatctgtattttgttctctttcagCTTTGCCACTAGAAAAAGTATTTGACTATAGTGGGTATTGGGAAGGTTCTAGGGGACTGTA------TTTTGATTGCATTGCCTCTATGAAAGCTGGTAACTTGGACCTATACAAGAATGAGGT------------ATACACCCAATCAGCATTTCCCAGCACACA------GACTTGG-TTAAAGTTCAAAGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTTATTGAAgtgcgttagattgcctcatacttctctgctgcacttgcagaagccttgta Alignment from Pairagon AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAG-----------------------------------------ATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttctttccctttcaactacttttgtacatctgtattttgttctctttcagctttgccactagaaaaag------------------TATTTGACTATAGTGGGTATTGGGAAGGTTCTAGGGGACTGTA------TTTTGATTGCATTGCCTCTATGAAAGCTGGTAACTTGGACCTATACAAGAATGAGGTATACACCCAATCAGCATTTCCCAGCACACAGACTTGGTTA-----------------------------------------------------------AAGTTCAAAGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTTATTGAAgtgcgttagattgcctcatacttctctgctgcacttgcagaagccttgta Alignment from Exonerate_protein2genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATT ttctttccctttcaactacttttgtacatctgtattttgttctctttcagCTTTGCCACTAGAAAAAGTATTTGACTATAGTGGGTATTGGGAAGGTTCTAGGGGACTGTAT------TTTGATTGCATTGCCTCTATGAAAGCTGGTAACTTGGACCTATACAAGAATGAGGTAtacacccaatcagcatttcccagcacacagacttggttaaagttcaaagcagttaagaaagcttatgtggaggctaatcaaatgctgggggaccttattgaagtgcgttagattgcctcatacttctctgctgcacttgcagaagccttgta Alignment from Exonerate_coding2genome ttctttccctttcaactacttttgtacatctgtattttgttctctttcagctttgccactagaaaaagtatttgactatagtgggtattgggaaggttctaggggactgtattttgattgcattgcctctatgaaagctggtaacttggacctatacaagaatgaggtatacacccaatcagcatttcccagcacacagacttggttaaagttcaaagcagttaagaaagcttatgtggaggctaatcaaatgctgggggaccttattgaagtgcgttagattgcctcatacttctctgctgcacttgcagaagccttgta Alignment from GeneWise AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttctttccctttcaactacttttgtacatctgtattttgttctctttcagCTTTGCCACTAGAAAAAGTATTTGACTATAGTGGGTATTGGGAAGGTTCTAGGGGACTGTAT------TTTGATTGCATTGCCTCTATGAAAGCTGGTAACTTGGACCTATACAAGAATGAGGTA------------TACACCCAATCAGCATTTCCCAGCACACAGACTTGGTTA------AAGTTCAAAGCAGTTAAGAAAGCTTATGTGGAGGCTAATCAAATGCTGGGGGACCTTATTGAAgtgcgttagattgcctcatacttctctgctgcacttgcagaagccttgta #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAG-GGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttgctcacacgaggtgat Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTA-GGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttaaagctgcggctcttc Alignment from Spaln_aa2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttgctcacacgaggtgat Alignment from Spaln_nt2Genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTC-AGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGG-GAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttgctcacacgaggtgat Alignment from Pairagon GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCT-CAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAG-GGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttgctcacacgaggtgat Alignment from Exonerate_protein2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttgctcacacgaggtgat Alignment from Exonerate_coding2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttgctcacacgaggtgat Alignment from GeneWise GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacttctctgctgcacttgcagaagcctctcttttttcctggcctcacagGTAAAGCCATCTTCCAAGATCTTGGCTGACCTAGCCCAGTTCAAGGTGCAGAATGGATCAAGTCGAACTGAAACGGAAGTTCCAAGCAGAAGAGCTCTCCTTCCCCTGCTCCGTAGGGAGTTCCTACAGGGACATATTGGTATCCCACAAGGAGGTTTCCCCAAGCCATTTCATTCTAAGgtaagataggttgatgtggagtaaatcagtctttgctcacacgaggtgat #### Pdcd11_ID10112_6 --> 2 - 0 Original Alignment gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGT-CTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gccagtgggtcggcagctggtgacaccatatgcatataattgaaatgaaggtGCCAAGTTTAAAGTTGGCCAATATCTAACTTGTGTAGTAAAGGAGGTGAAGAGTAATGGTGCTGTTGTGAGCCCTCTCTGTGGATCGCTCTGTGATCTCATTAG-CTTTACAACAGAAGTCCAAAGCTGGAACCTCAATAACTTATTACCAGGATTACTTGTTAAAGCCCAAGTACAAAAGgtaaggtcccaactaatgaatgggaaatgggagaggagagagtagagtca Alignment from CESAR gtGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGT-CTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gccagtgggtcggcagctggtgacaccatatgcatataattgaaatgaaggtGCCAAGTTTAAAGTTGGCCAATATCTAACTTGTGTAGTAAAGGAGGTGAAGAGTAATGGTGCTGTTGTGAGCCCTCTCTGTGGATCGCTCTGTGATCTCATTAG-CTTTACAACAGAAGTCCAAAGCTGGAACCTCAATAACTTATTACCAGGATTACTTGTTAAAGCCCAAGTACAAAAGgtaaggtcccaactaatgaatgggaaatgggagaggagagagtagagtca Alignment from Spaln_aa2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gccagtgggtcggcagctggtgacaccatatgcatataattgaaatgaagGTGCCAAGTTTAAAGTTGGCCAATATCTAACTTGTGTAGTAAAGGAGGTGAAGAGTAATGGTGCTGTTGTGAGCCCTCTCTGTGGATCGCTCTGTGATCTCATTAGCTTTACAACAGAAGTCCAAAGCTGGAACCTCAATAACTTATTACCAGGATTACTTGTTAAAGCCCAAGTACAAAAGgtaaggtcccaactaatgaatgggaaatgggagaggagagagtagagtca Alignment from Spaln_nt2Genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTC-TCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gccagtgggtcggcagctggtgacaccatatgcatataattgaaatgaagGTGCCAAGTTTAAAGTTGGCCAATATCTAACTTGTGTAGTAAAGGAGGTGAAGAGTAATGGTGCTGTTGTGAGCCCTCTCTGTGGATCGCTCTGTGATCTCAT-TAGCTTTACAACAGAAGTCCAAAGCTGGAACCTCAATAACTTATTACCAGGATTACTTGTTAAAGCCCAAGTACAAAAGgtaaggtcccaactaatgaatgggaaatgggagaggagagagtagagtca Alignment from Pairagon GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAG-TCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCG----------------------CAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gccagtgggtcggcagctggtgacaccatatgcatataattgaaatgaagGTGCCAAGTTTAAAGTTGGCCAATATCTAACTTGTGTAGTAAAGGAGGTGAAGAGTAATGGTGCTGTTGTGAGCCCTCTCTGTGGA-----------------------TCGCTCTGTGATCTCATTAGCTTTACAACAGAAGTCCAAAGCTGGAACCTCAATAACTTATTACCAGGATTACTTGTTAAAGCCCAAGTACAAAAGgtaaggtcccaactaatgaatgggaaatgggagaggagagagtagagtca Alignment from Exonerate_protein2genome GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gccagtgggtcggcagctggtgacaccatatgcatataattgaaatgaagGTGCCAAGTTTAAAGTTGGCCAATATCTAACTTGTGTAGTAAAGGAGGTGAAGAGTAATGGTGCTGTTGTGAGCCCTCTCTGTGGATCGCTCTGTGATCTCATTAGCTTTACAACAGAAGTCCAAAGCTGGAACCTCAATAACTTATTACCAGGATTACTTGTTAAAGCCCAAGTACAAAAGgtaaggtcccaactaatgaatgggaaatgggagaggagagagtagagtca Alignment from Exonerate_coding2genome gccagtgggtcggcagctggtgacaccatatgcatataattgaaatgaaggtgccaagtttaaagttggccaatatctaacttgtgtagtaaaggaggtgaagagtaatggtgctgttgtgagccctctctgtggatcgctctgtgatctcattagctttacaacagaagtccaaagctggaacctcaataacttattaccaggattacttgttaaagcccaagtacaaaaggtaaggtcccaactaatgaatgggaaatgggagaggagagagtagagtca Alignment from GeneWise GTGCTAAGTTCAAAGTCGGCCAGTACCTGACCTGTGTGGTTGAAGAGGTGAAAAGCAACGGAGGAGTTGTGAGTCTCTCTGTAGAGCACTCCGAGGTTTCCTCTGCCTTCGCAACTGAGGAGCAAAGCTGGAACCTGAATAACTTACTACCAGGGCTGCTGGTCAAAGCCCAGGTGCAGAAG gccagtgggtcggcagctggtgacaccatatgcatataattgaaatgaagGTGCCAAGTTTAAAGTTGGCCAATATCTAACTTGTGTAGTAAAGGAGGTGAAGAGTAATGGTGCTGTTGTGAGCCCTCTCTGTGGATCGCTCTGTGATCTCATTAGCTTTACAACAGAAGTCCAAAGCTGGAACCTCAATAACTTATTACCAGGATTACTTGTTAAAGCCCAAGTACAAAAGgtaaggtcccaactaatgaatgggaaatgggagaggagagagtagagtca #### Pdcd11_ID10115_9 --> 0 - 2 Original Alignment GTCAGCCATCTCTCTGATTCTAAGAAAGCA-TTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGaa tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAAGCGCTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATG-GTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGaagtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from CESAR GTCAGCCATCTCTCTGATTCTAAGAAAGCA-TTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGaa tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAAGCGCTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCAT-GGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGaagtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Spaln_aa2Genome GTCAGCCATCTCTCTGATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAAGCGCTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Spaln_nt2Genome GTCAGCCATCTCTCTGATTCTAAGAAAGCA-TTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAAGCGCTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCA-TGGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Pairagon GTCAGCCATCTCTCTGATTCTAAGAAAGCA-TTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAAGCGCTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCAT-GGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Exonerate_protein2genome GTCAGCCATCTCTCTGATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAAGCGCTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from Exonerate_coding2genome tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcaggtaagccatctctctgattctaaaaaagcgcttcaatgccgaggccctgaaaccagggagcactcatggtgtaggatcattgactttagccagatggatgagctggccctgctctcactgcggaagtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa Alignment from GeneWise GTCAGCCATCTCTCTGATTCTAAGAAAGCATTCAACGCTGAGGCCTTCAAACCGGGGAGCACTCACAAGTGTAGAATCATTGACTACAGCCAGATGGATGAGCTGGCCTTGCTCTCTCTGCGGAA tcaaatgaacaaaagaacagctctactccattttgtttgtaacttggcagGTAAGCCATCTCTCTGATTCTAAAAAAGCGCTTCAATGCCGAGGCCCTGAAACCAGGGAGCACTCATGGTGTAGGATCATTGACTTTAGCCAGATGGATGAGCTGGCCCTGCTCTCACTGCGGAAgtgggtactatctaccacacatgtgcatgtgctagttgcagtgtctttaa #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCT-GAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaagcattctatttgcctcacattttcttcttaactttagcATCAACCCCACAAAGAACTTGAGAGAGTTGACCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCTGAGCCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAGAGGAATC-GAAGAGGCGAGATGAGAAGGAGGAACCGCAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaagcagtgtataccatgttttgttatgggacggctttttgctg Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCT-GAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaagcattctatttgcctcacattttcttcttaactttagcATCAACCCCACAAAGAACTTGAGAGAGTTGACCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCTGAGCCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAGAGGAAT-CGAAGAGGCGAGATGAGAAGGAGGAACCGCAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaagcagtgtataccatgttttgttatgggacggctttttgctg Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaagcattctatttgcctcacattttcttcttaactttagCATCAACCCCACAAAGAACTTGAGAGAGTTGACCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCTGAGCCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAGAGGAATCGAAGAGGCGAGATGAGAAGGAGGAACCGCAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaagcagtgtataccatgttttgttatgggacggctttttgctg Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCT-GAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaagcattctatttgcctcacattttcttcttaactttagCATCAACCCCACAAAGAACTTGAGAGAGTTGACCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCTGAGCCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAGAGGAATC-GAAGAGGCGAGATGAGAAGGAGGAACCGCAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaagcagtgtataccatgttttgttatgggacggctttttgctg Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCT-GAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaagcattctatttgcctcacattttcttcttaactttagCATCAACCCCACAAAGAACTTGAGAGAGTTGACCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCTGAGCCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAGAGGAATC-GAAGAGGCGAGATGAGAAGGAGGAACCGCAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaagcagtgtataccatgttttgttatgggacggctttttgctg Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaagcattctatttgcctcacattttcttcttaactttagCATCAACCCCACAAAGAACTTGAGAGAGTTGACCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCTGAGCCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAGAGGAATCGAAGAGGCGAGATGAGAAGGAGGAACCGCAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaagcagtgtataccatgttttgttatgggacggctttttgctg Alignment from Exonerate_coding2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaagcattctatttgcctcacattttcttcttaactttagCATCAACCCCACAAAGAACTTGAGAGAGTTGACCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCTGAGCCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAGAGGAATCGAAGAGGCGAGATGAGAAGGAGGAACCGCAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaagcagtgtataccatgttttgttatgggacggctttttgctg Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gaggagtgctgaagcattctatttgcctcacattttcttcttaactttagCATCAACCCCACAAAGAACTTGAGAGAGTTGACCCTCCTTCCAGGTGATACTGGGAGGCAAGATGTTTCCCCCCCTGCCCCTGAGCCAGAACAAGAAGAGGGCAGTGGAGGGGCTCGAAGGGGGCCAAAAACAGAAGGAGAGGAATCGAAGAGGCGAGATGAGAAGGAGGAACCGCAGAAGTCACAGAGGGGTGGGAGAGGAAAGCGTGAGCATCATGAATCTGAGAGTGAGCAGgtaagtcaagcagtgtataccatgttttgttatgggacggctttttgctg #### Pdcd11_ID10138_32 --> 1 - 0 Original Alignment aGAGGAGCAGGAG-AAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacaggGAGGAACAAGAGCAAGCTAAATATATGGGTAGCCCTGTTAAATC-GGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from CESAR aGAGGAGCAGGAG-AAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacaggGAGGAACAAGAGCAAGCTAAATATATGGGTAGCCCTGTTAAAT-CGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Spaln_aa2Genome AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagggagG---AACAAGAGCAAGCTAAATATATGGGTAGCCCTGTTAAATCG-GAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Spaln_nt2Genome AGAGGAGCAGGAG-AAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGCAAGCTAAATATATGGGTAGCCCTGTTAAATC-GGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Pairagon AGAGGAGCAGGAG-AAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGCAAGCTAAATATATGGGTAGCCCTGTTAAATC-GGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Exonerate_protein2genome AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGCAAGCTAAATATATGGGTAGCCCTGTTAAATCGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from Exonerate_coding2genome AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGCAAGCTAAATATATGGGTAGCCCTGTTAAATCGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg Alignment from GeneWise AGAGGAGCAGGAGAAGCTGAACGTGTGGGTGGCCCTGCTGAACCTGGAAAACATGTACGGCTCTCAGGAGTCCCTGACTAAGGTCTTCGAGCGAGCTGTGCAGTACAACGAGCCTCTCAAGGTTTTCCTGCATCTGGCTGACATCTACACCAAGTCCGAGAAATACAAG tatgtgagtggctccaatgtaggtagatcactgtgggcttctctctacagGGAGGAACAAGAGCAAGCTAAATATATGGGTAGCCCTGTTAAATCGGAAAACATGTACGGCTCCCAGGCATCACTGACAAATGTTTTTGATCAAGCTGTCCAATACAATGAATCTCTTAAGGTTTTTCTGCACTTGGATGATATATACACCAAGTCCAAGAGATACAAGgtcagttgttggccacacatcaatgcagtttatcctgcacccttcccttg #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACC-TACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagttaccatgaacagtctgtgcttcatccatagATACTTACAAAGTGGATGTACACTGTCCGAAAGGGATACCGACCTGCTACACTACCACAATTGGCGACATGGGTCAAATGTGG-GTATACAATATCTCCCCTGTTAATGgtaagtgctgtggaaagcttggatgctctcttcctactaaatgccagaaa Alignment from CESAR GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACC-TACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagttaccatgaacagtctgtgcttcatccatagATACTTACAAAGTGGATGTACACTGTCCGAAAGGGATACCGACCTGCTACACTACCACAATTGGCGACATGGGTCAAATGTGGGT-ATACAATATCTCCCCTGTTAATGgtaagtgctgtggaaagcttggatgctctcttcctactaaatgccagaaa Alignment from Spaln_aa2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACC-TACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagttaccatgaacagtctgtgcttcatccatagATACTTACAAAGTGGATGTACACTGTCCGAAAGGGATACCGACCTGCTACAcTACCACAATTGGCGACATGGGTCAAATGTGGGTAT-ACAATATCTCCCCTGTTAATGgtaagtgctgtggaaagcttggatgctctcttcctactaaatgccagaaa Alignment from Spaln_nt2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCAC-CTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagttaccatgaacagtctgtgcttcatccatagATACTTACAAAGTGGATGTACACTGTCCGAAAGGGATACCGACCTGCTACACTACCACAATTGGCGACATGGGTCAAATGT-GGGTATACAATATCTCCCCTGTTAATGgtaagtgctgtggaaagcttggatgctctcttcctactaaatgccagaaa Alignment from Pairagon GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCAC-CTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTT---------------TGTTAATG ctctttaatgttggagtagttaccatgaacagtctgtgcttcatccatagATACTTACAAAGTGGATGTACACTGTCCGAAAGGGATACCGACCTGCTACACTACCACAATTGGCGACATGGGTCAAATGTGGG----------------TATACAATATCTCCCCTGTTAATGgtaagtgctgtggaaagcttggatgctctcttcctactaaatgccagaaa Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACC-TACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAAT ctctttaatgttggagtagttaccatgaacagtctgtgcttcatccatagATACTTACAAAGTGGATGTACACTGTCCGAAAGGGATACCGACCTGCTACACTACCACAATTGGCGACATGGGTCAAATGTGGGTATACAATATCTCCCCTGTTAATGgtaagtgctgtggaaagcttggatgctctcttcctactaaatgccagaaa Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACC-TACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAAT ctctttaatgttggagtagttaccatgaacagtctgtgcttcatccatagATACTTACAAAGTGGATGTACACTGTCCGAAAGGGATACCGACCTGCTACACTACCACAATTGGCGACATGGGTCAAATGTGGGTATACAATATCTCCCCTGTTAATGgtaagtgctgtggaaagcttggatgctctcttcctactaaatgccagaaa Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG ctctttaatgttggagtagttaccatgaacagtctgtgcttcatccatagATACTTACAAAGTGGATGTACACTGTCCGAAAGGGATACCGACCTGCTACACTACCACAATTGGCGACATGGGTCAAATGTGGGTATACAATATCTCCCCTGTTAATGgtaagtgctgtggaaagcttggatgctctcttcctactaaatgccagaaa #### Peo1_ID9266_3 --> 1 - 2 Original Alignment gTCCGTCATAGAC-ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag accaccagttaaaattttatctatatgactgtcctccggcctctctgcaggTCTGTCATAGACCACAATGCAACATGCAGTATATGTTTATG-TATATGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACaggtatgtatcagagatgagattgagtggactggtaatggccccaagggttt Alignment from CESAR gTCCGTCATAGAC-ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACag accaccagttaaaattttatctatatgactgtcctccggcctctctgcaggTCTGTCATAGACCACAATGCAACATGCAGTATATGTTTAT-GTATATGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACaggtatgtatcagagatgagattgagtggactggtaatggccccaagggttt Alignment from Spaln_aa2Genome GTCCGTCATAGAC-ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG accaccagttaaaattttatctatatgactgtcctccggcctctctgcagGTCTGTCATAGACcACAATGCAACATGCAGTATATGTTTATGT-ATATGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtatgtatcagagatgagattgagtggactggtaatggccccaagggttt Alignment from Spaln_nt2Genome GTCCGTCATAGAC-ACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG accaccagttaaaattttatctatatgactgtcctccggcctctctgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTTTATG-TATATGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtatgtatcagagatgagattgagtggactggtaatggccccaagggttt Alignment from Pairagon GTCCGTCATAGA-CACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG accaccagttaaaattttatctatatgactgtcctccggcctctctgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTTTATG-TATATGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtatgtatcagagatgagattgagtggactggtaatggccccaagggttt Alignment from Exonerate_protein2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG accaccagttaaaattttatctatatgactgtcctccggcctctctgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTTTATGTATATGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtatgtatcagagatgagattgagtggactggtaatggccccaagggttt Alignment from Exonerate_coding2genome GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG accaccagttaaaattttatctatatgactgtcctccggcctctctgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTTTATGTATATGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtatgtatcagagatgagattgagtggactggtaatggccccaagggttt Alignment from GeneWise GTCCGTCATAGACACAATGCAACATGCTGTCTACGTCTATGACGTCTGTCATGTAGTCATTGACAACTTGCAGTTCATGATGGGTCACGAGCAGCTCTCCTCTGACAG accaccagttaaaattttatctatatgactgtcctccggcctctctgcagGTCTGTCATAGACCACAATGCAACATGCAGTATATGTTTATGTATATGTCATGTGGTCATTGACAACTTACCATTCATGATGGGTCATGAGCAGCTTTCTTCAGACAGgtatgtatcagagatgagattgagtggactggtaatggccccaagggttt #### Pga5_ID2970_8 --> 0 - 0 Original Alignment TGGTGACGGCGAG TACTTCCTCAAGTGTGACACCATCAAC------ACCCTGCCTGATATT-GTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtgagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGAT---GTCAACTTCAACTGCTTGCCAGATACTCGTA---------------TTCACATGCCTAGTACCAGCTA-TACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from CESAR TGGTGACGGCGAG TACTTCCTCAAGTGTGAC---ACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgttagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATACTCGTATTCACATGCCTAGTACCAGCTAT---------------ACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Spaln_aa2Genome TGGTGACGGCGAG TACTTCCTCAAGTGTGAC---ACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtgagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATACTCGTATTCACATGCCTAGTACCAGCTAT---------------ACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Spaln_nt2Genome TGGTGACGGCGAG TACTTCCTCAAGTGTGA---CACCATCAACACCCTGCCTGATATT-GTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtgagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATACTCGTATTC---------------ACATGCCTAGTACCAGCTA-TACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Pairagon TGGTGACGGCGAG TACTTCCTCAAGTGTGA---CACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAG-------------------------------TGCCTACATCCGAAAG TGGTGATGGTCAGgtgagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCAACTTCAAC----------------------------------------------TGCTTGCCAGATACTCGTATTCACATGCCTAGTACCAGCTATACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg Alignment from Exonerate_protein2genome TGGTGACGGCGAG TACTTCCTCAAGTGTGAC---ACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtgagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATACTCGTATTCACATGCCTAGTACCAGCTATACCTACATTCGAAAGGTACAATAGGCAGGAgtcattaactaacttatattgcttaggttttaatg Alignment from Exonerate_coding2genome TGGTGACGGCGAG TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCA TGGTGATGGTCAGgtgagtgactctagcgatttggcctttcctcacacagtattttctaaagtgtgatgtcaacttcaactgcttgccagatactcgtattcacatgcctagtaccagctatacctacattcgaaAGGTACAATAGGCAGGAGTCATTAACTAACTTATATTGCTTAGGTTTTAATG Alignment from GeneWise TGGTGACGGCGAG TACTTCCTCAAGTGTGACACC---ATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGTGATGGTCAGgtgagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGTGTGATGTCAACTTCAACTGCTTGCCAGATACTCGTATTCACATGCCTAGTACCAGCTAT---------------ACCTACATTCGAAAGgtacaataggcaggagtcattaactaacttatattgcttaggttttaatg #### Pga5_ID2971_7 --> 1 - 0 Original Alignment cATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACA-GGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagcAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACACGGGGCTTCTTTGCTAACCAGGCCTCAAAGCA-CATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagctcccctcctcttggcttcccagTATTTTCTAAAGT Alignment from CESAR cATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACA-GGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagcAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACACGGGGCTTCTTTGCTAACCAGGCCTCAAAGCA-CATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagcgatttggcctttcctcacacagTATTTTCTAAAGT Alignment from Spaln_aa2Genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACACGGGGCTTCTTTGCTAACCAGGCCTCAAAGCACATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagctcccctcctcttggcttcccagTATTTTCTAAAGT Alignment from Spaln_nt2Genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACA-GGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACACGGGGCTTCTTTGCTAACCAGGCCTCAAAGC-ACATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagctcccctcctcttggcttcccagTATTTTCTAAAGT Alignment from Pairagon CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACA-GGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACACGGGGCTTCTTTGCTAACCAGGCCTCAAAGC-ACATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagctcccctcctcttggcttcccagTATTTTCTAAAGT Alignment from Exonerate_protein2genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACACGGGGCTTCTTTGCTAACCAGGCCTCAAAGCACATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagctcccctcctcttggcttcccagTATTTTCTAAAGT Alignment from Exonerate_coding2genome CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACACGGGGCTTCTTTGCTAACCAGGCCTCAAAGCACATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagctcccctcctcttggcttcccagtattttctaaagt Alignment from GeneWise CATCTCCATGAATGGGGAGGTCATTGCCTGTGATGGTGGCTGCCAAGGTATTATGGACACAGGGACCTCCTTGCTGACCGGCCCCCGAAGCTCCATCGTTAACATCCAGAATCTAATTGGTGCCAAGGCTTCTGGTGACGGCGAG TACTTCCTCAAGT acccagactgaagagtgtgttttagcctaacaatcttctatctctattagCAATGCCATGAATGGGGGGGCCATTGCATTGGATGGTAGCTGTCAAGGCATTATGGATACACGGGGCTTCTTTGCTAACCAGGCCTCAAAGCACATTGTTAATATCCAGAATGTATTTGGTTCCAAGGGGTCTGGTGATGGTCAGgttagtgactctagctcccctcctcttggcttcccagTATTTTCTAAAGT #### Pga5_ID2972_6 --> 1 - 2 Original Alignment cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGAT-CCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacagtttgaagtaccctggaaatttctttccttcttctggctgtagtAAGGATGAAAAGGGCAGCATATTAATGTTAGGAGGAGTGGACCCCCTCCTACTACCATGGAGAACTTCATTGGGTACCTG-CTCACAGCCGAGTTACTGGCGATTAGCTGCAGATaggtaagtcataggcgcctattgccagtaggtactatcttagaagcatgcag Alignment from CESAR cAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGAT-CCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATag tcatacagtttgaagtaccctggaaatttctttccttcttctggctgtagtAAGGATGAAAAGGGCAGCATATTAATGTTAGGAGGAGTGGACCCCCTCCTACTACCATGGAGAACTTCATTGGGTACCT-GCTCACAGCCGAGTTACTGGCGATTAGCTGCAGATaggtaagtcataggcgcctattgccagtaggtactatcttagaagcatgcag Alignment from Spaln_aa2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggaaatttctttccttcttctggctgtagTAAGGATGAAAAGGGCAGCATATTAATGTTAGGAGGAGTGGACCCCCTCCTACTACCATGGAGAACTTCATTGGGTACCTGCTCACAGCCGAGTTACTGGCGATTAGCTGCAGATAGgtaagtcataggcgcctattgccagtaggtactatcttagaagcatgcag Alignment from Spaln_nt2Genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGAT-CCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggaaatttctttccttcttctggctgtagTAAGGATGAAAAGGGCAGCATATTAATGTTAGGAGGAGTGGACCCCCTCCTACTACCATGGAGAACTTCATTGGGTACCTG-CTCACAGCCGAGTTACTGGCGATTAGCTGCAGATAGgtaagtcataggcgcctattgccagtaggtactatcttagaagcatgcag Alignment from Pairagon CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGA-TCCCTCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggaaatttctttccttcttctggctgtagTAAGGATGAAAAGGGCAGCATATTAATGTTAGGAGGAGTGGACCCCCTCCTACTACCATGGAGAACTTCATTGGGTACCTGC-TCACAGCCGAGTTACTGGCGATTAGCTGCAGATAGgtaagtcataggcgcctattgccagtaggtactatcttagaagcatgcag Alignment from Exonerate_protein2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGAT-CCCTCCTACTACCATGGAGAGCTTCACTGGGTACCA--GTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggaaatttctttccttcttctggctgtagTAAGGATGAAAAGGGCAGCATATTAATGTTAGGAGGAGTGGACCCCCTCCTACTACCATGGAGAACTTCATTGGGTACCTGC---TCACAGCCGAGTTACTGGCGATTAGCTGCAGATAGgtaagtcataggcgcctattgccagtaggtactatcttagaagcatgcag Alignment from Exonerate_coding2genome CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGAT-CCCTCCTACTACCATGGAGAGCTTCACTGGGTACCA--GTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggaaatttctttccttcttctggctgtagTAAGGATGAAAAGGGCAGCATATTAATGTTAGGAGGAGTGGACCCCCTCCTACTACCATGGAGAACTTCATTGGGTACCTGC---TCACAGCCGAGTTACTGGCGATTAGCTGCAGATAGgtaagtcataggcgcctattgccagtaggtactatcttagaagcatgcag Alignment from GeneWise CAAGGATGAAAAGGGCAGCATGCTGATGCTAGGTGGAGTGGATCCC-TCCTACTACCATGGAGAGCTTCACTGGGTACCAGTGTCCAAGCCCAGCTACTGGCAATTAGCTGTGGATAG tcatacagtttgaagtaccctggaaatttctttccttcttctggctgtagTAAGGATGAAAAGGGCAGCATATTAATGTTAGGAGGAGTGGACCCCCTCCTACTACCATGGAGAACTTCATTGGGTACCTGC-TCACAGCCGAGTTACTGGCGATTAGCTGCAGATAGgtaagtcataggcgcctattgccagtaggtactatcttagaagcatgcag #### Pitpnm1_ID309_6 --> 2 - 1 Original Alignment gcGGCGTGTCTCCACAGAGCTTGTCT-GAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATg aatatgggggtgagcatctttttaacatctttgcacattatgtatttcaggtTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATAGCCCGGGACACCAAAAATA-CTCAGAGGAAGACTTCTTTGATCCCCATggtaagtaagaaaggtaaaatgtaaagaatcctgtgattggtgggtgacat Alignment from CESAR gcGGCGTGTCTCCACAGAGCTTGTCT-GAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATg aatatgggggtgagcatctttttaacatctttgcacattatgtatttcaggtTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATAGCCCGGGACACCAAAAATA-CTCAGAGGAAGACTTCTTTGATCCCCATggtaagtaagaaaggtaaaatgtaaagaatcctgtgattggtgggtgacat Alignment from Spaln_aa2Genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctttgcacattatgtatttcagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATAGCCCGGGACACCAAAAATACTCAGAGGAAGACTTCTTTGATCCCCATGgtaagtaagaaaggtaaaatgtaaagaatcctgtgattggtgggtgacat Alignment from Spaln_nt2Genome GCGGCGTGTCTCCACAGAGCTTGTCT-GAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctttgcacattatgtatttcagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATAGCCCGGGACACCAAAAATA-CTCAGAGGAAGACTTCTTTGATCCCCATGgtaagtaagaaaggtaaaatgtaaagaatcctgtgattggtgggtgacat Alignment from Pairagon GCGGCGTGTCTCCACAGAGCTTGT-CTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctttgcacattatgtatttcagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATAGCCCGGGACACCAAAAATA-CTCAGAGGAAGACTTCTTTGATCCCCATGgtaagtaagaaaggtaaaatgtaaagaatcctgtgattggtgggtgacat Alignment from Exonerate_protein2genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctttgcacattatgtatttcagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATAGCCCGGGACACCAAAAATACTCAGAGGAAGACTTCTTTGATCCCCATGgtaagtaagaaaggtaaaatgtaaagaatcctgtgattggtgggtgacat Alignment from Exonerate_coding2genome GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctttgcacattatgtatttcagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATAGCCCGGGACACCAAAAATACTCAGAGGAAGACTTCTTTGATCCCCATGgtaagtaagaaaggtaaaatgtaaagaatcctgtgattggtgggtgacat Alignment from GeneWise GCGGCGTGTCTCCACAGAGCTTGTCTGAGTGGCGCATGCAGAACATTGCCCGAGACTCTGAGAACAGCTCCGAGGAAGAATTCTTTGATGCCCATG aatatgggggtgagcatctttttaacatctttgcacattatgtatttcagGTTGTGTATCTCCACAGAGTTTGTCCCGAATGGCACATGCAGAATATAGCCCGGGACACCAAAAATACTCAGAGGAAGACTTCTTTGATCCCCATGgtaagtaagaaaggtaaaatgtaaagaatcctgtgattggtgggtgacat #### Pitpnm1_ID313_10 --> 1 - 0 Original Alignment cCTGAGCCCCTACAGCCATGAT-GGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagcCTAAGTCCTTATAGCCATGATCGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGG-TTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from CESAR cCTGAGCCCCTACAGCCATGAT-GGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagcCTAAGTCCTTATAGCCATGATCGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGTTG-CCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Spaln_aa2Genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATCGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Spaln_nt2Genome CCTGAGCCCCTACAGCCATGATGGG-GATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATCGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGTTG-CCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Pairagon CCTGAGCCCCTACAGCCATGAT-GGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATCGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGTTG-CCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Exonerate_protein2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATCGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from Exonerate_coding2genome CCTGAGCCCCTACAGCCATGATGGGGATAGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATCGGAGATTGTCTATCCCGAACCCCAGACCACATTCCATTGGTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc Alignment from GeneWise CCTGAGCCCCTACAGCCATGATGGGGAT---AGCCTGTCCCGCTCCCAAGACCACATTCCGCTGGCTGCCCTGCCGCTCCTGGCCACCTCATCCTCTCGCTACCAGGGTGCCGTGGCCACTGTCATCGCTCGCACCAACCAGGCCTATGCAGCCTTCCTGCGCTCATCGGAGGGCACAGGTTTCTGCGGGCAG ctggttatgtcttaattgtccattactgcccgccctgcccatgtgcccagCCTAAGTCCTTATAGCCATGATCGGAGATTGTCTATCCCGAACCCCAGACCACAT---TCCATTGGTTGCCTCCCTCTTCTGACCATCTTATCCTCTCAATACCAGGGGGCAGTGACCACAGTTATTGCTCACACCAACCAAGCCTTTGCAGCTTTTCTGCGTTCGTCAGAGGGATCTGGTTTCTGTGGACAAgtgagggtaactgtatttgcatgggttaatcaaaaacctatgatgctgcc #### Pitpnm1_ID314_11 --> 0 - 0 Original Alignment GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCG-CTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG acacaaacaggtagaaaaaccagcatatttcccaacacccccatacacagGTGGTCTTGATTGGAGATGGAGTCGGTGGCATTCTTGGTTTTGACGCTCCTCTGTCACAGTGCCAGTGCAGGCCCAGGGAGCCAGG-CAGCAGCCACCATGGGAGCATGgtatgtttccatttcacggagtcaccagctaagggaaccagggctgcagt Alignment from CESAR GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCG-CTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG acacaaacaggtagaaaaaccagcatatttcccaacacccccatacacagGTGGTCTTGATTGGAGATGGAGTCGGTGGCATTCTTGGTTTTGACGCTCCTCTGTCACAGTGCCAGTGCAGGCCCAGGGAGCC-AGGCAGCAGCCACCATGGGAGCATGgtatgtttccatttcacggagtcaccagctaagggaaccagggctgcagt Alignment from Spaln_aa2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCG-CTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATGAAC acacaaacaggtagaaaaaccagcatatttcccaacacccccatacacagGTGGTCTTGATTGGAGATGGAGTCGGTGGCATTCTTGGTTTTGACGCTcCTCTGTCACAGTGCCAGTGCAGGCCCAGGGAGCCAGGCAGCAGCCACCATGGGAGCATGGTATgtttccatttcacggagtcaccagctaagggaaccagggctgcagt Alignment from Spaln_nt2Genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGC-TCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG acacaaacaggtagaaaaaccagcatatttcccaacacccccatacacagGTGGTCTTGATTGGAGATGGAGTCGGTGGCATTCTTGGTTTTGACGCTCCTCTGTCACAGTGCCAGTGCAGGCCCAGGGAG-CCAGGCAGCAGCCACCATGGGAGCATGgtatgtttccatttcacggagtcaccagctaagggaaccagggctgcagt Alignment from Pairagon GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGC-GCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG acacaaacaggtagaaaaaccagcatatttcccaacacccccatacacagGTGGTCTTGATTGGAGATGGAGTCGGTGGCATTCTTGGTTTTGACGCTCCTCTGTCACAGTGCCAGTGCAGGCCCAGGGAGCC-AGGCAGCAGCCACCATGGGAGCATGgtatgtttccatttcacggagtcaccagctaagggaaccagggctgcagt Alignment from Exonerate_protein2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG acacaaacaggtagaaaaaccagcatatttcccaacacccccatacacagGTGGTCTTGATTGGAGATGGAGTCGGTGGCATTCTTGGTTTTGACGCTCCTCTGTCACAGTGCCAGTGCAGGCCCAGGGAGCCAGGCAGCAGCCACCATGGGAGCATGgtatgtttccatttcacggagtcaccagctaagggaaccagggctgcagt Alignment from Exonerate_coding2genome GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG acacaaacaggtagaaaaaccagcatatttcccaacacccccatacacagGTGGTCTTGATTGGAGATGGAGTCGGTGGCATTCTTGGTTTTGACGCTCCTCTGTCACAGTGCCAGTGCAGGCCCAGGGAGCCAGGCAGCAGCCACCATGGGAGCATGgtatgtttccatttcacggagtcaccagctaagggaaccagggctgcagt Alignment from GeneWise GTGGTGCTGATCGGAGATGGTGTTGGTGGCATCCTGGGCTTTGATGCGCTCTGCCACAGTGCCAGTGCAGGCCCAGGGAGTCGGGGCAGCAGCCGCCGTGGGAGCATG acacaaacaggtagaaaaaccagcatatttcccaacacccccatacacagGTGGTCTTGATTGGAGATGGAGTCGGTGGCATTCTTGGTTTTGACGCTCCTCTGTCACAGTGCCAGTGCAGGCCCAGGGAGCCAGGCAGCAGCCACCATGGGAGCATGgtatgtttccatttcacggagtcaccagctaagggaaccagggctgcagt #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTC-CACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgctgtcgctcgagaaatgtatgtgtgttttagttCTCGACCGCTGGTGGGGAAACAAACGCATTGATTATTCTCTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCCATGCAAGCTACTGGGAGTCAGCAGATGTAG-TGCCTTCATTCTACGCCAGgtatgaacaccccaggattggcctaacactgagtttagataacaggcgcc Alignment from CESAR tcCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTC-TTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgctgtcgctcgagaaatgtatgtgtgttttagttCTCGACCGCTGGTGGGGAAACAAACGCATTGATTATTCTCTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCCATGCAAGCTACTGGGAGTCAGCAGATGTAG-TGCCTTCATTCTACGCCAGgtatgaacaccccaggattggcctaacactgagtttagataacaggcgcc Alignment from Spaln_aa2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgctgtcgctcgagaaatgtatgtgtgttttagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATTATTCTCTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCCATGCAAGCTACTGGGAGTCAGCAGATGTAGTGCCTTCATTCTACGCCAGgtatgaacaccccaggattggcctaacactgagtttagataacaggcgcc Alignment from Spaln_nt2Genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTT-CCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgctgtcgctcgagaaatgtatgtgtgttttagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATTATTCTCTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCCATGCAAGCTACTGGGAGTCAGCAGATGTAGTGCCT-TCATTCTACGCCAGgtatgaacaccccaggattggcctaacactgagtttagataacaggcgcc Alignment from Pairagon TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTC-TTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgctgtcgctcgagaaatgtatgtgtgttttagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATTATTCTCTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCCATGCAAGCTACTGGGAGTCAGCAGATGTAGT-GCCTTCATTCTACGCCAGgtatgaacaccccaggattggcctaacactgagtttagataacaggcgcc Alignment from Exonerate_protein2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgctgtcgctcgagaaatgtatgtgtgttttagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATTATTCTCTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCCATGCAAGCTACTGGGAGTCAGCAGATGTAGTGCCTTCATTCTACGCCAGgtatgaacaccccaggattggcctaacactgagtttagataacaggcgcc Alignment from Exonerate_coding2genome gaacacagttgaagctgtgctgtcgctcgagaaatgtatgtgtgttttagttctcgaccgctggtggggaaacaaacgcattgattattctctctactgcccagaagcacttacagcctttcccactgtcacactgccccacctctttccatgcaagctactgggagtcagcagatgtagtgccttcattctacgccaggtatgaacaccccaggattggcctaacactgagtttagataacaggcgcc Alignment from GeneWise TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG gaacacagttgaagctgtgctgtcgctcgagaaatgtatgtgtgttttagTTCTCGACCGCTGGTGGGGAAACAAACGCATTGATTATTCTCTCTACTGCCCAGAAGCACTTACAGCCTTTCCCACTGTCACACTGCCCCACCTCTTTCCATGCAAGCTACTGGGAGTCAGCAGATGTAGTGCCTTCATTCTACGCCAGgtatgaacaccccaggattggcctaacactgagtttagataacaggcgcc #### Pitpnm1_ID321_18 --> 0 - 0 Original Alignment AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTG-AATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC ctttgctgtggatttttcatataattgtgttttgtttgttttccctgcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTACAATGGCCATTTCATGTATGGACCACTGGATGTAG-TACACTCACCAGAGAAGAGgtaagctctgtgtgcttggtttcagGTTGAGGTCTATGTCATGACACAGC Alignment from CESAR AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTG-AATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC ctttgctgtggatttttcatataattgtgttttgtttgttttccctgcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTACAATGGCCATTTCATGTATGGACCACTGGATGTAG-TACACTCACCAGAGAAGAGgtccccttttgccttatatttgcagGTTGAGGTCTATGTCATGACACAGC Alignment from Spaln_aa2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGC ctttgctgtggatttttcatataattgtgttttgtttgttttccctgcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTACAATGGCCATTTCATGTATGGACCACTGGATGTAGTACACTCACCAGAGAAGAGGTAAGCTCTGTGTGCTTGGTTTCAgGTTGAGGTCTATGTCATGACACAGC Alignment from Spaln_nt2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTG-AATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAGGTGGAT-------------------------------GTCTACGTCATGACACAGC ctttgctgtggatttttcatataattgtgttttgtttgttttccctgcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTACAATGGCCATTTCATGTATGGACCACTGGATGTAGT-ACACTCAC--CAGAGAA----GAGGTAAGCTCTGTGTGCTTGGTTTCAGGTTGAGGTCTATGTCATGACACAGC Alignment from Pairagon AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTG-AATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGC ctttgctgtggatttttcatataattgtgttttgtttgttttccctgcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTACAATGGCCATTTCATGTATGGACCACTGGATGTAGT-ACACTCACCAGAGAAGAGGTAAGCTCTGTGTGCTTGGTTTCAGGTTGAGGTCTATGTCATGACACAGC Alignment from Exonerate_protein2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGA---GAGAAGGTGGATGTCTACGTCATGACACAGC ctttgctgtggatttttcatataattgtgttttgtttgttttccctgcagaatgtcacttctaaccacaaagCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTACAATGGCCATTTCATGTATGGACCACTGGATGTAGTACACTCACCAGAGAAGAGGTAAGCTCTGTGTGCTTGGTTTCAGGTTGAGGTCTATGTCATGACACAGC Alignment from Exonerate_coding2genome ctttgctgtggatttttcatataattgtgttttgtttgttttccctgcagaatgtcacttctaaccacaaagcaagtgacactgtgatatgtgagggccacccgcaagtactacaatggccatttcatgtatggaccactggatgtagtacactcaccagagaagaggtaagctctgtgtgcttggtttcaggttgaggtctatgtcatgacacagc Alignment from GeneWise AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC ctttgctgtggatttttcatataattgtgttttgtttgttttccctgcagAATGTCACTTCTAACCACAAAGCAAGTGACACTGTGATATGTGAGGGCCACCCGCAAGTACTACAATGGCCATTTCATGTATGGACCACTGGATGTAGTACACTCACCAGAGAAGAGgtaagctctgtgtgcttggtttcagGTTGAGGTCTATGTCATGACACAGC #### Pitpnm1_ID322_19 --> 0 - 2 Original Alignment TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGC-AAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtaaagttttgccttatatttgcagGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCCAAGTGGATTCATTTTGGCACAGAGGTCACAA-CAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCaggtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from CESAR TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGC-AAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCag TGTAGTTACACTCACCAGAGAAGAGgtccccttttgccttatatttgcagGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCCAAGTGGATTCATTTTGGCACAGAGGTCA-CAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCaggtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Spaln_aa2Genome TGTGGTCACGCTCACTGGAGAGAAG-------------------------GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTAAAGTTTTGCCTTATATTTGCAgGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCCAAGTGGATTCATTTTGGCACAGAGGTCACAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Spaln_nt2Genome CACGCTCACTGGAGAGAAGGTGGAT-------------------------------GTCTACGTCATGACACAGCCACTGTCAGG-CAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TACACTCAC--CAGAGAA----GAGGTAAAGTTTTGCCTTATATTTGCAGGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCCAAGTGGATTCATTTTGGCACAGAGGTCAC-AACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Pairagon TGTGGTCACGCTCACTGGAGA-------------------------GAAGGTGGATGTCTACGTCATGACACAGCCACTGTCAGG-CAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGGTAAAGTTTTGCCTTATATTTGCAGGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCCAAGTGGATTCATTTTGGCACAGAGGTCAC-AACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Exonerate_protein2genome TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtaaagttttgccttatatttgcaggttgag------GTCTATGTCATGACACAGCCCCTGTCAGGCCAAGTGGATTCATTTTGGCACAGAGGTCACAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from Exonerate_coding2genome tgtagttacactcaccagagaagaggtaaagttttgccttatatttgcaggttgaggtctatgtcatgacacagcccctgtcaggccaagtggattcattttggcacagaggtcacaacagttctggccatcttaccttcccagtttcatcagagcatgcactgggcattggtgtctaccctttgcacatggtggtcaggtgagcacagaaagttagctactaatttcattcctgttaaatactaactt Alignment from GeneWise TGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGCCACTGTCAGGCAAGTGGATCCACTTTGGCACAGAGGTCACTAACAGCTCAGGCCGTCTCACCTTCCCAGTGCCCTCAGAACGTGCACTGGGCATTGGTGTCTACCCTGTGCGCATGGTGGTCAG TGTAGTTACACTCACCAGAGAAGAGgtaaagttttgccttatatttgcagGTTGAGGTCTATGTCATGACACAGCCCCTGTCAGGCCAAGTGGATTCATTTTGGCACAGAGGTCACAACAGTTCTGGCCATCTTACCTTCCCAGTTTCATCAGAGCATGCACTGGGCATTGGTGTCTACCCTTTGCACATGGTGGTCAGgtgagcacagaaagttagctactaatttcattcctgttaaatactaactt #### Pkd2l1_ID8954_14 --> 1 - 0 Original Alignment gCTCACAAGGAGAGTTCTG-CAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcaggCTTACAAGGAGGGTATTGCCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCC-GATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from CESAR gCTCACAAGGAGAGTTCTG-CAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcaggCTTACAAGGAGGGTATTGCCAGCTACAATGTGTATTAGGGGGAGTTGTCTCC-CGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Spaln_aa2Genome GCTCACAAGGAGAGTTCTG-CAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGcCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCG-ATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Spaln_nt2Genome GCTCACAAGGAGAGTTCTGC-AGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCC-GATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Pairagon GCTCACAAGGAGAGTTCTG-CAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCC-GATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Exonerate_protein2genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from Exonerate_coding2genome GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc Alignment from GeneWise GCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG tgtaatggtgactgaatgtcagagtctacgtgtcattctcacccctgcagGCTTACAAGGAGGGTATTGCCAGCTACAATGTGTATTAGGGGGAGTTGTCTCCCGATTGATGCCATTGACTCTAAGCTAAAAATGCTGGAAAGAAAGGGGGAGTTGGCTCCTTACCCTGGTATGgtgggcactgtctgggggcatgcagagggagacctactggcagtcatggc #### Pkd2l1_ID8955_13 --> 0 - 2 Original Alignment GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAA-TTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat acaaggaggttctcttgagagtgccatttctcttccttttttttttccagGTGACACTCAATGTAGAGATTGAGAACCTAGGTCAGTCTGTTGGGCATAGCCCCCCTGGTGAACCTG------GAAGCTGCAAGGGGAAAAGGTT-GGTTTCTGGAGAAGGATTTGACatgtactgtgagttgtaatggtgactgaatgtcagagtctagcctgtgcttg Alignment from CESAR GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAA-TTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat acaaggaggttctcttgagagtgccatttctcttccttttttttttccagGTGACACTCAATGTAGAGATTGAGAACCTAGGTCAGTCTGTTGGGCATAGCCCCCCTGGTGAACCTG------GAAGCTGCAAGGGGAAAAGGTT-GGTTTCTGGAGAAGGATTTGACatgtactgtgagttgtaatggtgactgaatgtcagagtctacgtgtcattct Alignment from Spaln_aa2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT acaaggaggttctcttgagagtgccatttctcttccttttttttttccagGTGACACTCAATGTAGAGATTGAGAACCTAGGTCAGTCTGTTGGGCATAGCCCCCCTGGTGAACCTGGA------AGCTGCAAGGGGAAAAGGTTGGTTTCTGGAGAAGGATTTGACATgtactgtgagttgtaatggtgactgaatgtcagagtctagcctgtgcttg Alignment from Spaln_nt2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT acaaggaggttctcttgagagtgccatttctcttccttttttttttccagGTGACACTCAATGTAGAGATTGAGAACCTAGGTCAGTCTGTTGGGCATAGCCCCCCTGGTGAA-----CCTGGAAGCTGCAAGGGGA-AAAGGTTGGTTTCTGGAGAAGGATTTGACATgtactgtgagttgtaatggtgactgaatgtcagagtctagcctgtgcttg Alignment from Pairagon GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT acaaggaggttctcttgagagtgccatttctcttccttttttttttccagGTGACACTCAATGTAGAGATTGAGAACCTAGGTCAGTCTGTTGGGCATAGCCCCCCTGGTGAA-----CCTGGAAGCTGCAAGGGGA-AAAGGTTGGTTTCTGGAGAAGGATTTGACATgtactgtgagttgtaatggtgactgaatgtcagagtctagcctgtgcttg Alignment from Exonerate_protein2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT acaaggaggttctcttgagagtgccatttctcttccttttttttttccagGTGACACTCAATGTAGAGATTGAGAACCTAGGTCAGTCTGTTGGGCATAGCCCCCCTGGTGAACCTGGA------AGCTGCAAGGGGAAAAGGTTGGTTTCTGGAGAAGGATTTGACATgtactgtgagttgtaatggtgactgaatgtcagagtctagcctgtgcttg Alignment from Exonerate_coding2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT acaaggaggttctcttgagagtgccatttctcttccttttttttttccagGTGACACTCAATGTAGAGATTGAGAACCTAGGTCAGTCTGTTGGGCATAGCCCCCCTGGTGAACCTGGA------AGCTGCAAGGGGAAAAGGTTGGTTTCTGGAGAAGGATTTGACATgtactgtgagttgtaatggtgactgaatgtcagagtctagcctgtgcttg Alignment from GeneWise GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT acaaggaggttctcttgagagtgccatttctcttccttttttttttccagGTGACACTCAATGTAGAGATTGAGAACCTAGGTCAGTCTGTTGGGCATAGCCCCCCTGGTGAACCTGGAAGC------TGCAAGGGGAAAAGGTTGGTTTCTGGAGAAGGATTTGACATgtactgtgagttgtaatggtgactgaatgtcagagtctagcctgtgcttg #### Pkd2l1_ID8958_10 --> 0 - 0 Original Alignment AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTC-AAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG catgaagcaggaccttcaggaactactgtcggttttgtgctcttcttcagAATATGTTCCTGGCCATTATCAATGATACATACTCAGAAGTCCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGC-ACTATCTGACTTCCTAAAACAGgtgagtcccctaagatatggaaaggtacacaagcatcaggaacattaaca Alignment from CESAR AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTC-AAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG catgaagcaggaccttcaggaactactgtcggttttgtgctcttcttcagAATATGTTCCTGGCCATTATCAATGATACATACTCAGAAGTCCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGC-ACTATCTGACTTCCTAAAACAGgtgagtcccctaagatatggaaaggtacacaagcatcaggaacattaaca Alignment from Spaln_aa2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG catgaagcaggaccttcaggaactactgtcggttttgtgctcttcttcagAATATGTTCCTGGCCATTATCAATGATACATACTCAGAAGTCCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCACTATCTGACTTCCTAAAACAGgtgagtcccctaagatatggaaaggtacacaagcatcaggaacattaaca Alignment from Spaln_nt2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCG-AGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG catgaagcaggaccttcaggaactactgtcggttttgtgctcttcttcagAATATGTTCCTGGCCATTATCAATGATACATACTCAGAAGTCCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCA-CTATCTGACTTCCTAAAACAGgtgagtcccctaagatatggaaaggtacacaagcatcaggaacattaaca Alignment from Pairagon AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGT-CAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG catgaagcaggaccttcaggaactactgtcggttttgtgctcttcttcagAATATGTTCCTGGCCATTATCAATGATACATACTCAGAAGTCCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCA-CTATCTGACTTCCTAAAACAGgtgagtcccctaagatatggaaaggtacacaagcatcaggaacattaaca Alignment from Exonerate_protein2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG catgaagcaggaccttcaggaactactgtcggttttgtgctcttcttcagAATATGTTCCTGGCCATTATCAATGATACATACTCAGAAGTCCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCACTATCTGACTTCCTAAAACAGgtgagtcccctaagatatggaaaggtacacaagcatcaggaacattaaca Alignment from Exonerate_coding2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG catgaagcaggaccttcaggaactactgtcggttttgtgctcttcttcagAATATGTTCCTGGCCATTATCAATGATACATACTCAGAAGTCCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCACTATCTGACTTCCTAAAACAGgtgagtcccctaagatatggaaaggtacacaagcatcaggaacattaaca Alignment from GeneWise AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG catgaagcaggaccttcaggaactactgtcggttttgtgctcttcttcagAATATGTTCCTGGCCATTATCAATGATACATACTCAGAAGTCCAAGGAGGAGCTGGCTGGACAGAAGGATCAGCTGCACTATCTGACTTCCTAAAACAGgtgagtcccctaagatatggaaaggtacacaagcatcaggaacattaaca #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTT-GGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTCGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACT-CAGCACTTTTGTTAAGTGCatgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from CESAR ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTT-GGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTCGGCTACCTGCTTTTTGGGACTCAAGTGGAAAAC-TCAGCACTTTTGTTAAGTGCatgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Spaln_aa2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTT-GGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTcGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTC-AGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Spaln_nt2Genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTT-GGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTCGGCTACCTGCTTTTTGGGACTCAAGTGGAAAAC-TCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Pairagon ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTT-GGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTCGGCTACCTGCTTTTTGGGACTCAAGTGGAAAAC-TCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Exonerate_protein2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTCGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from Exonerate_coding2genome ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTCGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta Alignment from GeneWise ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT cttgaacccattagccttgtcgctccaactttctgattcttgtcttgtagAAATTCAAGTATATAAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTTGCTTATGCCCAGCTTCGGCTACCTGCTTTTTGGGACTCAAGTGGAAAACTCAGCACTTTTGTTAAGTGCATgtgagcacaaccattgtagacccttgggttttgagatcccagaatgttta #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAA-GTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacaggGGCAAGGCCTCCAACTCAGAGGATGTGAAAGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAACGCACAAAGCTTGTTGGAATTGAGAGAAG-CCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggtgagctctttatcttttatgtagGCACA Alignment from CESAR gGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAA-GTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacaggGGCAAGGCCTCCAACTCAGAGGATGTGAAAGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAACGCACAAAGCTTGTTGGAATTGAGAGAAG-CCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggttttgttttttgtcttctcttagGCACA Alignment from Spaln_aa2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAAGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAACGCACAAAGCTTGTTGGAATTGAGAGAAGCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggtgagctctttatcttttatgtagGCACA Alignment from Spaln_nt2Genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAA-GTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAAGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAACGCACAAAGCTTGTTGGAATTGAGAGAAG-CCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggtgagctctttatcttttatgtagGCACA Alignment from Pairagon GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAA-GTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGAC---------------------------------------------AGGCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAAGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAACGCACAAAGCTTGTTGGAATTGAGAGAAG-CCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATGTAAGCGATCAATGTCGGATGGTGAGCTCTTTATCTTTTATGTAGGCACA Alignment from Exonerate_protein2genome GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAAGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAACGCACAAAGCTTGTTGGAATTGAGAGAAGCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggtgagctctttatcttttatgtagGCACA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG GCTCA tcttgtttggtcgtatcacttggagaatatatcattactttgctttacagGGGCAAGGCCTCCAACTCAGAGGATGTGAAAGATGAAGAAGAATCCAAGCAGTATAGGGACTTGCAAAATCAAAAACGCACAAAGCTTGTTGGAATTGAGAGAAGCCAGGGTGATGTGGAGACCAATTGCAAGCTGGATCATCTACGACATgtaagcgatcaatgtcggatggtgagctctttatcttttatgtagGCACA #### Plcb3_ID1906_25 --> 2 - 2 Original Alignment agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCT-ATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ccagccaggaagctagcataccaaccaatacctcccctgctcctcctcagaaGTAATCCCCACACCCCTAGAAGAGCTAAGAAGTCACAAGGCCCATGGTGAAGCTGCACAGCCGACAGTGCGACCAAGACC-ACAGGAATTACATAAGAAGCACCAGCATAAGGTTATAGCACTCACCCGACGTTTGCTCGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCctgtaagcataattgcaccatagcatggcagtatgtactggcttaacttaca Alignment from CESAR agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCT-ATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCct ccagccaggaagctagcataccaaccaatacctcccctgctcctcctcagaaGTAATCCCCACACCCCTAGAAGAGCTAAGAAGTCACAAGGCCCATGGTGAAGCTGCACAGCCGACAGTGCGACCAAGAC-CACAGGAATTACATAAGAAGCACCAGCATAAGGTTATAGCACTCACCCGACGTTTGCTCGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCctgtaagcataattgcaccatagcatggcagtatgtactggcttaacttaca Alignment from Spaln_aa2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGA---GACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagccaggaagctagcataccaaccaatacctcccctgctcctcctcagAAGTAATCCCCACACCCCTAGAAGAGCTAAGAAGTCACAAGGCCCATGGTGAAGCTGCACAGCCGACAGTGCGACCAAGACCACAGGAATTACATAAGAAGCACCAGCATAAGGTTATAGCACTCACCCGACGTTTGCTCGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagcataattgcaccatagcatggcagtatgtactggcttaacttaca Alignment from Spaln_nt2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCT-ATGGTGAAGCTACGGAGCCGGCAG---GATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagccaggaagctagcataccaaccaatacctcccctgctcctcctcagAAGTAATCCCCACACCCCTAGAAGAGCTAAGAAGTCACAAGGCCCATGGTGAAGCTGCACAGCCGACAGTGCGACCAAGACC-ACAGGAATTACATAAGAAGCACCAGCATAAGGTTATAGCACTCACCCGACGTTTGCTCGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagcataattgcaccatagcatggcagtatgtactggcttaacttaca Alignment from Pairagon AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGG-CTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCG------------GGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagccaggaagctagcataccaaccaatacctcccctgctcctcctcagAAGTAATCCCCACACCCCTAGAAGAGCTAAGAAGTCACAAGGCCCATGGTGAAGCTGCACAGCCGACAG----------TGCGACCAAGACCACAGGAATTACATAAGAAGCACCAGCATAAGGTTATAGCACTCACCCGACGTTTGCTCGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagcataattgcaccatagcatggcagtatgtactggcttaacttaca Alignment from Exonerate_protein2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTG---CGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagccaggaagctagcataccaaccaatacctcccctgctcctcctcagAAGTAATCCCCACACCCCTAGAAGAGCTAAGAAGTCACAAGGCCCATGGTGAAGCTGCACAGCCGACAGTGCGACCAAGACCACAGGAATTACATAAGAAGCACCAGCATAAGGTTATAGCACTCACCCGACGTTTGCTCGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagcataattgcaccatagcatggcagtatgtactggcttaacttaca Alignment from Exonerate_coding2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCT---ATGGTGAAGCTACGGAGCCGGCAGGATCGAGAC--CTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagccaggaagctagcataccaaccaatacctcccctgctcctcctcagAAGTAATCCCCACACCCCTAGAAGAGCTAAGAAGTCACAAGG--CCCATGGTGAAGCTGCACAGCCGACAGTGCGACCAAGACCACAGGAATTACATAAGAAGCACCAGCATAAGGTTATAGCACTCACCCGACGTTTGCTCGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagcataattgcaccatagcatggcagtatgtactggcttaacttaca Alignment from GeneWise AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTG---CGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCT ccagccaggaagctagcataccaaccaatacctcccctgctcctcctcagAAGTAATCCCCACACCCCTAGAAGAGCTAAGAAGTCACAAGGCCCATGGTGAAGCTGCACAGCCGACAGTGCGACCAAGACCACAGGAATTACATAAGAAGCACCAGCATAAGGTTATAGCACTCACCCGACGTTTGCTCGATGGCCTGGCTCAGACAAGAGCAGAGGGGAAGTGCCAGCCATCTTCCAGTGTCCTgtaagcataattgcaccatagcatggcagtatgtactggcttaacttaca #### Plcb3_ID1912_19 --> 0 - 0 Original Alignment GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAA-TATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAACTATCGTACCCGGACCTCTCAGGGAAACTTGTTCA-CCCTGTATGGGAAGAAGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from CESAR GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAA-TATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAACTATCGTACCCGGACCTCTCAGGGAAACTTGT-TCACCCTGTATGGGAAGAAGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Spaln_aa2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAACTATCGTACCCGGACCTCTCAGGGAAACTTGTTCACCCTGTATGGGAAGAAGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Spaln_nt2Genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGC-AAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAACTATCGTACCCGGACCTCTCAGGGAAACTTGTTCAC-CCTGTATGGGAAGAAGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Pairagon GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAA-TATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAACTATCGTACCCGGACCTCTCAGGGAAACTTGTTC-ACCCTGTATGGGAAGAAGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Exonerate_protein2genome GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAACTATCGTACCCGGACCTCTCAGGGAAACTTGTTCACCCTGTATGGGAAGAAGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTGATTTCGGGGCAGTTCCTGTCTGACAAGAAGGTGGGCATCTACGTCGAGGTGGACATGTTTGGCCTCCCAGTTGACACAAGACGCAAATATCGTACCCGGACATCCCAGGGGAACTCATTCAACCCTGTGTGGGACGAGGAACCCTTTGACTTCCCCAAG acacgaaaattctctcatcaactttcaggtgtcctgcttccaacccctagGTGATCCCAGGGCAATTCCTTTCTCATAAGAAAGTCGGTATCTATGTTGAGGTGGATATGTTTGGTCTCCCACTAGATACTAGATGTAAACTATCGTACCCGGACCTCTCAGGGAAACTTGTTCACCCTGTATGGGAAGAAGAACCGTTTGATTTCCCAAAGgtgagttccagcaattatgccctccatttcatgtaggacagcaagaccac #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCT-CAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg ggcctcctgactgctgtatccccatgacactaacatgtcattctctccagaTACAACAGACAACAGCTTAGTCAGATATACTCCAGGAGCAAACAAGTG---TCCTCAAACTACATGCCTCTATCTCTTTTGGAATGTAGGCTGCCAACTTGTTGCCTTCA-CTTCCAGAGCCTGggtgagtatatgttcgcttttggcctccctaatcacctacctttaatttgg Alignment from CESAR aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAG-CTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg ggcctcctgactgctgtatccccatgacactaacatgtcattctctccagaTACAACAGACAACAGCTTAGTCAGATATACTCCAGGAGCAAACAAGTG---TCCTCAAACTACATGCCTCTATCTCTTTTGGAATGTAGGCTGCCAACTTGTTG-CCTTCACTTCCAGAGCCTGggtgagtatatgttcgcttttggcctccctaatcacctacctttaatttgg Alignment from Spaln_aa2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAG-CTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACC---TTGG ggcctcctgactgctgtatccccatgacactaacatgtcattctctccagATACAACAGACAACAGCTTAGTCAGATATACTCCAGGAGCAAACAAGTG---TCCTCAAACTACATGCCTCTAtCTCTTTTGGAATGTAGGCTGCCAACTTGTTGCCTTCACTTCCAGAGCCTGGGTGAgtatatgttcgcttttggcctccctaatcacctacctttaatttgg Alignment from Spaln_nt2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTC-AGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ggcctcctgactgctgtatccccatgacactaacatgtcattctctccagATACAACAGACAACAGCTTAGTCAGATATACTCCAGGAGCAAACAAGTG---TCCTCAAACTACATGCCTCTATCTCTTTTGGAATGTAGGCTGCCAACTTGTTGCCTTC-ACTTCCAGAGCCTGGgtgagtatatgttcgcttttggcctccctaatcacctacctttaatttgg Alignment from Pairagon ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTC-AGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ggcctcctgactgctgtatccccatgacactaacatgtcattctctccagATACAACAGACAACAGCTTAGTCAGATATACTCCAGGAGCAAACAAGTG---TCCTCAAACTACATGCCTCTATCTCTTTTGGAATGTAGGCTGCCAACTTGTTGCCTTC-ACTTCCAGAGCCTGGgtgagtatatgttcgcttttggcctccctaatcacctacctttaatttgg Alignment from Exonerate_protein2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCT-CAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGAC ggcctcctgactgctgtatccccatgacactaacatgtcattctctccagATACAACAGACAACAGCTTAGTCAGATATACTCCAGGAGCAAACAAGTG---TCCTCAAACTACATGCCTCTATCTCTTTTGGAATGTAGGCTGCCAACTTGTTGCCTTCACTTCCAGAGCctgggtgagtatatgttcgcttttggcctccctaatcacctacctttaatttgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCT-CAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGAT- ggcctcctgactgctgtatccccatgacactaacatgtcattctctccagATACAACAGACAACAGCTTAGTCAGATATACTCCAGGAGCAAACAAGTG---TCCTCAAACTACATGCCTCTATCTCTTTTGGAATGTAGGCTGCCAACTTGTTGCCTTCACTTCCAGAGCCTGGGTGAgtatatgttcgcttttggcctccctaatcacctacctttaatttgg #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aaAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catcaggttggtctttcaggtgatttcttcttattttgttttatttgtagaaAGGAACAAGTGTTTTAGAATGTCATCCCTTTGCAGAAACCAAAGCA------------A-TAAGAGCCCTATGGAGCTAGTGgagtaaattcatcaatgtgtagtgtgaggacgataactttgttgcctacaat Alignment from CESAR aaAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga catcaggttggtctttcaggtgatttcttcttattttgttttatttgtagaaAGGAACAAGTGTTTTAGAATGTCATCCCTTTGCAGAAACCAAAGCAA-T------------AAGAGCCCTATGGAGCTAGTGgagtaaattcatcaatgtgtagtgtgaggacgataactttgttgcctacaat Alignment from Spaln_aa2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgatttcttcttattttgttttatttgtagAAAGGAACAAGTGTTTTAGAATGTCATCCCTTTGCAGAAAC------------CAAAGCAATAAGAGCCCTATGGAGCTAGTGGAgtaaattcatcaatgtgtagtgtgaggacgataactttgttgcctacaat Alignment from Spaln_nt2Genome AAAGGAACAAGTGCTTCGAGATGTCATCC-TTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgatttcttcttattttgttttatttgtagAAAGGAACAAGTGTTTTAGAATGTCATCCCTTTGCAGAAACCAAAGCAAT-------------AAGAGCCCTATGGAGCTAGTGGAgtaaattcatcaatgtgtagtgtgaggacgataactttgttgcctacaat Alignment from Pairagon AAAGGAACAAGTGCTTCGAGATGTCAT-CCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgatttcttcttattttgttttatttgtagAAAGGAACAAGTGTTTTAGAATGTCATCCCTTTGCAGAAACCAAAGCAAT-------------AAGAGCCCTATGGAGCTAGTGGAgtaaattcatcaatgtgtagtgtgaggacgataactttgttgcctacaat Alignment from Exonerate_protein2genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgatttcttcttattttgttttatttgtagAAAGGAACAAGTGTTTTAGAATGTCATCCCTT------------TGCAGAAACCAAAGCAATAAGAGCCCTATGGAGCTAGTGGAgtaaattcatcaatgtgtagtgtgaggacgataactttgttgcctacaat Alignment from Exonerate_coding2genome catcaggttggtctttcaggtgatttcttcttattttgttttatttgtagaaaggaacaagtgttttagaatgtcatccctttgcagaaaccaaagcaataagagccctatggagctagtggagtaaattcatcaatgtgtagtgtgaggacgataactttgttgcctacaat Alignment from GeneWise AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA catcaggttggtctttcaggtgatttcttcttattttgttttatttgtagAAAGGAACAAGTGTTTTAGAATGTCATCCCTT------------TGCAGAAACCAAAGCAATAAGAGCCCTATGGAGCTAGTGGAgtaaattcatcaatgtgtagtgtgaggacgataactttgttgcctacaat #### Plcb3_ID1919_12 --> 1 - 0 Original Alignment gGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGC-CGCTCTATCTTTGGGGATGCG---CTGCTCATTGACCCTCTCGACAAATACCCG ggtcatatttgagttttcacagatcacaacttcatgtgcttccactgcagaGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCCGGTCGATCTTTGGGGATGCACCACTACTTATTG-TCCTATTGACAAGTATCCAgtgagtgccaggcatgaaactccagaggcatgggggggagggaagcccaa Alignment from CESAR gGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGC-CGCTCTATCTTTGGGGATGCG---CTGCTCATTGACCCTCTCGACAAATACCCG ggtcatatttgagttttcacagatcacaacttcatgtgcttccactgcagaGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCCGGTCGATCTTTGGGGATGCACCACTACTTATT-GTCCTATTGACAAGTATCCAgtgagtgccaggcatgaaactccagaggcatgggggggagggaagcccaa Alignment from Spaln_aa2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGC---TCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG ggtcatatttgagttttcacagatcacaacttcatgtgcttccactgcagAGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCCGGTCGATCTTTGGGGATGCACCACTACTTATTGTCCTATTGACAAGTATCCAgtgagtgccaggcatgaaactccagaggcatgggggggagggaagcccaa Alignment from Spaln_nt2Genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCC-GCTCTATCTTTGGGGATGCGC---TGCTCATTGACCCTCTCGACAAATACCCG ggtcatatttgagttttcacagatcacaacttcatgtgcttccactgcagAGCAAAGCAGCATG---AGATGGCTGAGTACTGCCCGGTCGATCTTTGGGGATGCACCACTACTTATTG-TCCTATTGACAAGTATCCAgtgagtgccaggcatgaaactccagaggcatgggggggagggaagcccaa Alignment from Pairagon GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTG-CCGCTCTATCTTTGGGGATGCGCTGCTCATTGAC-------------CCTCTCGACAAATACCCG ggtcatatttgagttttcacagatcacaacttcatgtgcttccactgcagAGCAAAGCAGCATG---AGATGGCTGAGTACTGCCCGGTCGATCTTTGGGGATGC-----------ACCACTACTTATTGTCCTATTGACAAGTATCCAgtgagtgccaggcatgaaactccagaggcatgggggggagggaagcccaa Alignment from Exonerate_protein2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGC---TCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG ggtcatatttgagttttcacagatcacaacttcatgtgcttccactgcagAGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCCGGTCGATCTTTGGGGATGCACCACTACTTATTGTCCTATTGACAAGTATCCAgtgagtgccaggcatgaaactccagaggcatgggggggagggaagcccaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGC---TCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG ggtcatatttgagttttcacagatcacaacttcatgtgcttccactgcagAGCAAAGCAGCAT---GAGATGGCTGAGTACTGCCCGGTCGATCTTTGGGGATGCACCACTACTTATTGTCCTATTGACAAGTATCCAgtgagtgccaggcatgaaactccagaggcatgggggggagggaagcccaa #### Plcb3_ID1922_9 --> 1 - 1 Original Alignment aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTC-ATGGACTTTATCAAC------CAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCg tagtagcagagagctaccatcatgagttagaccctccctccctccaacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAA-ACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAATCTAACAGACAGTTTCTGGAGTGTggtaagtccacataggtaagatagctgtatgtactagtgggctctgatttg Alignment from CESAR aGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTC-ATGGACTTTATCAACCAG------AAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCg tagtagcagagagctaccatcatgagttagaccctccctccctccaacagaGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACC-CAAACTG---------------------------TCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAATCTAACAGACAGTTTCTGGAGTGTggtaagtccacataggtaagatagctgtatgtactagtgggctctgatttg Alignment from Spaln_aa2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG tagtagcagagagctaccatcatgagttagaccctccctccctccaacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGA---------------------CCCAAACTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAATCTAACAGACAGTTTCTGGAGTGTGgtaagtccacataggtaagatagctgtatgtactagtgggctctgatttg Alignment from Spaln_nt2Genome AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCT-CATGGACTTTATCAACCA------GAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG tagtagcagagagctaccatcatgagttagaccctccctccctccaacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAA-------------------------ACT---GTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAATCTAACAGACAGTTTCTGGAGTGTGgtaagtccacataggtaagatagctgtatgtactagtgggctctgatttg Alignment from Pairagon AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGC-TCATGGACTTTATCAACC------AGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG tagtagcagagagctaccatcatgagttagaccctccctccctccaacagAGGCATGAAAGGCAAGCCTTACCT---TCTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGACCCAAA----------------------------CTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAATCTAACAGACAGTTTCTGGAGTGTGgtaagtccacataggtaagatagctgtatgtactagtgggctctgatttg Alignment from Exonerate_protein2genome CCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG tagtagcagagagctaccatcatgagttagaccctccctccctccaacagaggcatgaaaggcaagccttaccttctggagcagcttcatggactttgtgaaccaacaagagaagcagagagaCCCAAACTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAATCTAACAGACAGTTTCTGGAGTGTGgtaagtccacataggtaagatagctgtatgtactagtgggctctgatttg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGGTGCCAAGGGCAAGCCGTACCTCACTCTGGAGCAGCTCATGGACTTTATCAACCAGAAGCAGAGAGACCCGAGACTCAACGAAGTGCTGTACCCGCCACTTCGGTCCTCACAGGCTCGGCTGCTCATTGAGAAGTACGAGACGAACAAACAGTTCCTGGAGCGCG tagtagcagagagctaccatcatgagttagaccctccctccctccaacagAGGCATGAAAGGCAAGCCTTACCTT---CTGGAGCAGCTTCATGGACTTTGTGAACCAACAAGAGAAGCAGAGAGA---------------------CCCAAACTGTCCTCACAAGCTCGTCTACTAATAGAAGAGTATGAATCTAACAGACAGTTTCTGGAGTGTGgtaagtccacataggtaagatagctgtatgtactagtgggctctgatttg #### Plcb3_ID1926_5 --> 0 - 2 Original Alignment GTCTGGTCAGAGGAGTTGTTT-AAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTCAGACTAGCAATGAACATATTGGCCCAGAATGCATCCC-AAACACATTCTCACGTAAGccgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from CESAR GTCTGGTCAGAGGAGTTGTTT-AAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAgc tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTCAGACTAGCAATGAACATATTGGCCCAGAATGCATCCC-AAACACATTCTCACGTAAGccgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Spaln_aa2Genome GTCTGGTCAGAGGAGTTGTTT-AAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGG---AACACCTTCCTGCGGAAAGC tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTcAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAAACACATTCTCACGTAAGCCGTGAgtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Spaln_nt2Genome GTCTGGTCAGAGGAGTTG-TTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTCAGACTAGCAATGAACATATTGGCCCAGAATGCATCCC-AAACACATTCTCACGTAAGCCgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Pairagon GTCTGGTCAGAGGAGTTGTTT-AAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTCAGACTAGCAATGAACATATTGGCCCAGAATGCATCCC-AAACACATTCTCACGTAAGCCgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Exonerate_protein2genome GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTCAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAAACACATTCTCACGTAAGCCgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTCTGGTCAGAGGAGTTGTTTAAACTGGCCATGAACATATTGGCTCAGAACGCCTCCCGGAACACCTTCCTGCGGAAAGC tcaatgggcctaatcctccattccataaagtcatctcacttgctctgtagGTATGGTCAGAGGAGTTGTTTCAGACTAGCAATGAACATATTGGCCCAGAATGCATCCCAAACACATTCTCACGTAAGCCgtgagtctacaagcacacagggggtgggaaaatgtctcactgtgcttcat #### Plcb3_ID1927_4 --> 0 - 0 Original Alignment GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTG-ATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCTGGAGGAGAGATTGCATG---------ACTGGGCCAGATTTAGTAACAACCA-ATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from CESAR GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTG-ATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCTGGAGGAGAGATTGCATGACT---------GGGCCAGATTTAGTAACAACC-AATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Spaln_aa2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCTGGAGGAGAGATTGCAT---------GACTGGGCCAGATTTAGTAACAACCAATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Spaln_nt2Genome GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGT------GTTTGGTGGCCCTGACACACGCCTGGAGGAGA----GATTGCA----TGACTGGGCCAGATTTAGTAACAACCA-ATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Pairagon GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTG-ATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCTGGAGGAGAGATTGCATGA---------CTGGGCCAGATTTAGTAACAACCA-ATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Exonerate_protein2genome taccataccattggggagcactttgaactaccttatttcattcctttcaggatcctaagattcgtgaagtgtttggtggccctgacacacgcctggaggagagattgcatgactgggccagatttagtaacaaccaattcgtgaatttcatggcagtgcaagatggtacagttaaggtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG taccataccattggggagcactttgaactaccttatttcattcctttcagGATCCTAAGATTCGTGAAGTG------TTTGGTGGCCCTGACACACGCCTGGAGGAGAGATTGCATGACTGGGCCAGATTTAGT---------AACAACCAATTCGTGAATTTCATGGCAGTGCAAGATGGTACAGTTAAGgtgtgttcagcctgatctccatattgaagccattagttcattcaagcctt #### Plce1_ID7626_12 --> 1 - 1 Original Alignment cATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagcATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTATACAGTG---------AGATCCACCTCAG-GTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACGAGTGAGCTTCAGCCAGACCTGggtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from CESAR cATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAg tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagcATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTATACAGTG---------AGATCCACCTCA-GGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACGAGTGAGCTTCAGCCAGACCTGggtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Spaln_aa2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGA---TAT------CTATACAGTGAGATCCACCTCAGGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Spaln_nt2Genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTA-----TACAGTG----AGATCCACCTCAG-GTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Pairagon CATCAGGAGCCGCAAGGACTTGAAGGACATCTTT-GACATCTA---------------CTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTATACAGTGAGATCCACCTCAG-------------------------GTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Exonerate_protein2genome CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGACATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTA---------TACAGTGAGATCCACCTCAGGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from Exonerate_coding2genome tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagcattaggagccgtaaggacctgaaagacatctttcgatatctatacagtgagatccacctcaggtccacccccctctataccaactggacaattgaggaaaatacgagtgagcttcagccagacctgggtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata Alignment from GeneWise CATCAGGAGCCGCAAGGACTTGAAGGACATCTTTGAC---ATCTACTCTGTACCCTGCAATCGGTCTGCCTCGGAGTCAGCCCCACTCTACACCAACCTGACAATCGAAGAAAATACCAGCGATCTTCAGCCTGACCTAG tgtatatgactatttcagaaagggcaactgttctcatttttcatccacagCATTAGGAGCCGTAAGGACCTGAAAGACATCTTTCGATATCTATACAGT------------GAGATCCACCTCAGGTCCACCCCCCTCTATACCAACTGGACAATTGAGGAAAATACGAGTGAGCTTCAGCCAGACCTGGgtgagtttgttggcccattccttctatcaggcaggtgtgtaactttgata #### Plekhs1_ID12098_3 --> 0 - 2 Original Alignment ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACG-GGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGTTTATACTGTCCCAGAGCCGGGGATCCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAAC-CAGAGGCTCCATTGGAGTTGATaggtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from CESAR ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACG-GGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACgg cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGTTTATACTGTCCCAGAGCCGGGGATCCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAA-CCAGAGGCTCCATTGGAGTTGATaggtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Spaln_aa2Genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACG-GGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGGCAG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGTTTATACTGTCCCAGAGCCGGGGATCCcGGTCTTGGTCTTTCTTATTACAAAGATCATCAACCAGAGGCTCCATTGGAGTTGATAGGTGTgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Spaln_nt2Genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACG-GGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGTTTATACTGTCCCAGAGCCGGGGATCCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAAC-CAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Pairagon ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGA-ACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGTTTATACTGTCCCAGAGCCGGGGATCCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAAC-CAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Exonerate_protein2genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACG-GGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGTTTATACTGTCCCAGAGCCGGGGATCCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACCAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from Exonerate_coding2genome ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGAACG-GGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGTTTATACTGTCCCAGAGCCGGGGATCCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACCAGAGGCTCCATTGGAGTTGATAGgtgtgtcattgggcaatgctcacactagaagcactagattttgtgtacca Alignment from GeneWise ACCTCCTGGAAAAAGCGTCTTTTTATTCTGTCCCAGAGTCGGGGA-ACGGGTCTCAGTCTTTCCTATTACAAAGACCATCAGCACAGAGGTTCCATCGAAATTGACGGCAG cattggctttactgacatcaactagtgcgttcatttttactgactgttagACCTCCTGGAAGAAGCGTTTGTTTATACTGTCCCAGAGCCGGGGATCCCGGTCTTGGTCTTTCTTATTACAAAGATCATCAACCAGAGGCTCCATTGGAGTTGATAGGTGTgtcattgggcaatgctcacactagaagcactagattttgtgtacca #### Pnlip_ID12748_7 --> 2 - 1 Original Alignment gaTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAA-ATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAg gtctgggctttgaataatctatgggcctttgattcttttttccactgcaggaTTTGGAATGAGCCAGACTGTGGGCCACTTAGATTTCTTCCCCAATGAAGGAATTGAACATGCCAGGATGCCAGAAAAATACTCTTTCCCAGA-TGTTGATATTGATGGGATCTGGGAAggtgattgcttgtgtagctgaactaaactacactgcaattaattctcctga Alignment from CESAR gaTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAA-ATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAg gtctgggctttgaataatctatgggcctttgattcttttttccactgcaggaTTTGGAATGAGCCAGACTGTGGGCCACTTAGATTTCTTCCCCAATGAAGGAATTGAACATGCCAGGATGCCAGAAAAATACTCTTTCCCAGA-TGTTGATATTGATGGGATCTGGGAAggtgattgcttgtgtagctgaactaaactacactgcaattaattctcctga Alignment from Spaln_aa2Genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctatgggcctttgattcttttttccactgcagGATTTGGAATGAGCCAGACTGTGGGCCACTTAGATTTCTTCCCCAATGAAGGAATTGAACATGCCAGGATGCCAGAAAAATACTCTTTCCCAGATGTTGATATTGATGGGATCTGGGAAGgtgattgcttgtgtagctgaactaaactacactgcaattaattctcctga Alignment from Spaln_nt2Genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAA-ATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctatgggcctttgattcttttttccactgcagGATTTGGAATGAGCCAGACTGTGGGCCACTTAGATTTCTTCCCCAATGAAGGAATTGAACATGCCAGGATGCCAGAAAAATACTCTTTCCCAGA-TGTTGATATTGATGGGATCTGGGAAGgtgattgcttgtgtagctgaactaaactacactgcaattaattctcctga Alignment from Pairagon GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAA-ATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctatgggcctttgattcttttttccactgcagGATTTGGAATGAGCCAGACTGTGGGCCACTTAGATTTCTTCCCCAATGAAGGAATTGAACATGCCAGGATGCCAGAAAAATACTCTTTCCCAGA-TGTTGATATTGATGGGATCTGGGAAGgtgattgcttgtgtagctgaactaaactacactgcaattaattctcctga Alignment from Exonerate_protein2genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctatgggcctttgattcttttttccactgcagGATTTGGAATGAGCCAGACTGTGGGCCACTTAGATTTCTTCCCCAATGAAGGAATTGAACATGCCAGGATGCCAGAAAAATACTCTTTCCCAGATGTTGATATTGATGGGATCTGGGAAGgtgattgcttgtgtagctgaactaaactacactgcaattaattctcctga Alignment from Exonerate_coding2genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctatgggcctttgattcttttttccactgcagGATTTGGAATGAGCCAGACTGTGGGCCACTTAGATTTCTTCCCCAATGAAGGAATTGAACATGCCAGGATGCCAGAAAAATACTCTTTCCCAGATGTTGATATTGATGGGATCTGGGAAGgtgattgcttgtgtagctgaactaaactacactgcaattaattctcctga Alignment from GeneWise GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG gtctgggctttgaataatctatgggcctttgattcttttttccactgcagGATTTGGAATGAGCCAGACTGTGGGCCACTTAGATTTCTTCCCCAATGAAGGAATTGAACATGCCAGGATGCCAGAAAAATACTCTTTCCCAGATGTTGATATTGATGGGATCTGGGAAGgtgattgcttgtgtagctgaactaaactacactgcaattaattctcctga #### Pnlip_ID12752_11 --> 1 - 2 Original Alignment gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAAC-CCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagg------------------------GATGGCAATGAATTTGAGTCTGAA------GTTGGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCCAACACTTCCGAGAGTGGGGGCATCAGGGATTA-TGTTGAAAGAAATGATGGGAGAgtgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from CESAR gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAAC-CCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAgt ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccaggGAT------------------------GGCAATGAATTTGAGTCT------GAAGTTGGAGACTTGCAGAGGGTCAAATTTATT---GGCAACAATGTAATTAACCCCAACACTTCCGAGAGTGGGGGCATCAGGGATTA-TGTTGAAAGAAATGATGGGAGAgtgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Spaln_aa2Genome TCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGGATGGCAATGAATTTGAGTCT------GAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCCAACACTTCCGAGAGTGGGGGCATCAGGGATTATGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Spaln_nt2Genome TCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCC-AACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGGATGGCAATGAATTTGAGTCT------GAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGG---CAACAATGTAATTAACCCCAACACTTCCGAGAGTGGGGGCATCAGGGATTA-TGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Pairagon GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAA-CCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGG------------------------ATGGCAATGAATTTGAGTCT------GAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGG---CAACAATGTAATTAACCCCAACACTTCCGAGAGTGGGGGCATCAGGGATTAT-GTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Exonerate_protein2genome CAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGGATGGCAATGAATTTGAGTCTGAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCCAACACTTCCGAGAGTGGGGGCATCAGGGATTATGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from Exonerate_coding2genome CAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagagaaatggctcaagttctctcctttgcccaacccagGGATGGCAATGAATTTGAGTCTGAAGTTGGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCCAACACTTCCGAGAGTGGGGGCATCAGGGATTATGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat Alignment from GeneWise ----------------AAGGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT ccaccagggacaagAGAAATGGCTCAAGTTCTCTCCTTTGCCCAACCCAGGGATGGC------AATGAATTTGAGTCTGAAGTT------GGAGACTTGCAGAGGGTCAAATTTATTGGC---AACAATGTAATTAACCCCAACACTTCCGAGAGTGGGGGCATCAGGGATTATGTTGAAAGAAATGATGGGAGAGTgtaagttacctgtgtaccaaaagacagcagggtgtagtttaaagtcatat #### Pnliprp1_ID12765_2 --> 2 - 0 Original Alignment ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAG-AAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG atgaaagcccagttaacatggactggacagtgacactggaaccctactagggAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAACAGACCTTTAAAACTCCTACCATGGAGTCCAGAGCAAGATCAACACCTGCTTCTTACTCTACACAAACGAGAAGC-CATTGCATTCCAGgtaatgactgtaggtccagatgagaaccaggttaccctatcgctttaaca Alignment from CESAR ggAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAG-AAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG atgaaagcccagttaacatggactggacagtgacactggaaccctactagggAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAACAGACCTTTAAAACTCCTACCATGGAGTCCAGAGCAAGATCAACACCTGCTTCTTACTCTACACAAACGAGAAGCCA-TTGCATTCCAGgtaatgactgtaggtccagatgagaaccaggttaccctatcgctttaaca Alignment from Spaln_aa2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAG-AAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG atgaaagcccagttaacatggactggacagtgacactggaaccctactagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAACAGACCTTTAAAACTCCTACCATGGAGTCCAGAGcAAGATCAACACCTGCTTCTTACTCTACACAAACGAGAAGCCATT-GCATTCCAGgtaatgactgtaggtccagatgagaaccaggttaccctatcgctttaaca Alignment from Spaln_nt2Genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAG-AAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG atgaaagcccagttaacatggactggacagtgacactggaaccctactagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAACAGACCTTTAAAACTCCTACCATGGAGTCCAGAGCAAGATCAACACCTGCTTCTTACTCTACACAAACGAGAAGCC-ATTGCATTCCAGgtaatgactgtaggtccagatgagaaccaggttaccctatcgctttaaca Alignment from Pairagon GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAG-AAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG atgaaagcccagttaacatggactggacagtgacactggaaccctactagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAACAGACCTTTAAAACTCCTACCATGGAGTCCAGAGCAAGATCAACACCTGCTTCTTACTCTACACAAACGAGAAGCC-ATTGCATTCCAGgtaatgactgtaggtccagatgagaaccaggttaccctatcgctttaaca Alignment from Exonerate_protein2genome GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAG-AAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG atgaaagcccagttaacatggactggacagtgacactggaaccctactagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAACAGACCTTTAAAACTCCTACCATGGAGTCCAGAGCAAGATCAACACCTGCTTCTTACTCTACACAAACGAGAAGCCATTGCATTCCAGGtaatgactgtaggtccagatgagaaccaggttaccctatcgctttaaca Alignment from Exonerate_coding2genome atgaaagcccagttaacatggactggacagtgacactggaaccctactagggaaagaattttgttatcacaaccttgggtgcttctctgatgcagaaccctgggcaggcacagccaacagacctttaaaactcctaccatggagtccagagcaagatcaacacctgcttcttactctacacaaacgagaagccattgcattccaggtaatgactgtaggtccagatgagaaccaggttaccctatcgctttaaca Alignment from GeneWise GGAAAGAGGTTTGCTATGACAACCTTGGATGCTTTTCTGATGCTGAGCCCTGGGCAGGGACAGCTATCAGGCCCCTAAAACTTCTCCCTTGGAGCCCTGAGAAGATCAACACTCGCTTCCTGCTCTACACCAATGAGAACCCAACTGCTTTCCAG atgaaagcccagttaacatggactggacagtgacactggaaccctactagGGAAAGAATTTTGTTATCACAACCTTGGGTGCTTCTCTGATGCAGAACCCTGGGCAGGCACAGCCAACAGACCTTTAAAACTCCTACCATGGAGTCCAGAGCAAGATCAACACCTGCTTCTTACTCTACACAAACGAGAAGCCATTGCATTCCAGgtaatgactgtaggtccagatgagaaccaggttaccctatcgctttaaca #### Pnliprp2_ID12782_5 --> 0 - 1 Original Alignment ACAGAGATGGGGTACAGCCCAGAGAACGTGCACCTCATC-GGCCACAGCTTGGGCTCACATGTGGCTGGGGAAGCAGGCAGGAGGCTGGAGGGCCATGTGGGCAGGATCACAg tataacttaacatcattggactaaacgtgataccactctttgttttgcagACAGAGACAGGGCATAGCCCAGAAAAT---GATCTTATTCGGCCACTGTTTGGGCTCACATGTGGCTGGGGAGGCAGGAA-GAGGCTGGAGGGCCATGTGGGCAGGATAACAggtgagtgtcattttgactaatatacaagcaggggtgggcacaagcagggg Alignment from CESAR ACAGAGATGGGGTACAGCCCAGAGAACGTGCACCTCATC-GGCCACAGCTTGGGCTCACATGTGGCTGGGGAAGCAGGCAGGAGGCTGGAGGGCCATGTGGGCAGGATCACAg tataacttaacatcattggactaaacgtgataccactctttgttttgcagACAGAGACAGGGCATAGCCCAGAAAAT---GATCTTATTCGGCCACTGTTTGGGCTCACATGTGGCTGGGGAGGCAGGAA-GAGGCTGGAGGGCCATGTGGGCAGGATAACAggtgagtgtcattttgactaatatacaagcaggggtgggcacaagcagggg Alignment from Spaln_aa2Genome ACAGAGATGGGGTACAGCCCAGAGAACGTGCACCTCATCGGCCACAGCTTGGGCTCACATGTGGCTGGGGAAGCAGGCAGGAGGCTGGAGGGCCATGTGGGCAGGATCACAG tataacttaacatcattggactaaacgtgataccactctttgttttgcagACAGAGACAGGGCATAGCCCAGAAAATGATC--TTATTCGGCCACTGTTTGGGCTCACATGTGGCTGGGGAGGCAGG-AAGAGGCTGGAGGGCCATGTGGGCAGGATAACAGgtgagtgtcattttgactaatatacaagcaggggtgggcacaagcagggg Alignment from Spaln_nt2Genome ACAGAGATGGGGTACAGCCCAGAGAACGTGCACCTCATCGGCCACAGCTTGGGCTCACATGTGGCTGGGGAAGCAGGCAGGAGGCTGGAGGGCCATGTGGGCAGGATCACAG tataacttaacatcattggactaaacgtgataccactctttgttttgcagACAGAGACAGGGCATAGCCCAGAAAA--TGATCTTATTCGGCCACTGTTTGGGCTCACATGTGGCTGGGGAGGCAGG-AAGAGGCTGGAGGGCCATGTGGGCAGGATAACAGgtgagtgtcattttgactaatatacaagcaggggtgggcacaagcagggg Alignment from Pairagon ACAGAGATGGGGTACAGCCCAGAGAACGTGCACCTCATCGGCCACAGCTTGGGCTCACATGTGGCTGGGGAAGCAGGCAGGAGGCTGGAGGGCCATGTGGGCAGGATCACAG tataacttaacatcattggactaaacgtgataccactctttgttttgcagACAGAGACAGGGCATAGCCCAGAAAA--TGATCTTATTCGGCCACTGTTTGGGCTCACATGTGGCTGGGGAGGCAGG-AAGAGGCTGGAGGGCCATGTGGGCAGGATAACAGgtgagtgtcattttgactaatatacaagcaggggtgggcacaagcagggg Alignment from Exonerate_protein2genome ACAGAGATGGGGTACAGCCCAGAGAACGTGCACCTCATCGGCCACAGCTTGGGCTCACATGTGGCTGGGGAAGCAGGCAGGAGGCTGGAGGGCCATGTGGGCAGGATCACAG tataacttaacatcattggactaaacgtgataccactctttgttttgcagACAGAGACAGGGCATAGCCCAGAAAAT---GATCTTATTCGGCCACTGTTTGGGCTCACATGTGGCTGGGGAGGCAGGAAGAGGCTGGAGGGCCATGTGGGCAGGATAACAGgtgagtgtcattttgactaatatacaagcaggggtgggcacaagcagggg Alignment from Exonerate_coding2genome ACAGAGATGGGGTACAGCCCAGAGAACGTGCACCTCATCGGCCACAGCTTGGGCTCACATGTGGCTGGGGAAGCAGGCAGGAGGCTGGAGGGCCATGTGGGCAGGATCACAG tataacttaacatcattggactaaacgtgataccactctttgttttgcagACAGAGACAGGGCATAGCCCAGAAAATGATCTTATT--CGGCCACTGTTTGGGCTCACATGTGGCTGGGGAGGCAGG-AAGAGGCTGGAGGGCCATGTGGGCAGGATAACAGgtgagtgtcattttgactaatatacaagcaggggtgggcacaagcagggg Alignment from GeneWise ACAGAGATGGGGTACAGCCCAGAGAACGTGCACCTCATCGGCCACAGCTTGGGCTCACATGTGGCTGGGGAAGCAGGCAGGAGGCTGGAGGGCCATGTGGGCAGGATCACAG tataacttaacatcattggactaaacgtgataccactctttgttttgcagACAGAGACAGGGCATAGCCCAGAAAAT---GATCTTATTCGGCCACTGTTTGGGCTCACATGTGGCTGGGGAGGCAGGAAGAGGCTGGAGGGCCATGTGGGCAGGATAACAGgtgagtgtcattttgactaatatacaagcaggggtgggcacaagcagggg #### Pola2_ID1323_17 --> 1 - 0 Original Alignment tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTG-CCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG gaaggggtgacggtatagtcaggaagtcctcctctgcctcgtgcccgcagcTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTCTATACCTATGCTCAACTGCCCAGTGTTACCTGGTGTGTTCATAGTGCCAT-TGAGCTGAAATACTTTGTAAAGgtgagtgttggattgctatctcctttgggtcttctgatatgtcatctcac Alignment from CESAR tTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTG-CCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG gaaggggtgacggtatagtcaggaagtcctcctctgcctcgtgcccgcagcTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTCTATACCTATGCTCAACTGCCCAGTGTTACCTGGTGTGTTCATAGTGCCA-TTGAGCTGAAATACTTTGTAAAGgtgagtgttggattgctatctcctttgggtcttctgatatgtcatctcac Alignment from Spaln_aa2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG gaaggggtgacggtatagtcaggaagtcctcctctgcctcgtgcccgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTCTATACCTATGCTCAACTGCCCAGTGTTACCTGGTGTGTTCATAGTGCCATTGAGCTGAAATACTTTGTAAAGgtgagtgttggattgctatctcctttgggtcttctgatatgtcatctcac Alignment from Spaln_nt2Genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCG-GTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG gaaggggtgacggtatagtcaggaagtcctcctctgcctcgtgcccgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTCTATACCTATGCTCAACTGCCCAGTGTTACCTGGTGTGTTCATAGTGCCAT-TGAGCTGAAATACTTTGTAAAGgtgagtgttggattgctatctcctttgggtcttctgatatgtcatctcac Alignment from Pairagon TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCC-----------GGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG gaaggggtgacggtatagtcaggaagtcctcctctgcctcgtgcccgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTCTATACCTATGCTCAACTGCCCAGTGTTACCTGG----------TGTGTTCATAGTGCCAT-TGAGCTGAAATACTTTGTAAAGgtgagtgttggattgctatctcctttgggtcttctgatatgtcatctcac Alignment from Exonerate_protein2genome TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG gaaggggtgacggtatagtcaggaagtcctcctctgcctcgtgcccgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTCTATACCTATGCTCAACTGCCCAGTGTTACCTGGTGTGTTCATAGTGCCATTGAGCTGAAATACTTTGTAAAGgtgagtgttggattgctatctcctttgggtcttctgatatgtcatctcac Alignment from Exonerate_coding2genome gaaggggtgacggtatagtcaggaagtcctcctctgcctcgtgcccgcagctactatccactttatccaccccatgtggacatggccatagactataagaatttctatacctatgctcaactgcccagtgttacctggtgtgttcatagtgccattgagctgaaatactttgtaaaggtgagtgttggattgctatctcctttgggtcttctgatatgtcatctcac Alignment from GeneWise TTACTACCCACTTTATCCACCCCACGAGGACATGGCCATAGACTACGAGAACTTCTATACCTATGCCCAGCTGCCGGTCACCCCCGATGTCTTCATAGTGCCGTCCGAGCTGAGATACTTTGTGAAG gaaggggtgacggtatagtcaggaagtcctcctctgcctcgtgcccgcagCTACTATCCACTTTATCCACCCCATGTGGACATGGCCATAGACTATAAGAATTTCTATACCTATGCTCAACTGCCCAGTGTTACCTGGTGTGTTCATAGTGCCATTGAGCTGAAATACTTTGTAAAGgtgagtgttggattgctatctcctttgggtcttctgatatgtcatctcac #### Pola2_ID1325_15 --> 0 - 2 Original Alignment CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCC-ATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagctgactgacaatgcctttccagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACAGCATAAATGGAGTAATG---TACTCAACTACTGCAGATT-ACTCTATCATGTTGGGGCTGAGGAACTGTTTaggtaagtccatttgacccaataaatggtgttacttaacatagttcttgaag Alignment from CESAR CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTC-TCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTag agctcactgtaggttttattgcaaggagctgactgacaatgcctttccagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACAGCATAAATGGAGTAATGTAC---TCAACTACTGCAG-ATTACTCTATCATGTTGGGGCTGAGGAACTGTTTaggtaagtccatttgacccaataaatggtgttacttaacatagttcttgaag Alignment from Spaln_aa2Genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctgactgacaatgcctttccagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACAGCATAAATGGAGTAATGTA---CTCAACTACTGCAGATTACTCTATCATGTTGGGGCTGAGGAACTGTTTAGgtaagtccatttgacccaataaatggtgttacttaacatagttcttgaag Alignment from Spaln_nt2Genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCT-CTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctgactgacaatgcctttccagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACAGCATAAATGGAGTAATGT---ACTCAACTACTGCAGA-TTACTCTATCATGTTGGGGCTGAGGAACTGTTTAGgtaagtccatttgacccaataaatggtgttacttaacatagttcttgaag Alignment from Pairagon CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCT-CTCCATAAATGGAGTGATGT-----------------------------TTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctgactgacaatgcctttccagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACAGCATAAATGGAGTAATGTACTCAACTACTGCAGATTACTCTATCATGTT---------------------------------GGGGCTGAGGAACTGTTTAGgtaagtccatttgacccaataaatggtgttacttaacatagttcttgaag Alignment from Exonerate_protein2genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctgactgacaatgcctttccagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACAGCATAAATGGAGTAATGTA---CTCAACTACTGCAGATTACTCTATCATGTTGGGGCTGAGGAACTGTTTAGgtaagtccatttgacccaataaatggtgttacttaacatagttcttgaag Alignment from Exonerate_coding2genome CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTC-TCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAGCTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTG agctcactgtaggttttattgcaaggagctgactgacaatgcctttccagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACAGCATAAATGGAGTAATGTACTCA---ACTACTGCAGATTACTCTATCATGTTGGGGCTGAGGAACTGTTTAGGTAAGTCCATTTGACCCAATAAATGGTGT---TACTTAACATAGTTCTTG Alignment from GeneWise CGAGTGCAGTTTGTGTCAGAGCCCTGCAGCCTCTCCATAAATGGAGTGATGTTTGGTTTGACATCCACGGACCTGCTGTTCCACATCGGGGCTGAGGAGATCTTTAG agctcactgtaggttttattgcaaggagctgactgacaatgcctttccagCGAGTGCAGTTTGTATCAGAGCCCTGCAGCCTACAGCATAAATGGAGTAATGTA---CTCAACTACTGCAGATTACTCTATCATGTTGGGGCTGAGGAACTGTTTAGgtaagtccatttgacccaataaatggtgttacttaacatagttcttgaag #### Pola2_ID1335_6 --> 1 - 1 Original Alignment tGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTTGGC-TCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAg accagtcattccctcataattcactcttctcttcctcccccttgttacagcACGACTCCATCCCAAAAATACACATCCAGGATTAAGAAGGGAGAGGTGGTTACCACATTTGGCCTCTGCACATGGCTTATCTTGGTCGGGGGGAG-AGGCTCTGGGAGTGTTAGTCTGAAAGTAGCTGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGCAggtaggcattacagccctcagactgtgattccaaggggcgaacattcatgg Alignment from CESAR tGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTTGGC-TCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAg accagtcattccctcataattcactcttctcttcctcccccttgttacagcACGACTCCATCCCAAAAATACACATCCAGGATTAAGAAGGGAGAGGTGGTTACCACATTTGGCCTCTGCACATGGCTTATCTTGGTCGGGGGGA-GAGGCTCTGGGAGTGTTAGTCTGAAAGTAGCTGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGCAggtaggcattacagccctcagactgtgattccaaggggcgaacattcatgg Alignment from Spaln_aa2Genome TCGCAGCCCACGTCAGCTTCTCTCACCGTCAAGTTTCTCCCCGAGTGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTTGGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG accagTCATTCCCTCATAATTCACTCTTCTCTTCCTCCCCCTTGTTACAGCACGACTCCATCCCAAAAATACACATCCAGGATTAAGAAGGGAGAGGTGGTTACCACATTTGGCCTCTGCACATGGCTTATCTTGGTCGGGGGGAGAGGCTCTGGGAGTGTTAGTCTGAAAGTAGCTGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGCAGgtaggcattacagccctcagactgtgattccaaggggcgaacattcatgg Alignment from Spaln_nt2Genome TGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACC-TTTGGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG accagtcattccctcataattcactcttctcttcctcccccttgttacagCACGACTCCATCCCAAAAATACACATCCAGGATTAAGAAGGGAGAGGTGGTTACCACATTTGGCCTCTGCACATGGCTTATCTTGGTCGGGGGGA-GAGGCTCTGGGAGTGTTAGTCTGAAAGTAGCTGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGCAGgtaggcattacagccctcagactgtgattccaaggggcgaacattcatgg Alignment from Pairagon GCTGCTCGCAGCCCACGTCAGCTTCTCTCACCGTCAAGTTTCTCCCCGAGTGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTTGG-CTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG accagtcattccctcataattcactcttctcttcctcccccttgttacag-------------CACG-------------------------------------ACTCCATCCCAAAAATACACATCCAGGATTAAGAAGGGAGAGGTGGTTACCACATTTGGCCTCTGCACATGGCTTATCTTGGTCGGGGGGA-GAGGCTCTGGGAGTGTTAGTCTGAAAGTAGCTGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGCAGgtaggcattacagccctcagactgtgattccaaggggcgaacattcatgg Alignment from Exonerate_protein2genome TGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTTGGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG accagtcattccctcataattcactcttctcttcctcccccttgttacagCACGACTCCATCCCAAAAATACACATCCAGGATTAAGAAGGGAGAGGTGGTTACCACATTTGGCCTCTGCACATGGCTTATCTTGGTCGGGGGGAGAGGCTCTGGGAGTGTTAGTCTGAAAGTAGCTGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGCAGgtaggcattacagccctcagactgtgattccaaggggcgaacattcatgg Alignment from Exonerate_coding2genome TGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTTGGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG accagtcattccctcataattcactcttctcttcctcccccttgttacagCACGACTCCATCCCAAAAATACACATCCAGGATTAAGAAGGGAGAGGTGGTTACCACATTTGGCCTCTGCACATGGCTTATCTTGGTCGGGGGGAGAGGCTCTGGGAGTGTTAGTCTGAAAGTAGCTGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGCAGgtaggcattacagccctcagactgtgattccaaggggcgaacattcatgg Alignment from GeneWise AGCCCACGTCAGCTTCTCTCACCGTCAAGTTTCTCCCCG---------AGTGCTACCCCCTCCCAGAAATACACCTCCAGAACCAACCGGGGAGAAGTGGTGACCACCTTTGGCTCCGCACAGGGCTTGTCTTGGTCCGGGAGAGGAGGCTCTGGAAGCGTCAGTCTGAAGGTCGTGGGGGACCCAGAGCCACTCACTGGCAGCTACAAAGCGATGTTTCAGCAGCTCATGGGTGTTCGAGAAG TCC---------CTCATAATTCACTCTTCTCTTCCTCCCCCTTGTTACAGCACGACTCCATCCCAAAAATACACATCCAGGATTAAGAAGGGAGAGGTGGTTACCACATTTGGCCTCTGCACATGGCTTATCTTGGTCGGGGGGAGAGGCTCTGGGAGTGTTAGTCTGAAAGTAGCTGGAGACCCAGAGCCACTCACAGGTAGCTACAAATCAATGTTTCAACAGTTGATGGGTGTTGGGGCAGgtaggcattacagccctcagactgtgattccaaggggcgaacattcatgg #### Pold4_ID437_2 --> 2 - 1 Original Alignment ggGAAGACACCCAGTCC-CTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg taggcagataagaagattagacagttcatttctctcttcctgatccctagggGAAGACACACAGTCCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTC-ACGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAggtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from CESAR ggGAAGACACCCAGTCC-CTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg taggcagataagaagattagacagttcatttctctcttcctgatccctagggGAAGACACACAGTCCCCTCAGCCAGGAGGCGACTGCATTGGAGTTT-CACGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAggtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Spaln_aa2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCACGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Spaln_nt2Genome GGGAAGACACCCAGTCCC-TCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTC-ACGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Pairagon GGGAAGACACCCAGT-CCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGA-----------------GGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCCTCAGCCAGGAGG------------------CGACTGCATTGGAGTTTCACGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Exonerate_protein2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCACGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from Exonerate_coding2genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCACGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc Alignment from GeneWise GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG taggcagataagaagattagacagttcatttctctcttcctgatccctagGGGAAGACACACAGTCCCCTCAGCCAGGAGGCGACTGCATTGGAGTTTCACGGCAATCTGACTTGACATGGCAATATGGGCCTTGTACAGgtgaggaacccggcttcccggcttctgcatagcaaaaggcaactaccgtc #### Pold4_ID438_3 --> 2 - 2 Original Alignment gtATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAG-CAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag ggctacaccaccaccccccgattatctcagctcagactttcctctcatagggATCTCGAGATTGCTGCAGTGC---AGCCGTGTGGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGT-TCCTGTGTTGAAAGCACGCCCTGAAGACCCCCACTATTGGTGTacgtacggatgtacaggctgcctatctggaaactcctctggagtgtgttaga Alignment from CESAR gtATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAG-CAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag ggctacaccaccaccccccgattatctcagctcagactttcctctcatagggATCTCGAGATTGCTGCAGTGCAGCCGTGTGGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTTC-CTGTGTTGAAAGCACGCCCTGAAGACCCCCACTATTGGTGTacgtacggatgtacaggctgcctatctggaaactcctctggagtgtgttaga Alignment from Spaln_aa2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG ggctacaccaccaccccccgattatctcagctcagactttcctctcatagGGATCTCGAGATTGCTGCAGTGCAGCCGTGTGGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTTCCTGTGTTGAAAGCACGCCCTGAAGACCCCCACTATTGGTGTACgtacggatgtacaggctgcctatctggaaactcctctggagtgtgttaga Alignment from Spaln_nt2Genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGC-AGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG ggctacaccaccaccccccgattatctcagctcagactttcctctcatagGGATCTCGAGATTGCTGCAGTGCAGCCGTGTGGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTTCC-TGTGTTGAAAGCACGCCCTGAAGACCCCCACTATTGGTGTACgtacggatgtacaggctgcctatctggaaactcctctggagtgtgttaga Alignment from Pairagon GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAG-CAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCAC------- ggctacaccaccaccccccgattatctcagctcagactttcctctcatagGGATCTCGAGATTGCTGCAGTGCAGCCGTGTGGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTTCC-TGTGTTGAAAGCACGCCCTGAAGACCCCCACTATTGGTgtacgtacggatgtacaggctgcctatctggaaactcctctggagtgtgttaga Alignment from Exonerate_protein2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG ggctacaccaccaccccccgattatctcagctcagactttcctctcatagGGATCTCGAGATTGCTGCAGTGCAGCCGTGTGGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTTCCTGTGTTGAAAGCACGCCCTGAAGACCCCCACTATTGGTGTACgtacggatgtacaggctgcctatctggaaactcctctggagtgtgttaga Alignment from Exonerate_coding2genome GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG ggctacaccaccaccccccgattatctcagctcagactttcctctcatagGGATCTCGAGATTGCTGCAGTGCAGCCGTGTGGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTTCCTGTGTTGAAAGCACGCCCTGAAGACCCCCACTATTGGTGTACgtacggatgtacaggctgcctatctggaaactcctctggagtgtgttaga Alignment from GeneWise GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAGCCTGTGGCATCTCTACCCACTC ggctacaccaccaccccccgattatctcagctcagactttcctctcatagGGATCTCGAGATTGCTGCAGTGCAGCCGTGTGGAGCCAGATGGGCTTGACGCCCCCTCTAGAGGTGTTCCTGTGTTGAAAGCACGCCCTGAAGACCCCCACTATTGGTGTACGTACGGATGTACAGGCTGCCTAtctggaaactcctctggagtgtgttaga #### Ppp1r32_ID2845_6 --> 2 - 0 Original Alignment atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTC-ACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cccattggtttcacttagctgcctattgtttttaccctggtttctttcagatCTCTTGCTTAAGAAGACAATTGGATCTAAGAAGGAGATTGGGTTCCTTAGAAGAGTCCACAAAAAATCCGCTTGTTT-TCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtagggggtaatagtgtaacactcacaatgctccacatcaggggatgggt Alignment from CESAR atCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACG-GAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cccattggtttcacttagctgcctattgtttttaccctggtttctttcagatCTCTTGCTTAAGAAGACAATTGGATCTAAGAAGGAGATTGGGTTCCTTAGAAGAGTCCACAAAAAATCCGCTTGTTT-TCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtagggggtaatagtgtaacactcacaatgctccacatcaggggatgggt Alignment from Spaln_aa2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTC-ACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cccattggtttcacttagctgcctattgtttttaccctggtttctttcagATCTCTTGCTTAAGAAGACAATTGGATCTAAGAAGGAGATTGGGTTCcTTAGAAGAGTCCACAAAAAATCCGCTTGT-TTTCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtagggggtaatagtgtaacactcacaatgctccacatcaggggatgggt Alignment from Spaln_nt2Genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACG-GAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cccattggtttcacttagctgcctattgtttttaccctggtttctttcagATCTCTTGCTTAAGAAGACAATTGGATCTAAGAAGGAGATTGGGTTCCTTAGAAGAGTCCACAAAAAATCCGCTTGT-TTTCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtagggggtaatagtgtaacactcacaatgctccacatcaggggatgggt Alignment from Pairagon ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCA-CGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cccattggtttcacttagctgcctattgtttttaccctggtttctttcagATCTCTTGCTTAAGAAGACAATTGGATCTAAGAAGGAGATTGGGTTCCTTAGAAGAGTCCACAAAAAATCCGCTTGT-TTTCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtagggggtaatagtgtaacactcacaatgctccacatcaggggatgggt Alignment from Exonerate_protein2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cccattggtttcacttagctgcctattgtttttaccctggtttctttcagATCTCTTGCTTAAGAAGACAATTGGATCTAAGAAGGAGATTGGGTTCCTTAGAAGAGTCCACAAAAAATCCGCTTGTTTTCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtagggggtaatagtgtaacactcacaatgctccacatcaggggatgggt Alignment from Exonerate_coding2genome ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCTGTCCTCCATCCAGGACGGAGTATCACCAAGTCAGACTACCTCCCTGTAAC cccattggtttcacttagctgcctattgtttttaccctggtttctttcagATCTCTTGCTTAAGAAGACAATTGGATCTAAGAAGGAGATTGGGTTCCTTAGAAGAGTCCACAAAAAATCCGCTTGTTTTCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTGTAGGGGGTAATAGTGTAACACTCACAATGCTCCACATCAGGGGATGGGT Alignment from GeneWise ATCTCTTGCTTAAGAAGACAATTGGTTCCAAAGAAGAGACTGGCTTCACGGAAGAGTCTACCAAGAATCCCATTGTCTTCCAGCCGCCCTCACAGGCCTTTCCTGGGGACCCT cccattggtttcacttagctgcctattgtttttaccctggtttctttcagATCTCTTGCTTAAGAAGACAATTGGATCTAAGAAGGAGATTGGGTTCCTTAGAAGAGTCCACAAAAAATCCGCTTGTTTTCAGCCTCCTTCACATACCTTCCCTGGGAAGTCTgtagggggtaatagtgtaacactcacaatgctccacatcaggggatgggt #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGACCC-AAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagttGCACATCCAATTCGACCCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTA-CCTAAAGGCCTTACAAGATGAATGGgtaaggaaactgttacatttatgtattttccagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGACCC-AAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagttGCACATCCAATTCGACCCCAAGCCTCCCTCTGCAACCAGTATTCCAGCT-ACCTAAAGGCCTTACAAGATGAATGGgtaaggaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGAcCCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTAC-CTAAAGGCCTTACAAGATGAATGGgtaaggaaactgttacatttatgtattttccagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TTGCTCACCCAATCCGACCC-AAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTA-CCTAAAGGCCTTACAAGATGAATGGgtaaggaaactgttacatttatgtattttccagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGA-CCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTA-CCTAAAGGCCTTACAAGATGAATGGgtaaggaaactgttacatttatgtattttccagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTACCTAAAGGCCTTACAAGATGAATGGgtaaggaaactgttacatttatgtattttccagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCA gatgtgagagtttgcatgcaaggatatcatctttctcctctggattgcagTTGCACATCCAATTCGACCCCAAGCCTCCCTCTGCAACCAGTATTCCAGCTACCTAAAGGCCTTACAAGATGAATGGGTAAGGAAACTGTTACATTTATGTATTTTCCAGGATGCAGTCATGCTGCA #### Prpf19_ID3045_4 --> 0 - 1 Original Alignment CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGC-TTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTACAAGATGAATGGgtgagtaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCCTTCACTCTTCGCCAACAACTGCAAACTACCCGCCAGGAAC-GTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtgagtctcattctactgtttcccctaatgccacacctcagctTTGGCCA Alignment from CESAR CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGC-TTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg ctCTGGCTA CCTTACAAGATGAATGGgtaaggaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCCTTCACTCTTCGCCAACAACTGCAAACTACCCGCCAGGAA-CGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAggtgagtctcattctactgtcagtgatgtcacctgtccccagctTTGGCCA Alignment from Spaln_aa2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCAC-AGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGgtgagtaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACaGCCTTCACTCTTCGCCAACAACTGCAAACTACCCGCCAGGAACG-TGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtttcccctaatgccacacctcagCTTTGGCCA Alignment from Spaln_nt2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCT-TCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGgtgagtaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCCTTCACTCTTCGCCAACAACTGCAAACTACCCGCCAGGAAC-GTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtttcccctaatgccacacctcagCTTTGGCCA Alignment from Pairagon CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAG-CTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGgtgagtaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCCTTCACTCTTCGCCAACAACTGCAAACTACCCGCCAGGAAC-GTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtttcccctaatgccacacctcagCTTTGGCCA Alignment from Exonerate_protein2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGC-TTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAG--CTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGgtgagtaaacttttcccttttgttctcctccagGATGCAGTCATGCTGCACAGCCTTCACTCTTCGCCAACAACTGCAAACTACCCGCCAGGAACG---TGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtttcccctaatgccacacctcagCTTTGGCCA Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CTCTGGCTA CCTTACAAGATGAATGGGTGAGTAAACTTTTCCCTTTTGTTCTCCTCCAGGATGCAGTCATGCTGCACAGCCTTCACTCTTCGCCAACAACTGCAAACTACCCGCCAGGAACGTGCCATGCTCTGTACCAACATGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGgtgagtctcattctactgtttcccctaatgccacacctcagCTTTGGCCA #### Prpf19_ID3046_5 --> 2 - 0 Original Alignment CTCGAGAAg ctCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAggtagtgctcattctactgtcagtgatgtcacctgtccccagctTTGGCCACCCTAAAACCCACAGGCTGGCCTGATAGTACCTCAAGCTGTGCCTA-TTCACCACCCAGTGTAATAgtaggctatcacccccccactagcagtacctcatgggaactagagagtta Alignment from CESAR CTCGAGAAg ctCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAggtgagtctcattctactgtcagtgatgtcacctgtccccagctTTGGCCACCCTAAAACCCACAGGCTGGCCTGATAGTACCTCAAGCTGTGCCT-ATTCACCACCCAGTGTAATAgtaggctatcacccccccactagcagtacctcatgggaactagagagtta Alignment from Spaln_aa2Genome CTCGAGAAG CTCTGGCTACTCTGAAACCA-CAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCC AGTGTTG CTCGAGAAGgtagtgctcattctactgtcagtgatgtcacctgtccccagCTTTGGCCACCCTAAAACCCaCAGGCTGGCCTGATAGTACCTCAAGCTGTGCCTATTCACCACCCAgtgtaatagtaggctatcacccccccactagcagtacctcatgggaactagAGAGTTA Alignment from Spaln_nt2Genome CTCGAGAAG CTCTGGCTACTCTGAAACC-ACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtagtgctcattctactgtcagtgatgtcacctgtccccagCTTTGGCCACCCTAAAACCCACAGGCTGGCCTGATAGTACCTCAAGCTGTGCCTA-TTCACCACCCAGTGTAATAgtaggctatcacccccccactagcagtacctcatgggaactagagagtta Alignment from Pairagon CTCGAGAAG CTCTGGCTACTCTGAAA-CCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtagtgctcattctactgtcagtgatgtcacctgtccccagCTTTGGCCACCCTAAAACCCACAGGCTGGCCTGATAGTACCTCAAGCTGTGCCTA-TTCACCACCCAGTGTAATAgtaggctatcacccccccactagcagtacctcatgggaactagagagtta Alignment from Exonerate_protein2genome CTCGAGAAG CTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG CTCGAGAAGgtagtgctcattctactgtcagtgatgtcacctgtccccagCTTTGGCCACCCTAAAACCCACAGGCTGGCCTGATAGTACCTCAAGCTGTGCCTATTCACCACCCAGTGTAATAgtaggctatcacccccccactagcagtacctcatgggaactagagagtta Alignment from Exonerate_coding2genome ctcgagaaggtagtgctcattctactgtcagtgatgtcacctgtccccagctttggccaccctaaaacccacaggctggcctgatagtacctcaagctgtgcctattcaccacccagtgtaatagtaggctatcacccccccactagcagtacctcatgggaactagagagtta Alignment from GeneWise CTCGAGAAG CTCTG CTCGAGAAGgtagtgctcattctactgtcagtgatgtcacctgtccccagctttggccaccctaaaacccacaggctggcctgatagtacctcaagctgtgcctattcaccacccagtgtaatagtaggctatcacccccccactagcagtacctcatgggaactagagAGTTA #### Prpf19_ID3055_14 --> 0 - 0 Original Alignment GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCC-TCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagtattttctctcatagtcaattgacattctattaattgctctggacagGAGCACACTAATGTCGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTATTCTCTGAAAATGGGTACTACTTGGCCACATCAACAGATGATCCTCCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAAA-CTTTAAAATGTTGCAGTTGCACAATAACTTTGAGgtaagacacttgatcccttttcttctctttcgcagttcttgtgctacccc Alignment from CESAR GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCC-TCAGTCAAGCTCTGGGAC---TTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagtattttctctcatagtcaattgacattctattaattgctctggacagGAGCACACTAATGTCGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTATTCTCTGAAAATGGGTACTACTTGGCCACATCAACAGATGATCCTCCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGA-AAACTTTAAAATGTTGCAGTTGCACAATAACTTTGAGgtaagacacttgatcccttttcttctctttcgcagttcttgtgctacccc Alignment from Spaln_aa2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAG---CTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagtattttctctcatagtcaattgacattctattaattgctctggacagGAGCACACTAATGTCGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTATTCTCTGAAAATGGGTACTACTTGGCCACATCAACAGATGATCCTCCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAAACTTTAAAATGTTGCAGTTGCACAATAACTTTGAGgtaagacacttgatcccttttcttctctttcgcagttcttgtgctacccc Alignment from Spaln_nt2Genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTC-CTCAGTCAAGCTCTGGGA---CTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagtattttctctcatagtcaattgacattctattaattgctctggacagGAGCACACTAATGTCGTAATCTTCCCTG------CTGGGCCTATCACCACCATTGTATTCTCTGAAAATGGGTACTACTTGGCCACATCAACAGATGATCCTCCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAA-AACTTTAAAATGTTGCAGTTGCACAATAACTTTGAGgtaagacacttgatcccttttcttctctttcgcagttcttgtgctacccc Alignment from Pairagon GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTC-CTCAGTCAAGCTCTGGG---ACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagtattttctctcatagtcaattgacattctattaattgctctggacagGAGCACACTAATGTCGTAATCTTCCCTG------CTGGGCCTATCACCACCATTGTATTCTCTGAAAATGGGTACTACTTGGCCACATCAACAGATGATCCTCCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAA-AACTTTAAAATGTTGCAGTTGCACAATAACTTTGAGgtaagacacttgatcccttttcttctctttcgcagttcttgtgctacccc Alignment from Exonerate_protein2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGAT---TCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagtattttctctcatagtcaattgacattctattaattgctctggacagGAGCACACTAATGTCGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTATTCTCTGAAAATGGGTACTACTTGGCCACATCAACAGATGATCCTCCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAAACTTTAAAATGTTGCAGTTGCACAATAACTTTGAGgtaagacacttgatcccttttcttctctttcgcagttcttgtgctacccc Alignment from Exonerate_coding2genome GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGAT---TCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagtattttctctcatagtcaattgacattctattaattgctctggacagGAGCACACTAATGTCGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTATTCTCTGAAAATGGGTACTACTTGGCCACATCAACAGATGATCCTCCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAAACTTTAAAATGTTGCAGTTGCACAATAACTTTGAGgtaagacacttgatcccttttcttctctttcgcagttcttgtgctacccc Alignment from GeneWise GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGAT---TCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tagtattttctctcatagtcaattgacattctattaattgctctggacagGAGCACACTAATGTCGTAATCTTCCCT------GCTGGGCCTATCACCACCATTGTATTCTCTGAAAATGGGTACTACTTGGCCACATCAACAGATGATCCTCCCAGTCAAGCTTTGGGAAAACATACAGAAGCTGAAAACTTTAAAATGTTGCAGTTGCACAATAACTTTGAGgtaagacacttgatcccttttcttctctttcgcagttcttgtgctacccc #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ctTGCTTTTTGGACTCCATG-GCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG aaaagtattagtagtcttcaagtctttgtgtcctccactgggccttccagctTGCTTTTTGGACTCTATGCGCCCCCCTCGGGCTGGCTGCTTATGGCTATG-GATCCGCTATGAGTTCGGAATTTTTAATCAGAAGATCTGTGGAGGTTGGCAGgtcagtaattccaaccctaatatgttttggggtttagtcctgataattag Alignment from CESAR ctTGCTTTTTGGACTCCATG-GCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG aaaagtattagtagtcttcaagtctttgtgtcctccactgggccttccagctTGCTTTTTGGACTCTATGCGCCCCCCTCGGGCTGGCTGCTTATGGCTATG-GATCCGCTATGAGTTCGGAATTTTTAATCAGAAGATCTGTGGAGGTTGGCAGgtcagtaattccaaccctaatatgttttggggtttagtcctgataattag Alignment from Spaln_aa2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG aaaagtattagtagtcttcaagtctttgtgtcctccactgggccttccagCTTGCTTTTTGGACTCTATGCGCCCCCCTCGGGCTGGCTGCTTATGGCTATGGATCCGCTATGAGTTCGGAATTTTTAATCAGAAGATCTGTGGAGGTTGGCAGgtcagtaattccaaccctaatatgttttggggtttagtcctgataattag Alignment from Spaln_nt2Genome CTTGCTTTTTGGACTCCATG-GCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG aaaagtattagtagtcttcaagtctttgtgtcctccactgggccttccagCTTGCTTTTTGGACTCTATGCGCCCCCCTCGGGCTGGCTGCTTATGGCTAT-GGATCCGCTATGAGTTCGGAATTTTTAATCAGAAGATCTGTGGAGGTTGGCAGgtcagtaattccaaccctaatatgttttggggtttagtcctgataattag Alignment from Pairagon CTTGCTTTTTGGACTCCATG-GCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG aaaagtattagtagtcttcaagtctttgtgtcctccactgggccttccagCTTGCTTTTTGGACTCTATGCGCCCCCCTCGGGCTGGCTGCTTATGGCTAT-GGATCCGCTATGAGTTCGGAATTTTTAATCAGAAGATCTGTGGAGGTTGGCAGgtcagtaattccaaccctaatatgttttggggtttagtcctgataattag Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGG aaaagtattagtagtcttcaagtctttgtgtcctccactgggccttccagCTTGCTTTTTGGACTCTATGCGCCCCCCTCGGGCTGGCTGCTTATGGCTATGGATCCGCTATGAGTTCGGAATTTTTAATCAGAAGATCTGTGGAGGTTGGCAGGTCAGTAATTCCAACCCTAATatgttttggggtttagtcctgataattag Alignment from Exonerate_coding2genome CTTGCTTTTTGGACTCCATG-GCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG aaaagtattagtagtcttcaagtctttgtgtcctccactgggccttccagCTTGCTTTTTGGACTCTATGCGCCCCCCTCGGGCTGGCTGCTTATGGCTAT-GGATCCGCTATGAGTTCGGAATTTTTAATCAGAAGATCTGTGGAGGTTGGCAGgtcagtaattccaaccctaatatgttttggggtttagtcctgataattag Alignment from GeneWise CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG aaaagtattagtagtcttcaagtctttgtgtcctccactgggccttccagCTTGCTTTTTGGACTCTATGCGCCCCCCTCGGGCTGGCTGCTTATGGCTATGGATCCGCTATGAGTTCGGAATTTTTAATCAGAAGATCTGTGGAGGTTGGCAGgtcagtaattccaaccctaatatgttttggggtttagtcctgataattag #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGG-CTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gaaagggaagagttatgaaccagggatgggctggggtttctttgccacagCAGGTGGCAGCTGCATCTCCAGGGGATGTAGACAGGCCTGTGGCGCACGTCACTAGTCAAGGATGGAG-AGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGTTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAACAGACCatgtaagcattgggatcgaggtacgccacagggccacaagatagaaagctac Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGG-CTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat gaaagggaagagttatgaaccagggatgggctggggtttctttgccacagCAGGTGGCAGCTGCATCTCCAGGGGATGTAGACAGGCCTGTGGCGCACGTCACTAGTCAAGGATGGA-GAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGTTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAACAGACCatgtaagcattgggatcgaggtacgccacagggccacaagatagaaagctac Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaagggaagagttatgaaccagggatgggctggggtttctttgccacagCAGGTGGCAGCTGCATCTCCAGGGGATGTAGACAGGCCTGTGGCGCACGTCACTAGTCAAGGATGGAGAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGTTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAACAGACCATgtaagcattgggatcgaggtacgccacagggccacaagatagaaagctac Alignment from Spaln_nt2Genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGC-TGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaagggaagagttatgaaccagggatgggctggggtttctttgccacagCAGGTGGCAGCTGCATCTCCAGGGGATGTAGACAGGCCTGTGGCGCACGTCACTAGTCAAGGATGGAG-AGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGTTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAACAGACCATgtaagcattgggatcgaggtacgccacagggccacaagatagaaagctac Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGG-CTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaagggaagagttatgaaccagggatgggctggggtttctttgccacagCAGGTGGCAGCTGCATCTCCAGGGGATGTAGACAGGCCTGTGGCGCACGTCACTAGTCAAGGATGGAG-AGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGTTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAACAGACCATgtaagcattgggatcgaggtacgccacagggccacaagatagaaagctac Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaagggaagagttatgaaccagggatgggctggggtttctttgccacagCAGGTGGCAGCTGCATCTCCAGGGGATGTAGACAGGCCTGTGGCGCACGTCACTAGTCAAGGATGGAGAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGTTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAACAGACCATgtaagcattgggatcgaggtacgccacagggccacaagatagaaagctac Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaagggaagagttatgaaccagggatgggctggggtttctttgccacagCAGGTGGCAGCTGCATCTCCAGGGGATGTAGACAGGCCTGTGGCGCACGTCACTAGTCAAGGATGGAGAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGTTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAACAGACCATgtaagcattgggatcgaggtacgccacagggccacaagatagaaagctac Alignment from GeneWise CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT gaaagggaagagttatgaaccagggatgggctggggtttctttgccacagCAGGTGGCAGCTGCATCTCCAGGGGATGTAGACAGGCCTGTGGCGCACGTCACTAGTCAAGGATGGAGAGTAAGGCGCATCAACATGTCACATCTGTGCATTACAGGTTCACATGCTGTCAACAGTCTGGCCCGAATCCTTTCAGAGATCCTCAAACAGACCATgtaagcattgggatcgaggtacgccacagggccacaagatagaaagctac #### Pygm_ID1692_16 --> 0 - 1 Original Alignment GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCT-GCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAg agaattaaaccctaagaagtgtcttcattctcttcccttgtggattccagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATTAAAATTATCACTGCAATA---GATGTGGTCAATCATGACCCGCACAGTGGGGGATCGTCTCCAAGTGCTTTTTCTGGAGA-CTATCAGGTAACGCTTGCTGAGAGGggtaggccgcaccaatgctgatggactactgctgctggctaagaagctctg Alignment from CESAR GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCT-GCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAg agaattaaaccctaagaagtgtcttcattctcttcccttgtggattccagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATTAAAATTATCACTGCAATA---GATGTGGTCAATCATGACCCGCACAGTGGGGGATCGTCTCCAAGTGCTTTTTCTGG-AGACTATCAGGTAACGCTTGCTGAGAGGggtaggccgcaccaatgctgatggactactgctgctggctaagaagctctg Alignment from Spaln_aa2Genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaaccctaagaagtgtcttcattctcttcccttgtggattccagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATTAAAATTATCACTGCAATA---GATGTGGTCAATCATGACCCGCACAGTGGGGGATCGTCTCCAAGTGCTTTTTCTGGAGACTATCAGGTAACGCTTGCTGAGAGGGgtaggccgcaccaatgctgatggactactgctgctggctaagaagctctg Alignment from Spaln_nt2Genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTG-CGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaaccctaagaagtgtcttcattctcttcccttgtggattccagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATTAAAATTATCACTGCAAT---AGATGTGGTCAATCATGACCCGCACAGTGGGGGATCGTCTCCAAGTGCTTTTTCTGGAG-ACTATCAGGTAACGCTTGCTGAGAGGGgtaggccgcaccaatgctgatggactactgctgctggctaagaagctctg Alignment from Pairagon GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCC-TGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaaccctaagaagtgtcttcattctcttcccttgtggattccagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATTAAAATTATCACTGCAAT---AGATGTGGTCAATCATGACCCGCACAGTGGGGGATCGTCTCCAAGTGCTTTTTCTGGAG-ACTATCAGGTAACGCTTGCTGAGAGGGgtaggccgcaccaatgctgatggactactgctgctggctaagaagctctg Alignment from Exonerate_protein2genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaaccctaagaagtgtcttcattctcttcccttgtggattccagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATTAAAATTATCACTGCAATA---GATGTGGTCAATCATGACCCGCACAGTGGGGGATCGTCTCCAAGTGCTTTTTCTGGAGACTATCAGGTAACGCTTGCTGAGAGGGgtaggccgcaccaatgctgatggactactgctgctggctaagaagctctg Alignment from Exonerate_coding2genome GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaaccctaagaagtgtcttcattctcttcccttgtggattccagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATTAAAATTATCACTGCAATA---GATGTGGTCAATCATGACCCGCACAGTGGGGGATCGTCTCCAAGTGCTTTTTCTGGAGACTATCAGGTAACGCTTGCTGAGAGGGgtaggccgcaccaatgctgatggactactgctgctggctaagaagctctg Alignment from GeneWise GCTGCACCCGGGTACCACATGGCTAAGATGATCATCAAGCTTATCACTGCCATTGGGGATGTGGTCAACCACGACCCTGCGGTAGGAGACCGCCTCCGAGTGATCTTCCTGGAGAACTACCGAGTCTCCCTTGCTGAGAAAG agaattaaaccctaagaagtgtcttcattctcttcccttgtggattccagGCAGCACCTGGGTATCACATGGCTGAGATGCTCATTAAAATTATCACTGCAATA---GATGTGGTCAATCATGACCCGCACAGTGGGGGATCGTCTCCAAGTGCTTTTTCTGGAGACTATCAGGTAACGCTTGCTGAGAGGGgtaggccgcaccaatgctgatggactactgctgctggctaagaagctctg #### Rab3il1_ID2647_3 --> 0 - 0 Original Alignment GAGCTGAAGCTAAAGGATGAAGAGTGTGAA-CGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG gctagtgacgactccaactgagggcccatctcccatctttctctctgcagGAGCTGAAGCTAAAGGATGAGGAGTGTAAACCGACTTTGCAGAGTTCGTGTAGAACAAGAGCAGGAGA-CGAAGAGCCAACAGCCAGTCTATTCAAAgtcagtctgatcccctgggttaacaactcctggtgcttttacagccttaa Alignment from CESAR GAGCTGAAGCTAAAGGATGAAGAGTGTGAA-CGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG gctagtgacgactccaactgagggcccatctcccatctttctctctgcagGAGCTGAAGCTAAAGGATGAGGAGTGTAAACCGACTTTGCAGAGTTCGTGTAGAACAAGAGCAGGAG-ACGAAGAGCCAACAGCCAGTCTATTCAAAgtcagtctgatcccctgggttaacaactcctggtgcttttacagctttct Alignment from Spaln_aa2Genome GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG gctagtgacgactccaactgagggcccatctcccatctttctctctgcagGAGCTGAAGCTAAAGGATGAGGAGTGTAAACCGACTTTGCAGAGTTCGTGTAGAACAAGAGCAGGAGACGAAGAGCCAACAGCCAGTCTATTCAAAgtcagtctgatcccctgggttaacaactcctggtgcttttacagccttaa Alignment from Spaln_nt2Genome GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGG-CTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG gctagtgacgactccaactgagggcccatctcccatctttctctctgcagGAGCTGAAGCTAAAGGATGAGGAGTGTAAACCGACTTTGCAGAGTTCGTGTAGAACAAGAGCAGGAG-ACGAAGAGCCAACAGCCAGTCTATTCAAAgtcagtctgatcccctgggttaacaactcctggtgcttttacagccttaa Alignment from Pairagon GAGCTGAAGCTAAAGGATGAAGAGTGTGAA-CGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTG---------------------------------------------------- gctagtgacgactccaactgagggcccatctcccatctttctctctgcagGAGCTGAAGCTAAAGGATGAGGAGTGTAAACCGACTTTGCAGAGTTCGTGTAGAACAAGAGCAGGAGA-CGAAGAGCCAACAGCCAGTCTATTCAAAGTCAGTCTGATCCCCTGGGTTAACAACTCCTGGTGCTTTTACAGCCTTAA Alignment from Exonerate_protein2genome GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG gctagtgacgactccaactgagggcccatctcccatctttctctctgcagGAGCTGAAGCTAAAGGATGAGGAGTGTAAACCGACTTTGCAGAGTTCGTGTAGAACAAGAGCAGGAGACGAAGAGCCAACAGCCAGTCTATTCAAAgtcagtctgatcccctgggttaacaactcctggtgcttttacagccttaa Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GAGCTGAAGCTAAAGGATGAAGAGTGTGAACGGCTTTGCAAAGTACGTGCACAGCTGGAGCAGGAGCTTGAGGAGCTGACAGCCAGCCTGTTTGAG gctagtgacgactccaactgagggcccatctcccatctttctctctgcagGAGCTGAAGCTAAAGGATGAGGAGTGTAAACCGACTTTGCAGAGTTCGTGTAGAACAAGAGCAGGAGACGAAGAGCCAACAGCCAGTCTATTCAAAgtcagtctgatcccctgggttaacaactcctggtgcttttacagccttaa #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGCGTCCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGC-GAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from CESAR GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGCGTCCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAACAG-CGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Spaln_aa2Genome -GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGATC gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGCGTCCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCGAAGGAAGCATGGGGCAAGGTTGgttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Spaln_nt2Genome GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGCGTCCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAACAG-CGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Pairagon GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGCGTCCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAACAG-CGAAGGAAGCATGGGGCAAGgttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Exonerate_protein2genome GAAGCTCACAAGATG-GTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGATC gggttaacaactcctggtgcttttacagctttctctcatcttggtcctagGAAGCCCACAAAATGCGTCCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCGAAGGAAGCATGGGGCAAGGTTGgttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from Exonerate_coding2genome gggttaacaactcctggtgcttttacagctttctctcatcttggtcctaggaagcccacaaaatgcgtccaggaagcaaacatgaaacaggcaacatcagaaaaacagcgaaggaagcatggggcaaggttggttggagcaaaatgatcactaatgcagtctatccctttttccaagc Alignment from GeneWise GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGATC gggttaacaactcctggtgcttttacagctttctctcatcttggtcctaggaagCCCACA---AAATGCGTCCAGGAAGCAAACATGAAACAGGCAACATCAGAAAAACAGCGAAGGAAGCATGGGGCAAGGTTGgttggagcaaaatgatcactaatgcagtctatccctttttccaagc #### Rasgrp2_ID1703_2 --> 2 - 2 Original Alignment atGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTC-ATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt tgtcctcagcaggcataaatatgagctccccatcactctctcttttctagatGATTCAGGAAAGGTGCAAGACTCCCAGCTTGTACATATGTTCCTACATGATGTACCCATGGTATATACCTTCCACTC-GTTGGCTTCAAAGCTGCTCCACttgtgagttttgtgccccattacattggaacatattcagtagtactaaacca Alignment from CESAR atGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTC-ATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACtt tgtcctcagcaggcataaatatgagctccccatcactctctcttttctagatGATTCAGGAAAGGTGCAAGACTCCCAGCTTGTACATATGTTCCTACATGATGTACCCATGGTATATACCTTCCACT-CGTTGGCTTCAAAGCTGCTCCACttgtgagttttgtgccccattacattggaacatattcagtagtactaaacca Alignment from Spaln_aa2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tgtcctcagcaggcataaatatgagctccccatcactctctcttttctagATGATTCAGGAAAGGTGCAAGACTCCCAGCTTGTACATATGTTCCTACATGATGTACCCATGGTATATACCTTCCACTCGTTGGCTTCAAAGCTGCTCCACTTgtgagttttgtgccccattacattggaacatattcagtagtactaaacca Alignment from Spaln_nt2Genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCT-CATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tgtcctcagcaggcataaatatgagctccccatcactctctcttttctagATGATTCAGGAAAGGTGCAAGACTCCCAGCTTGTACATATGTTCCTACATGATGTACCCATGGTATATACCTTCCACTC-GTTGGCTTCAAAGCTGCTCCACTTgtgagttttgtgccccattacattggaacatattcagtagtactaaacca Alignment from Pairagon ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCT-CATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tgtcctcagcaggcataaatatgagctccccatcactctctcttttctagATGATTCAGGAAAGGTGCAAGACTCCCAGCTTGTACATATGTTCCTACATGATGTACCCATGGTATATACCTTCCACTC-GTTGGCTTCAAAGCTGCTCCACTTgtgagttttgtgccccattacattggaacatattcagtagtactaaacca Alignment from Exonerate_protein2genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tgtcctcagcaggcataaatatgagctccccatcactctctcttttctagATGATTCAGGAAAGGTGCAAGACTCCCAGCTTGTACATATGTTCCTACATGATGTACCCATGGTATATACCTTCCACTCGTTGGCTTCAAAGCTGCTCCACTTgtgagttttgtgccccattacattggaacatattcagtagtactaaacca Alignment from Exonerate_coding2genome ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tgtcctcagcaggcataaatatgagctccccatcactctctcttttctagATGATTCAGGAAAGGTGCAAGACTCCCAGCTTGTACATATGTTCCTACATGATGTACCCATGGTATATACCTTCCACTCGTTGGCTTCAAAGCTGCTCCACTTgtgagttttgtgccccattacattggaacatattcagtagtactaaacca Alignment from GeneWise ATGACTCCGGAAAGGTGCGAGATCCACAGCTAGTGCGCATGTTTCTCATGATGCACCCCTGGTACATACCTTCCTCTCAGCTGGCTTCGAAACTGCTCCACTT tgtcctcagcaggcataaatatgagctccccatcactctctcttttctagATGATTCAGGAAAGGTGCAAGACTCCCAGCTTGTACATATGTTCCTACATGATGTACCCATGGTATATACCTTCCACTCGTTGGCTTCAAAGCTGCTCCACTTgtgagttttgtgccccattacattggaacatattcagtagtactaaacca #### Rasgrp2_ID1706_5 --> 1 - 0 Original Alignment cCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGG-AACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagcCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGT-CTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from CESAR cCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGG-AACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagcCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGT-CTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Spaln_aa2Genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Spaln_nt2Genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGG-AACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGT-CTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Pairagon CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGG-AACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGT-CTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Exonerate_protein2genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from Exonerate_coding2genome CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag Alignment from GeneWise CCCTACCTACAAATGGAAGCGGCAGGTGACCCAGCGGAACCCTGTGGAACAGAAAAAGCGCAAGATGTCCTTGTTGTTTGATCACTTGGAGCCTATGGAGCTGGCAGAACATCTTACCTACCTGGAGTATCGTTCCTTCTGCAAGATCCTG tgcattatggattaataaattactgccttatttatttattgcttttgcagCCCTACTTATAAATGGAAGCGGCAGGGGACCCAGCGGCAACCTTGTGGAACAGAAGAAACCCAAGATGTCTTATTGTTTGATCACTTGGAGCTGATGGAGCTTGCTGAACATCTAACCTACCTGGGGTATCGTTCCTTCTGCAAAATACTGgtgagagttgaaggtctggttgtgggtatcaggcaggtcttttcaagtag #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTC-CTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG ctactcaacaatactaactgtcaacagtttttactcccttttgctcttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAACCCAGTTCCTGGAGCGATTCATCTCTCTCTTCAACA-TGTGCCCCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCCGAGgtgagtacagtcctgtctcctttgttgaatgtacagatagatcacatttt Alignment from CESAR TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTC-CTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG ctactcaacaatactaactgtcaacagtttttactcccttttgctcttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAACCCAGTTCCTGGAGCGATTCATCTCTCTCTTCAAC-ATGTGCCCCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCCGAGgtgagtacagtcctgtctcctttgttgaatgtacagatagatcacatttt Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG ctactcaacaatactaactgtcaacagtttttactcccttttgctcttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAACCCAGTTCCTGGAGCGATTCATCTCTCTCTTCAACATGTGCCCCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCCGAGgtgagtacagtcctgtctcctttgttgaatgtacagatagatcacatttt Alignment from Spaln_nt2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGT-CCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG ctactcaacaatactaactgtcaacagtttttactcccttttgctcttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAACCCAGTTCCTGGAGCGATTCATCTCTCTCTTCAACA-TGTGCCCCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCCGAGgtgagtacagtcctgtctcctttgttgaatgtacagatagatcacatttt Alignment from Pairagon TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGG-TCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG ctactcaacaatactaactgtcaacagtttttactcccttttgctcttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAACCCAGTTCCTGGAGCGATTCATCTCTCTCTTCAACA-TGTGCCCCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCCGAGgtgagtacagtcctgtctcctttgttgaatgtacagatagatcacatttt Alignment from Exonerate_protein2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG ctactcaacaatactaactgtcaacagtttttactcccttttgctcttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAACCCAGTTCCTGGAGCGATTCATCTCTCTCTTCAACATGTGCCCCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCCGAGgtgagtacagtcctgtctcctttgttgaatgtacagatagatcacatttt Alignment from Exonerate_coding2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG ctactcaacaatactaactgtcaacagtttttactcccttttgctcttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAACCCAGTTCCTGGAGCGATTCATCTCTCTCTTCAACATGTGCCCCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCCGAGgtgagtacagtcctgtctcctttgttgaatgtacagatagatcacatttt Alignment from GeneWise TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG ctactcaacaatactaactgtcaacagtttttactcccttttgctcttagTTTCATGACTATCACAGTTTTGTCACACATGGATGCACTGTAGATAACCCAGTTCCTGGAGCGATTCATCTCTCTCTTCAACATGTGCCCCAGTGGGTCCAGATAATGATCCTTAGCAAGCCAACAGCCACACAGCAGGCACTTGTCATTACTCACTTTGTACATGTAGCCGAGgtgagtacagtcctgtctcctttgttgaatgtacagatagatcacatttt #### Rbm20_ID11377_4 --> 1 - 1 Original Alignment tGCTGGCCTCCGGAGTATA-CGTGCTTCA---GGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGg ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagtACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAG-TAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGggtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from CESAR tGCTGGCCTCCGGAGTATA-CGT---GCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGg ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagtACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCA-GTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGggtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Spaln_aa2Genome TGCTGGCCTCCGGAGTATA---CGTGCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Spaln_nt2Genome TGCTGGCCTCCGGAGTATACGTGCT----TCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAG-TAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Pairagon TGCTGGCCTCCGGAGTATACGTGCT----TCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAG-TAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Exonerate_protein2genome TGCTGGCCTCCGGAGTATACGTGCT---TCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from Exonerate_coding2genome ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagtactggtctccagagtatcccgggtatcatcaggagaggggacacactctgcctcagtaatagtacagccgtttataatccaacaggaaatgagggtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa Alignment from GeneWise TGCTGGCCTCCGGAGTATACGTGCTTCA---GGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG ctaatatgaaattaacaacgtaccattaaatacctatttctccttttcagTACTGGTCTCCAGAGTATCCCGGGTATCATCAGGAGAGGGGACACACTCTGCCTCAGTAATAGTACAGCCGTTTATAATCCAACAGGAAATGAGGgtgagcaaggtgaatggtagggctctgtgctagccattagttgtatgcaa #### Rbp4_ID7524_3 --> 0 - 2 Original Alignment TTCTCTGGGCTC-TGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCT---GAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCCTGTATACTATTGCA---AAGGGTCCGAAGGGGC-TTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGaggtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from CESAR TTCTCTGGGCTC------TGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGag caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCCTGTATACTATTGC---------AAAGGGTCCGAAGGGGCTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGaggtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Spaln_aa2Genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTC---CCTGTATACTATTGCAAAGGGTCCGAAGGGGCTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Spaln_nt2Genome TTCTCTGGGCTCTG-GTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCTG---AGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCCTGTATACTATTGC---AAAGGGTCCGAAGGGGCT-TTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Pairagon TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCAT---CGCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagttttcagacctccctgtatactattgcaaagggtccgaag------GGGCT-------------------------------------TTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Exonerate_protein2genome TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCCTGTATACTATTGC---AAAGGGTCCGAAGGGGCTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from Exonerate_coding2genome AAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATC---GCTGAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagttttcagacctccctgtatactattgcAAAGGGTCCGAAGGGGCTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc Alignment from GeneWise TTCTCTGGGCTCTGGTATGCCATCGCCAAAAAGGACCCCGAGGGTCTCTTTTTGCAAGACAACATCATCGCT---GAGTTTTCTGTGGACGAGAAGGGTCATATGAGCGCCACAGCCAAGGGACGAGTCCGTCTTCTGAG caaatttagttggggggtgagcttaggcgtgacattcttcttgtttccagTTTTCAGACCTCCCTGTATACTATTGCAAA---GGGTCCGAAGGGGCTTTTTTGCAAGACAATATCATTGCTGCTGAGTTTTCTGTAGACGAGAAGGGGCATATGAGTACTACTGCCAAGGGACAGGTACATCTCCTGAGgtaagagaacctgagtgcactactgtctctttagactaacaaagcccttc #### Rcor2_ID2094_5 --> 0 - 2 Original Alignment CTCCCTGACAAGGTGATTCCC-AGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACag tgcccatcctccatgcacatcattctagttctggtgatttgcttctttagCTTCCTGATAAGATCATTCCACAGCCTTGTGAAATACTATTACTCTTGGAAGA-GACTCGTAGTCAAACTAGTGTAATGGATAGGCAGTCAAGGCGGTTGAGCGGCCATCAGGACAAAGAAGATaggtaaggagtttagtttgagacttgggggaatgataatggagtgtgtatgt Alignment from CESAR CTCCCTGACAAGGTGATTCCC-AGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACag tgcccatcctccatgcacatcattctagttctggtgatttgcttctttagCTTCCTGATAAGATCATTCCACAGCCTTGTGAAATACTATTACTCTTGGAAGA-GACTCGTAGTCAAACTAGTGTAATGGATAGGCAGTCAAGGCGGTTGAGCGGCCATCAGGACAAAGAAGATaggtaaggagtttagtttgagacttgggggaatgataatggagtgatactct Alignment from Spaln_aa2Genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcccatcctccatgcacatcattctagttctggtgatttgcttctttagCTTCCTGATAAGATCATTCCACAGCCTTGTGAAATACTATTACTCTTGGAAGAGACTCGTAGTCAAACTAGTGTAATGGATAGGCAGTCAAGGCGGTTGAGCGGCCATCAGGACAAAGAAGATAGgtaaggagtttagtttgagacttgggggaatgataatggagtgtgtatgt Alignment from Spaln_nt2Genome CTCCCTGACAAGGTGATTCC-CAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcccatcctccatgcacatcattctagttctggtgatttgcttctttagCTTCCTGATAAGATCATTCCACAGCCTTGTGAAATACTATTACTCTTGGAAG-AGACTCGTAGTCAAACTAGTGTAATGGATAGGCAGTCAAGGCGGTTGAGCGGCCATCAGGACAAAGAAGATAGgtaaggagtttagtttgagacttgggggaatgataatggagtgtgtatgt Alignment from Pairagon CTCCCTGACAAGGTGATTCC-CAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcccatcctccatgcacatcattctagttctggtgatttgcttctttagCTTCCTGATAAGATCATTCCACAGCCTTGTGAAATACTATTACTCTTGGAAG-AGACTCGTAGTCAAACTAGTGTAATGGATAGGCAGTCAAGGCGGTTGAGCGGCCATCAGGACAAAGAAGATAGgtaaggagtttagtttgagacttgggggaatgataatggagtgtgtatgt Alignment from Exonerate_protein2genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcccatcctccatgcacatcattctagttctggtgatttgcttctttagCTTCCTGATAAGATCATTCCACAGCCTTGTGAAATACTATTACTCTTGGAAGAGACTCGTAGTCAAACTAGTGTAATGGATAGGCAGTCAAGGCGGTTGAGCGGCCATCAGGACAAAGAAGATAGgtaaggagtttagtttgagacttgggggaatgataatggagtgtgtatgt Alignment from Exonerate_coding2genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcccatcctccatgcacatcattctagttctggtgatttgcttctttagCTTCCTGATAAGATCATTCCACAGCCTTGTGAAATACTATTACTCTTGGAAGAGACTCGTAGTCAAACTAGTGTAATGGATAGGCAGTCAAGGCGGTTGAGCGGCCATCAGGACAAAGAAGATAGgtaaggagtttagtttgagacttgggggaatgataatggagtgtgtatgt Alignment from GeneWise CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG tgcccatcctccatgcacatcattctagttctggtgatttgcttctttagCTTCCTGATAAGATCATTCCACAGCCTTGTGAAATACTATTACTCTTGGAAGAGACTCGTAGTCAAACTAGTGTAATGGATAGGCAGTCAAGGCGGTTGAGCGGCCATCAGGACAAAGAAGATAGgtaaggagtttagtttgagacttgggggaatgataatggagtgtgtatgt #### Rcor2_ID2099_10 --> 2 - 0 Original Alignment ctATTCGTAGATACGGCAAAGACTTTGGGGCTATT-GCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggagtggccaactgttttgttcaaaaaaaaatattatgtgtttttagccCTTTGTAGATATGGGACAGACTTTGGGGCTATTCGCAGAAGTGATCGGAAACAAGACCCTGA-CCAAGTGAAGACATTCTTTGTGAGCTATCGCCGCCTCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtgagtgacctctccgtggaaaatacattataattattcacagGTACAAA Alignment from CESAR ctATTCGTAGATACGGCAAAGACTTTGGGGCTATT-GCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggagtggccaactgttttgttcaaaaaaaaatattatgtgtttttagccCTTTGTAGATATGGGACAGACTTTGGGGCTATTCGCAGAAGTGATCGGAAACAAGACCCTGA-CCAAGTGAAGACATTCTTTGTGAGCTATCGCCGCCTCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtgagtgacctctccgtggaagtatgctctctgtttcccacagGTACAAA Alignment from Spaln_aa2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggagtggccaactgttttgttcaaaaaaaaatattatgtgtttttagCCCTTTGTAGATATGGGACAGACTTTGGGGCTATTCGCAGAAGTGATCGGAAACAAGACCCTGACCAAGTGAAGACATTCTTTGTGAGCTATCGCCGCCTCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtgagtgacctctccgtggaaaatacattataattattcacagGTACAAA Alignment from Spaln_nt2Genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATT-GCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggagtggccaactgttttgttcaaaaaaaaatattatgtgtttttagCCCTTTGTAGATATGGGACAGACTTTGGGGCTATTCGCAGAAGTGATCGGAAACAAGACCCTGA-CCAAGTGAAGACATTCTTTGTGAGCTATCGCCGCCTCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtgagtgacctctccgtggaaaatacattataattattcacagGTACAAA Alignment from Pairagon CTATTCGTAGATACGGCAAAGACTTTGGGGCTATT-GCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggagtggccaactgttttgttcaaaaaaaaatattatgtgtttttagCCCTTTGTAGATATGGGACAGACTTTGGGGCTATTCGCAGAAGTGATCGGAAACAAGACCCTGA-CCAAGTGAAGACATTCTTTGTGAGCTATCGCCGCCTCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtgagtgacctctccgtggaaaatacattataattattcacagGTACAAA Alignment from Exonerate_protein2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggagtggccaactgttttgttcaaaaaaaaatattatgtgtttttagCCCTTTGTAGATATGGGACAGACTTTGGGGCTATTCGCAGAAGTGATCGGAAACAAGACCCTGACCAAGTGAAGACATTCTTTGTGAGCTATCGCCGCCTCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtgagtgacctctccgtggaaaatacattataattattcacagGTACAAA Alignment from Exonerate_coding2genome CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAGGTCCAGATTACATCTGTCTCAACATCAGTA agaggagtggccaactgttttgttcaaaaaaaaatattatgtgtttttagCCCTTTGTAGATATGGGACAGACTTTGGGGCTATTCGCAGAAGTGATCGGAAACAAGACCCTGACCAAGTGAAGACATTCTTTGTGAGCTATCGCCGCCTCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGGTGAGTGACCTCTCCGTGGAAAATACATTAtaattattcacaggtacaaa Alignment from GeneWise CTATTCGTAGATACGGCAAAGACTTTGGGGCTATTGCAGAGGTGATTGGGAACAAGACTCTGACCCAAGTGAAGACCTTCTTTGTGAGCTATCGTCGCCGCTTCAACCTGGAAGAGGTGCTGCAGGAATGGGAGGCTGAGCAGGATGGGGCCCCCGCAGCTCCGGTCCCCACGGAAGAGGCCAGGCGAGGGGCTCCTGTACCAGCCACAGCCCTAGAAGAAGATGATGAG GTCCAGA agaggagtggccaactgttttgttcaaaaaaaaatattatgtgtttttagCCCTTTGTAGATATGGGACAGACTTTGGGGCTATTCGCAGAAGTGATCGGAAACAAGACCCTGACCAAGTGAAGACATTCTTTGTGAGCTATCGCCGCCTCTTTAACCTGGAAGAGGTGCTGCAGGAATGGGAAGCTGAGCAAGATGGGGCCCCCACAGCCCTAGTCCCCACAGAAGAGGCCCGGCAAGGGGCTCCTGTTTCAACCACAGCCCTTGAAGAGGATGATAAGgtgagtgacctctccgtggaaaatacattataattattcacagGTACAAA #### Rin1_ID807_2 --> 1 - 0 Original Alignment gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAA-CAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattggacagaggaagctgaggagaaatgtctcattacaggCCAGCAACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTCCAGGCTGGTGGGTCACACCCAACCGGCATGCAAAGTCAGCCTTCACGAGC-ACTGTTGATCACATGTCTTGTGTGGCTTCGGCTCCGGGCCAATGCAGCTACTGTACTGCATGTACTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagatcttaattaatttctttttttatcatagA Alignment from CESAR gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAA-CAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattggacagaggaagctgaggagaaatgtctcattacaggCCAGCAACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTCCAGGCTGGTGGGTCACACCCAACCGGCATGCAAAGTCAGCCTTCACGAG-CACTGTTGATCACATGTCTTGTGTGGCTTCGGCTCCGGGCCAATGCAGCTACTGTACTGCATGTACTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagatcttaaaggttagcctttccttttatagA Alignment from Spaln_aa2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattggacagaggaagctgaggagaaatgtctcattacagGCCAGCAACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTCCAGGCTGGTGGGTCACACCCAACCGGCATGCAAAGTCAGCCTTCACGAGCACTGTTGATCACATGTCTTGTGTGGCTTCGGCTCCGGGCCAATGCAGCTACTGTACTGCATGTACTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagatcttaattaatttctttttttatcatagA Alignment from Spaln_nt2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAAC-AGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattggacagaggaagctgaggagaaatgtctcattacagGCCAGCAACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTCCAGGCTGGTGGGTCACACCCAACCGGCATGCAAAGTCAGCCTTCACGAGC-ACTGTTGATCACATGTCTTGTGTGGCTTCGGCTCCGGGCCAATGCAGCTACTGTACTGCATGTACTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagatcttaattaatttctttttttatcatagA Alignment from Pairagon GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCA-ACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattggacagaggaagctgaggagaaatgtctcattacagGCCAGCAACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTCCAGGCTGGTGGGTCACACCCAACCGGCATGCAAAGTCAGCCTTCACGAGC-ACTGTTGATCACATGTCTTGTGTGGCTTCGGCTCCGGGCCAATGCAGCTACTGTACTGCATGTACTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagatcttaattaatttctttttttatcatagA Alignment from Exonerate_protein2genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattggacagaggaagctgaggagaaatgtctcattacagGCCAGCAACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTCCAGGCTGGTGGGTCACACCCAACCGGCATGCAAAGTCAGCCTTCACGAGCACTGTTGATCACATGTCTTGTGTGGCTTCGGCTCCGGGCCAATGCAGCTACTGTACTGCATGTACTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagatcttaattaatttctttttttatcatagA Alignment from Exonerate_coding2genome gattttagaacattggacagaggaagctgaggagaaatgtctcattacaggccagcaacagacccactgtatgacactcctgatacaagaggtgtccaggctggtgggtcacacccaaccggcatgcaaagtcagccttcacgagcactgttgatcacatgtcttgtgtggcttcggctccgggccaatgcagctactgtactgcatgtactaagtacaaaacctccaggggtaagcctcttagttacaagatcttaattaatttctttttttatcataga Alignment from GeneWise GGGCACCAACAGAAAGAAAAGCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG A gattttagaacattggacagaggaagctgaGGAGAAATGTCTCATTACAGGCCAGCAACAGACCCACTGTATGACACTCCTGATACAAGAGGTGTCCAGGCTGGTGGGTCACACCCAACCGGCATGCAAAGTCAGCCTTCACGAGCACTGTTGATCACATGTCTTGTGTGGCTTCGGCTCCGGGCCAATGCAGCTACTGTACTGCATGTACTAAGTACAAAACCTCCAGGGgtaagcctcttagttacaagatcttaattaatttctttttttatcatagA #### Rin1_ID811_6 --> 2 - 1 Original Alignment agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACA-GCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg agaattacctgtacatactcccctccaaaacacattgcttctctctctagagTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---TGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACACGTTGTGGGTCAACTGGCCCAGGACACCCTTT-ACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCagtaagccagtttggaaaggattccaacatcaaatgatttcatttcacttg Alignment from CESAR agTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACA-GCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGg agaattacctgtacatactcccctccaaaacacattgcttctctctctagagTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---TGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACACGTTGTGGGTCAACTGGCCCAGGACACCCTT-TACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCagtaagccagtttggaaaggattccaacatcaaatcacaagaaaaattgtg Alignment from Spaln_aa2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCTGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACACGTTGTGGGTCAACTGGCCCAGGACACCCTTTACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatgatttcatttcacttg Alignment from Spaln_nt2Genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACA-GCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---TGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACACGTTGTGGGTCAACTGGCCCAGGACACCCT-TTACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatgatttcatttcacttg Alignment from Pairagon AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACA-GCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAG--------------GTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTACCC---TGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACACGTTGTGGGTCA---------------ACTGGCCCAGGACACCCTTTACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatgatttcatttcacttg Alignment from Exonerate_protein2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCTGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACACGTTGTGGGTCAACTGGCCCAGGACACCCTTTACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatgatttcatttcacttg Alignment from Exonerate_coding2genome AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCTGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACACGTTGTGGGTCAACTGGCCCAGGACACCCTTTACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatgatttcatttcacttg Alignment from GeneWise AGTTCTGGAGCTCCTCACTCAACACCAAGGACCAACAGAGGCCTTCGGAAGCCCCACCCATACCCCGGCTGAAGGCTCGCTCCCCTCAAGAGCTGGATCAGGGCACTGGTGCTGCCCTCTGCTTCTTCAACCCCCTCTTCCCCGGGGATCTGGGCCCCACCAAACGAGAGAAATTCAAGAGGAGTTTCAAAGTGCGAGTGTCCACCGAGACCTCCAGCCCTCTGTCTCCACCTGCTGTGCCGCCTCCCCCAGTCCCGGTGCTTCCAGGGACATCTTCCAGCCAAACGGAAAGACTGCCCCCTCGACAGCTGCTGCAGAGGGAGAGCTCAGTGGGATATCGTGTGCCAGGAAGTGCTGCCAGCCCTTGTCTTCCTCCCCTACCTTCCCTTCAGGAGGTGGACTGCTGCTCTCCCAGCAGCTCAGAGGAGGAGGGCTCTTCAGGAAGCCCTACAACCTCCCCACGCCTAAGCCGCCCAAGGCACCGGCGGCCTCTGCTTCGGTCCATGAGTTCTGCTTTCTGCTCTCTGCTGGCACCAGAGAGGCAGGTGGGCCGGGCAGCCACAATGCTAATGCAAAACCGATACACAGCCGTGGGTCAGCTAGTGCAGGACCTACTGACCCAGGTTCGGGCTGGTCCCGAGCCCCGGGAGTTGCAGGGCATCCGCCAGGCCCTAAGTCGGGCCCGGGCCATGCTGAGCGCAGAGCTGGGCCCTGAGAAGCTGCTACCACCAGAGCGGCTGG agaattacctgtacatactcccctccaaaacacattgcttctctctctagAGTGCTGGAGCTCTTCCTTGAATACCAAGGACCAACAGAGACCCCCCGAAGCCTCACCAATACCTCAACTAAAAGCTCGCTCCCCACAGGATCTGGCCCAAGGTTCTGGAGCCGCACTTTGCTTCTTCAACCCACCCTTATCAGGGGATCTAGGGCCAACCAGACGAGAGAAATTCAAGAGGAGTTTGAAAGTGCGAGTGTCTGCTGACACCTCCAGCCCCTTGTCTCTACCTGCTGTACCTCCTCCCCCTGTCCATGTGCTCCCAGGTACATCTTCAAGACAAACTGAACGACTA---CCCTGGCAGCTACAACAGCGAGAAGGCTCAGTTGGGTATCATGTTCCAGGCAGTGCTGCCAGCCCATGTCTTCCTCCATTGCCTTCCCTGCAAGAAGTAGACTGCTGTTCCCCCAGTAGTTCTGAGGAGGAAGGCTCCTCAGGA---CCAACAACCTCGCCATGTCTGAGCCGGCCAAGGCAGCGGCAGCCTCTGCTCAAATCTATGAGTTCTGCTTTCTGTTCTTTGCTTATACCAGAACAGCAGGTTGATTGGGCAGCCACAACACTAATGCAGACCCGATGCACACGTTGTGGGTCAACTGGCCCAGGACACCCTTTACAAGTTCAGGCAGGACCTGAGCCCAGGGAATTCCAGGGCCTCCAAGAGGCACTAAGTCGGGAACAAGCTATGTTAAGTGCGGAGCTGGGGCCAGAAGAACTATTGTTGCCAGAGTGGCTCAgtaagccagtttggaaaggattccaacatcaaatgatttcatttcacttg #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCT-TCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagaaTTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTCTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTC-ACAGCTCCTACGTGCATACTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAggtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCT-TCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagaaTTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTCTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTT-CACAGCTCCTACGTGCATACTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAggtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTCTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCACAGCTCCTACGTGCATACTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCT-TCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTCTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTC-ACAGCTCCTACGTGCATACTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCT-TCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTCTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTC-ACAGCTCCTACGTGCATACTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTCTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCACAGCTCCTACGTGCATACTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTCTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCACAGCTCCTACGTGCATACTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cagtttggaaaggattccaacatcaaatcacaagaaaaattgtgtttcagAATTGGTGCTGGAGAAGTCCCAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTAGCTGCTCGTCTACGCCATCGCCTTTCTACTGATGGTTCTCTTGGGTGTCTAGCAGAGGGCTTTCTCCTCACCCAAACCCAGGGACCTGGGGCCTTTGGGCCCCACTTGACTCTTTCTCTCCCCAGTGGAGACAGAACAGGTTTGTCAGAAACTTCACAGCTCCTACGTGCATACTCGCCAAGCGCACAAGTTGAGTGGCTCCTACAGGCCTGCAAGCTACTGTATACAGCCCTAAAGAGCCAAGCAGgtatcatatcaccaacttccccagggctagtgcacatacacacctttaga #### Rnaseh2c_ID1104_3 --> 0 - 0 Original Alignment GACCGCCTTATCGGGGCCACCGGCAGCTTC-AGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAG-TCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from CESAR GACCGCCTTATCGGGGCCACCGGCAGCTTC-AGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCC-CAGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Spaln_aa2Genome GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Spaln_nt2Genome GACCGCCTTATCGGGGCCACCGGCAGCTT-CAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCC-AGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Pairagon GACCGCCTTATCGGGGCCACCGGCAGCTT-CAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCC-AGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAgtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Exonerate_protein2genome gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtataggaccgccttatcggggccactgggagcttccagccattttaccttgtgggatctggaaacagtcccagtccagatgccatagtgcatagggccctaggatggcccacccttgcggcagcagtaagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from Exonerate_coding2genome GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATT gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAGTAagtagactgaagaaatttgcccccaagggctcataattcctttcacc Alignment from GeneWise GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATTCACGCCCAGGTCCCTGAGGAC gtacaaatgtaaccaactaatgtacaaaatattttcctttctttgtatagGACCGCCTTATCGGGGCCACTGGGAGCTTCCAGCCATTTTACCTTGTGGGATCTGGAAACAGTCCCAGTCCAGATGCCATAGTGCATAGGGCCCTAGGATGGCCCACCCTTGCGGCAGCAGTA---AGTAGACTGAAGAAATTTgcccccaagggctcataattcctttc #### Rom1_ID2497_2 --> 1 - 0 Original Alignment cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAA-CTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgaccacctcagtgttatatcttattgtgtgtgtctgtcatctaaacagtCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCATTCTCCTGCTGTAATCCCCACTCACGA------TGTTTGCAAAGCCAACCTCTCAGACCCCTATGCTCATCCCCTTCTC---C-TCAGCAGCCGAATCTAAACCTGCGGTCCCAGGGATGCCACAAAGTGCTGTTTGAACGCCTGCAAGGATTATCTGGAACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgttggtcaccaaaatcccacgtccctcatcaagatctctaacctctgtag Alignment from CESAR cCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAA-CTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgaccacctcagtgttatatcttattgtgtgtgtctgtcatctaaacagtCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCATTCTCCTGCTGTAATCCCCACTCA---CGA---TGTTTGCAAAGCCAACCTCTCAGACCCCTATGCTCATCCCCTTC-T---CCTCAGCAGCCGAATCTAAACCTGCGGTCCCAGGGATGCCACAAAGTGCTGTTTGAACGCCTGCAAGGATTATCTGGAACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgttggtcaccaaaatcccacgtccctcatcaagatctctaacctctgtag Alignment from Spaln_aa2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgaccacctcagtgttatatcttattgtgtgtgtctgtcatctaaacagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCATTCTCCTGCTGTAATCCCCACTCA------CGATGTTTGCAAAGCCAACCTCTCAGACCCCTATGCTCATCCCCT---TCTCCTCAGCAGCCGAATCTAAACCTGCGGTCCCAGGGATGCCACAAAGTGCTGTTTGAACGCCTGCAAGGATTATCTGGAACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgttggtcaccaaaatcccacgtccctcatcaagatctctaacctctgtag Alignment from Spaln_nt2Genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAAC-TCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgaccacctcagtgttatatcttattgtgtgtgtctgtcatctaaacagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCATTCTCCTGCTGTAATCCCCACTCA------CGATGTTTGCAAAGCCAACCTCTCAGACCCCTATGCTCATC--CCCTTC--TCCTCAGCAGCCGAATCTAAACCTGCGGTCCCAGGGATGCCACAAAGTGCTGTTTGAACGCCTGCAAGGATTATCTGGAACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgttggtcaccaaaatcccacgtccctcatcaagatctctaacctctgtag Alignment from Pairagon CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAA-CTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgaccacctcagtgttatatcttattgtgtgtgtctgtcatctaaacagtcacattcccag------------CAATATAGAAGGATTATACCTGATTGATGGTGTTCCATTCTCCTGCTGTAATCCCCACTCACGA------TGTTTGCAAAGCCAACCTCTCAGACCCCTATGCTCATCCCCTTC----TCCTCAGCAGCCGAATCTAAACCTGCGGTCCCAGGGATGCCACAAAGTGCTGTTTGAACGCCTGCAAGGATTATCTGGAACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgttggtcaccaaaatcccacgtccctcatcaagatctctaacctctgtag Alignment from Exonerate_protein2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgaccacctcagtgttatatcttattgtgtgtgtctgtcatctaaacagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCATTCTCCTGCTGTAATCCCCACTCA------CGATGTTTGCAAAGCCAACCTCTCAGACCCCTATGCTCATCCCCT---TCTCCTCAGCAGCCGAATCTAAACCTGCGGTCCCAGGGATGCCACAAAGTGCTGTTTGAACGCCTGCAAGGATTATCTGGAACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgttggtcaccaaaatcccacgtccctcatcaagatctctaacctctgtag Alignment from Exonerate_coding2genome CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgaccacctcagtgttatatcttattgtgtgtgtctgtcatctaaacagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCATTCTCCTGCTGTAATCCCCACTCA------CGATGTTTGCAAAGCCAACCTCTCAGACCCCTATGCTCATCCCCT---TCTCCTCAGCAGCCGAATCTAAACCTGCGGTCCCAGGGATGCCACAAAGTGCTGTTTGAACGCCTGCAAGGATTATCTGGAACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgttggtcaccaaaatcccacgtccctcatcaagatctctaacctctgtag Alignment from GeneWise CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG ttgaccacctcagtgttatatcttattgtgtgtgtctgtcatctaaacagTCACATTCCCAGCAATATAGAAGGATTATACCTGATTGATGGTGTTCCATTCTCCTGCTGTAATCCCCACTCACGA------TGTTTGCAAAGCCAACCTCTCAGACCCCTATGCTCATCCCCT---TCTCCTCAGCAGCCGAATCTAAACCTGCGGTCCCAGGGATGCCACAAAGTGCTGTTTGAACGCCTGCAAGGATTATCTGGAACATTGGGGACAATTCTGGTGATTACTTTATTGTTGCAGgttggtcaccaaaatcccacgtccctcatcaagatctctaacctctgtag #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTC-TCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag agacagggtcatgccatctggctttactcgtcaggtgcgcttgcccacagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTCTCATTCCAGCCCAAGCTGCGTTCCCCACGATGCC-TAACAGTAGTCCCCGTACACCCATCaggtaagcgaggtcagataattccaaacatgcaccactactcagcagagatg Alignment from CESAR GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGC-TTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCag agacagggtcatgccatctggctttactcgtcaggtgcgcttgcccacagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTCTCATTCCAGCCCAAGCTGCGTTCCCCACGATGCC-TAACAGTAGTCCCCGTACACCCATCaggtaagcgaggtcagataattccaaacatgcaccactactcagcagagatg Alignment from Spaln_aa2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacagggtcatgccatctggctttactcgtcaggtgcgcttgcccacagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTCTCATTCCAGCCCAAGCTGCGTTCCCCACGATGCCTAACAGTAGTCCCCGTACACCCATCAGgtaagcgaggtcagataattccaaacatgcaccactactcagcagagatg Alignment from Spaln_nt2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAG-GGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacagggtcatgccatctggctttactcgtcaggtgcgcttgcccacagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTCTCATTCCAGCCCAAGCTGCGTTCCCCACGATGCC-TAACAGTAGTCCCCGTACACCCATCAGgtaagcgaggtcagataattccaaacatgcaccactactcagcagagatg Alignment from Pairagon GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGG-CTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacagggtcatgccatctggctttactcgtcaggtgcgcttgcccacagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTCTCATTCCAGCCCAAGCTGCGTTCCCCACGATGCC-TAACAGTAGTCCCCGTACACCCATCAGgtaagcgaggtcagataattccaaacatgcaccactactcagcagagatg Alignment from Exonerate_protein2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacagggtcatgccatctggctttactcgtcaggtgcgcttgcccacagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTCTCATTCCAGCCCAAGCTGCGTTCCCCACGATGCCTAACAGTAGTCCCCGTACACCCATCAGgtaagcgaggtcagataattccaaacatgcaccactactcagcagagatg Alignment from Exonerate_coding2genome agacagggtcatgccatctggctttactcgtcaggtgcgcttgcccacagagttttatgtatgtggcaccttttgtcctagacagcatcaaagaaggttttctcattccagcccaagctgcgttccccacgatgcctaacagtagtccccgtacacccatcaggtaagcgaggtcagataattccaaacatgcaccactactcagcagagatg Alignment from GeneWise GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAG agacagggtcatgccatctggctttactcgtcaggtgcgcttgcccacagAGTTTTATGTATGTGGCACCTTTTGTCCTAGACAGCATCAAAGAAGGTTTTCTCATTCCAGCCCAAGCTGCGTTCCCCACGATGCCTAACAGTAGTCCCCGTACACCCATCAGgtaagcgaggtcagataattccaaacatgcaccactactcagcagagatg #### Rps6kb2_ID373_9 --> 1 - 0 Original Alignment gGCCCCAGAGATTCTAGTGCGCACTGGTCAC-AACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccatgcgggactatgactgcctctcctgttctccattgcaggGTGCCGGAGATTCTGTTGCGCACGGGGCATCAATCGGGCAGTGGATTGGTGGAGCCTTGGTGCTC-AATGTATGACATGCTCACTGAATCAgtaagtcccttccactaggtgatattggtattggagtgtaactgcattga Alignment from CESAR gGCCCCAGAGATTCTAGTGCGCACTGGTCAC-AACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccatgcgggactatgactgcctctcctgttctccattgcaggGTGCCGGAGATTCTGTTGCGCACGGGGCATCAATCGGGCAGTGGATTGGTGGAGCCTTGGTGCT-CAATGTATGACATGCTCACTGAATCAgtaagtcccttccactaggtgatattggtattggagtgtaactgcattga Alignment from Spaln_aa2Genome GGCCCCAGAGATTCTAGTGCGCACTGGTCAC-AACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccatgcgggactatgactgcctctcctgttctccattgcagGGTGCCGGAGATTCTGTTGCGCACGGGGCATcAATCGGGCAGTGGATTGGTGGAGCCTTGGTGCTCA-ATGTATGACATGCTCACTGAATCAgtaagtcccttccactaggtgatattggtattggagtgtaactgcattga Alignment from Spaln_nt2Genome GGCCCCAGAGATTCTAGTGCGCACTGGTCA-CAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccatgcgggactatgactgcctctcctgttctccattgcagGGTGCCGGAGATTCTGTTGCGCACGGGGCATCAATCGGGCAGTGGATTGGTGGAGCCTTGGTGCTC-AATGTATGACATGCTCACTGAATCAgtaagtcccttccactaggtgatattggtattggagtgtaactgcattga Alignment from Pairagon GGCCCCAGAGATTCTAGTGCGCACTGGTCA-CAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccatgcgggactatgactgcctctcctgttctccattgcagGGTGCCGGAGATTCTGTTGCGCACGGGGCATCAATCGGGCAGTGGATTGGTGGAGCCTTGGTGCTC-AATGTATGACATGCTCACTGAATCAgtaagtcccttccactaggtgatattggtattggagtgtaactgcattga Alignment from Exonerate_protein2genome GGCCCCAGAGATTCTAGTGCGCACTGGTCAC-AACCGGGCAGTGGACTGGTGGAGCCTGGGAGCC--CTGATGTACGACATGCTCACTGGATCG agggataccccatgcgggactatgactgcctctcctgttctccattgcagGGTGCCGGAGATTCTGTTGCGCACGGGGCATCAATCGGGCAGTGGATTGGTGGAGCCTTGGTGCTCA---ATGTATGACATGCTCACTGAATCAgtaagtcccttccactaggtgatattggtattggagtgtaactgcattga Alignment from Exonerate_coding2genome agggataccccatgcgggactatgactgcctctcctgttctccattgcagggtgccggagattctgttgcgcacggggcatcaatcgggcagtggattggtggagccttggtgctcaatgtatgacatgctcactgaatcagtaagtcccttccactaggtgatattggtattggagtgtaactgcattga Alignment from GeneWise GGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG agggataccccatgcgggactatgactgcctctcctgttctccattgcagGGTGCCGGAGATTCTGTTGCGCACGGGGCATCAATCGGGCAGTGGATTGGTGGAGCCTTGGTGCTCAATGTATGACATGCTCACTGAATCAgtaagtcccttccactaggtgatattggtattggagtgtaactgcattga #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGAT-GAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg gtaggttagggcagggttgcctcctatttttttaatgtctgaaattacagcATCGAGGAAGTTTCAGCTGACTCAAAAGATGAGTTTCGAGGAAGAACAGAGAGGCCGAGGCAAAGAGCAG------TTGGTC------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCGAAAGTAGCACATCGTATCCAGggtaggtatgggtgaggatgcccttcatggctcggggggtcaagggttagg Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGAT-GAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg gtaggttagggcagggttgcctcctatttttttaatgtctgaaattacagcATCGAGGAAGTTTCAGCTGACTCAAAAGATGAGTTTCGAGGAAGAACAGAGAGGCCGAGGCAAAGAGCAG------TTGGTC------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCGAAAGTAGCACATCGTATCCAGggtaggtatgggtgaggatgcccttcatggctcggggggtcaagggttagg Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGAT-GAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaggttagggcagggttgcctcctatttttttaatgtctgaaattacagCATCGAGGAAGTTTCAGCTGACTCAAAAGATGAGTTTcGAGGAAGAACAGAGAGGCCGAGGCAAAGAGCAG------TTGGTC------AGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCGAAAGTAGCACATCGTATCCAGGgtaggtatgggtgaggatgcccttcatggctcggggggtcaagggttagg Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGAT-GAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaggttagggcagggttgcctcctatttttttaatgtctgaaattacagCATCGAGGAAGTTTCAGCTGACTCAAAAGATGAGTTTCGAGGAAGAACAGAGAGGCCGAGGCAAAGAGC------AGTTGG------TCAGGAGCCGATCATG---GAAGGATGGAGGTGG---TGCACCTCTCAATTTC------CCGAAAGTAGCACATCGTATCCAGGgtaggtatgggtgaggatgcccttcatggctcggggggtcaagggttagg Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGAT-GAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaggttagggcagggttgcctcctatttttttaatgtctgaaattacagCATCGAGGAAGTTTCAGCTGACTCAAAAGATGAGTTTCGAGGAAGAACAGAGAGGCCGAGGCAAAGAGCAG-------------------------------------------------------------------------------------------------TTGgtcaggagccgatcatggaaggatggaggtggtgcacctctcaatttcccgaaagtagcacatcgtatccagggtaggtatgggtgaggatgcccttcatggctcggggggtcaagggttagg Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAG-GATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaggttagggcagggttgcctcctatttttttaatgtctgaaattacagCATCGAGGAAGTTTCAGCTGACTCAAAAGATGAGTTTCGAGGAAGAACAGAGAGGCCGAGGCAAAGAGCAG------------TTGGTCAGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCGAAAGTAGCACATCGTATCCAGGgtaggtatgggtgaggatgcccttcatggctcggggggtcaagggttagg Alignment from Exonerate_coding2genome gtaggttagggcagggttgcctcctatttttttaatgtctgaaattacagcatcgaggaagtttcagctgactcaaaagatgagtttcgaggaagaacagagaggccgaggcaaagagcagttggtcaggagccgatcatggaaggatggaggtggtgcacctctcaatttcccgaaagtagcacatcgtatccagggtaggtatgggtgaggatgcccttcatggctcggggggtcaagggttagg Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAG-GATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG gtaggttagggcagggttgcctcctatttttttaatgtctgaaattacagCATCGAGGAAGTTTCAGCTGACTCAAAAGATGAGTTTCGAGGAAGAACAGAGAGGCCGAGGCAAAGAGCAGTTG------------GTCAGGAGCCGATCATGG---AAGGATGGAGGTGGT---GCACCTCTCAATTTC------CCGAAAGTAGCACATCGTATCCAGGgtaggtatgggtgaggatgcccttcatggctcggggggtcaagggttagg #### Rrp12_ID8305_18 --> 2 - 0 Original Alignment agGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGG---CAG-CCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG gatccgctatatgactttcccacctgaccctaggtagtttttcattacagagGCAGACCGGGCTGATGTGAGTTGTTTTGCTACAAACTCATTGCCAATCCTCTTTAACTTATATGGGCAACAACCAAGTTGCAGCTGGGGCGACAGCT---CCCC-TCGTACA---GTCGAG---ATTAAGAGCTACCTCAGTGTAACTGAATCACAGgttagtaatgcgtactgtggagaacttttaggaatatatctatatcaatt Alignment from CESAR agGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAG---CCT-GTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG gatccgctatatgactttcccacctgaccctaggtagtttttcattacagagGCAGACCGGGCTGATGTGAGTTGTTTTGCTACAAACTCATTGCCAATCCTCTTTAACTTATATGGGCAACAACCAAGTTGCAGCTGGG---GCGACAGCTCCC-CTCGTACAGTC---GAG---ATTAAGAGCTACCTCAGTGTAACTGAATCACAGgttagtaatgcgtactgtggagaacttttaggaatatatctatatcaatt Alignment from Spaln_aa2Genome AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG gatccgctatatgactttcccacctgaccctaggtagtttttcattacagAGGCAGACCGGGCTGATGTGAGTTGTTTTGCTACAAACTCATTGCCAATCCTCTTTAACTTATATGGGCAACAACCAAGTTGCAGCTGGGGCGACAGCTCCCCTCGTACAGTC------GAGATTAAGAGCTACCTCAGTGTAACTGAATCACAGgttagtaatgcgtactgtggagaacttttaggaatatatctatatcaatt Alignment from Spaln_nt2Genome AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCT----GTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG gatccgctatatgactttcccacctgaccctaggtagtttttcattacagAGGCAGACCGGGCTGATGTGAGTTGTTTTGCTACAAACTCATTGCCAATCCTCTTTAACTTATATGGGCAACAACCAAGTTGCAGCTGG---GGCGACAGCTCC-CCTCGTACAGTCGAG------ATTAAGAGCTACCTCAGTGTAACTGAATCACAGgttagtaatgcgtactgtggagaacttttaggaatatatctatatcaatt Alignment from Pairagon AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAG----CCTGTTGCAGCTGGAGAGGCGGCAGCCCCTC--------------------GCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG gatccgctatatgactttcccacctgaccctaggtagtttttcattacagAGGCAGACCGGGCTGATGTGAGTTGTTTTGCTACAAACTCATTGCCAATCCTCTTTAACTTATATGGGCAACAACCAAGTTGCAGCTGG---GGCGACAGCTCCCCTCGTACAGTCGAGATTAAGAGC---------------------------TACCTCAGTGTAACTGAATCACAGgttagtaatgcgtactgtggagaacttttaggaatatatctatatcaatt Alignment from Exonerate_protein2genome AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG gatccgctatatgactttcccacctgaccctaggtagtttttcattacagAGGCAGACCGGGCTGATGTGAGTTGTTTTGCTACAAACTCATTGCCAATCCTCTTTAACTTATATGGGCAACAACCAAGTTGCAGCTGGGGCGACAGCTCCCCTCGTACAGTC------GAGATTAAGAGCTACCTCAGTGTAACTGAATCACAGgttagtaatgcgtactgtggagaacttttaggaatatatctatatcaatt Alignment from Exonerate_coding2genome gatccgctatatgactttcccacctgaccctaggtagtttttcattacagaggcagaccgggctgatgtgagttgttttgctacaaactcattgccaatcctctttaacttatatgggcaacaaccaagttgcagctggggcgacagctcccctcgtacagtcgagattaagagctacctcagtgtaactgaatcacaggttagtaatgcgtactgtggagaacttttaggaatatatctatatcaatt Alignment from GeneWise AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG gatccgctatatgactttcccacctgaccctaggtagtttttcattacagAGGCAGACCGGGCTGATGTGAGTTGTTTTGCTACAAACTCATTGCCAATCCTCTTTAACTTATATGGGCAACAACCAAGTTGCAGCTGGGGCGACAGCTCCCCTCGTACAGTC------GAGATTAAGAGCTACCTCAGTGTAACTGAATCACAGgttagtaatgcgtactgtggagaacttttaggaatatatctatatcaatt #### Rrp12_ID8308_15 --> 1 - 1 Original Alignment gGAGACTCTGGAT-TTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg aactgaaacattgactgagctaactacaattttatatccatcccttctaggGAAAATCTGGATCTTT---CAGAGCTGGTTGTTGTCTGTCATCCGGG-TTATGTCCAGGAAACCAGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from CESAR gGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAg aactgaaacattgactgagctaactacaattttatatccatcccttctaggGAAAATCTGGATCTTT--CAGAGCTGGTTGTTGTCTGTCATCCGG-GTTATGTCCAGGAAACCAGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAggtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Spaln_aa2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATCTTTCAGAG---CTGGTTGTTGTCTGTCATCCGGGTTATGTCCAGGAAACCAGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Spaln_nt2Genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATCTTTCA--GAGCTGGTTGTTGTCTGTCATCCGGG-TTATGTCCAGGAAACCAGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Pairagon GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATCTTTCA--GAGCTGGTTGTTGTCTGTCATCCGGG-TTATGTCCAGGAAACCAGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Exonerate_protein2genome GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGATCATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATCTT---TCAGAGCTGGTTGTTGTCTGTCATCCGGGTTATGTCCAGGAAACCAGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from Exonerate_coding2genome aactgaaacattgactgagctaactacaattttatatccatcccttctagggaaaatctggatctttcagagctggttgttgtctgtcatccgggttatgtccaggaaaccaggcttggcttcttcactacctatttcttgcccctagctacaacccttaagagaaaaggtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc Alignment from GeneWise GGAGACTCTGGATTTCCCACGGAGCTGGCTGCTGCCTGTCATCCGGGAT---CATGTTCGGGAAACCAGGCTTGGTTTCTTCACCACTTACTTCTTGCCCTTGGCCACCACTCTTAAGAGAAAAG aactgaaacattgactgagctaactacaattttatatccatcccttctagGGAAAATCTGGATCTT------TCAGAGCTGGTTGTTGTCTGTCATCCGGGTTATGTCCAGGAAACCAGGCTTGGCTTCTTCACTACCTATTTCTTGCCCCTAGCTACAACCCTTAAGAGAAAAGgtagagaggtcttatccttataagatacaggtcacagaagaaatatcagc #### Sart1_ID956_19 --> 0 - 2 Original Alignment CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTG-GCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTC-GATTGTACTCAGTGGCAGTGGTAAGAGCATGAATgcgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from CESAR CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTG-GCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCT-CGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATgcgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Spaln_aa2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Spaln_nt2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTG-GCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACC-TCGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Pairagon CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTG-GCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACC-TCGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCgttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Exonerate_protein2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCGttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from Exonerate_coding2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCGttagtaggtaggagttttcagcttggactggtatgctgaacacaattat Alignment from GeneWise CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCGAACACCATCACCAAA ctgatatgccacaattggcagcattgactaactctttcttcatcttgtagCTTCATAAGAAGATGAGCTCTAGTGATACACCCCTGGGAACAGTGCGCATTGCTCCAGGAGAAGCAGAAGGCCCAAAAGACACCTCGATTGTACTCAGTGGCAGTGGTAAGAGCATGAATGCGTTAGTAGGTAGGAGTtttcagcttggactggtatgctgaacacaattat #### Sart1_ID959_16 --> 2 - 2 Original Alignment gaCTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTG-AAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGat tagcaagggctctctcatgtgcccaagatacttgtcttgttctgttgtaggaTTGCTTGAAACTACAGTGCAAAAGGTTGCCTGGGTTCGAAGCTCCCAACAGGACCTTACCTTCAG-AGTATACTGCATCGGGGATAAGatgtcagttttgccaaaagggggatagcaactgccatgcttttggagattca Alignment from CESAR gaCTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTG-AAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGat tagcaagggctctctcatgtgcccaagatacttgtcttgttctgttgtaggaTTGCTTGAAACTACAGTGCAAAAGGTTGCCTGGGTTCGAAGCTCCCAACAGGACCTTACCTTCA-GAGTATACTGCATCGGGGATAAGatgtcagttttgccaaaagggggatagcaactgccatgcttttggagattca Alignment from Spaln_aa2Genome GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT tagcaagggctctctcatgtgcccaagatacttgtcttgttctgttgtagGATTGCTTGAAACTACAGTGCAAAAGGTTGCCTGGGTTCGAAGCTCCCAACAGGACCTTACCTTCAGAGTATACTGCATCGGGGATAAGATgtcagttttgccaaaagggggatagcaactgccatgcttttggagattca Alignment from Spaln_nt2Genome GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGA-AGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT tagcaagggctctctcatgtgcccaagatacttgtcttgttctgttgtagGATTGCTTGAAACTACAGTGCAAAAGGTTGCCTGGGTTCGAAGCTCCCAACAGGACCTTACCTTCAG-AGTATACTGCATCGGGGATAAGATgtcagttttgccaaaagggggatagcaactgccatgcttttggagattca Alignment from Pairagon GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGT--GAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT tagcaagggctctctcatgtgcccaagatacttgtcttgttctgttgtagGATTGCTTGAAACTACAGTGCAAAAGGTTGCCTGGGTTCGAA-GCTCCCAACAGGACCTTACCTTCAG-AGTATACTGCATCGGGGATAAGATgtcagttttgccaaaagggggatagcaactgccatgcttttggagattca Alignment from Exonerate_protein2genome GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT tagcaagggctctctcatgtgcccaagatacttgtcttgttctgttgtagGATTGCTTGAAACTACAGTGCAAAAGGTTGCCTGGGTTCGAAGCTCCCAACAGGACCTTACCTTCAGAGTATACTGCATCGGGGATAAGATgtcagttttgccaaaagggggatagcaactgccatgcttttggagattca Alignment from Exonerate_coding2genome GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT tagcaagggctctctcatgtgcccaagatacttgtcttgttctgttgtagGATTGCTTGAAACTACAGTGCAAAAGGTTGCCTGGGTTCGAAGCTCCCAACAGGACCTTACCTTCAGAGTATACTGCATCGGGGATAAGATgtcagttttgccaaaagggggatagcaactgccatgcttttggagattca Alignment from GeneWise GACTGCTGGAGACCACAGTACAAAAGGTGGCCCGGGTGAAGGCTCCCAATAAGTCACTGCCCTCAGCAGTGTACTGCATCGAGGATAAGAT tagcaagggctctctcatgtgcccaagatacttgtcttgttctgttgtagGATTGCTTGAAACTACAGTGCAAAAGGTTGCCTGGGTTCGAAGCTCCCAACAGGACCTTACCTTCAGAGTATACTGCATCGGGGATAAGATgtcagttttgccaaaagggggatagcaactgccatgcttttggagattca #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAA-CTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACC-AAAGAGGAGGGGAACATCAGTTTTCAATGCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from CESAR GTGCTGGAGATTGTGAAGAAA-CTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGG-ACCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAAC-TGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATC-GTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGA-CCAAAGAGG-AGGGGAACATCAGTTTTCAATGCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Pairagon GTGCTGGAGATTGTGAAGAAA-CTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGA---------AGGGGACCATC-GTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCCTAGAGTCCCATCAGCATGGTTGGGAGGAGG-----------GAGAGGACCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from Exonerate_coding2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ctgataccatttccctactgcctataactgtcattattattcctttctagGTGCTGGAAATTGTGAAGAAGCCTAGAGTCCCATCAGCATGGTTGGGAGGAGGGAGAGGACCAAAGAGGAGGGGAACATCAGTTTTCAATGCCCCATCAGAATTTTGCTGTATACTAGGGGAGTCCCCCACATACGAGTTAGTAGGTAACCGTGAAGGGCAGGAGGAGCTGATGgtgagtcaattgattcttagatcaatcaattcttatagctttcaatgtaa #### Sart1_ID963_12 --> 2 - 0 Original Alignment agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAG-CTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ggtctaacacatgcttgagtatcacgaaaccttctcttttgtctatgcagaaGATGGTGGGGCTCTTCCACCAGGAGCACCAGATGGACTGGACGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCCTAGAAAAGGGCCGTCGGCTGCGGCAGCTCC-GCAGTTACAGCAGCTAAGGGACAGTGGGGAGAAAgtgagtcactaaagcagttacaatgagaggactgtgcactgttgtaacaa Alignment from CESAR agGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAG-CTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ggtctaacacatgcttgagtatcacgaaaccttctcttttgtctatgcagaaGATGGTGGGGCTCTTCCACCAGGAGCACCAGATGGACTGGACGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCCTAGAAAAGGGCCGTCGGCTGCGGCAGCTC-CGCAGTTACAGCAGCTAAGGGACAGTGGGGAGAAAgtgagtcactaaagcagttacaatgagaggactgtgcactgttgtaacaa Alignment from Spaln_aa2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ggtctaacacatgcttgagtatcacgaaaccttctcttttgtctatgcagAAGATGGTGGGGCTCTTCCACCAGGAGCACCAGATGGACTGGACGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCCTAGAAAAGGGCCGTCGGCTGCGGCAGCTCCGCAGTTACAGCAGCTAAGGGACAGTGGGGAGAAAgtgagtcactaaagcagttacaatgagaggactgtgcactgttgtaacaa Alignment from Spaln_nt2Genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGC-TGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ggtctaacacatgcttgagtatcacgaaaccttctcttttgtctatgcagAAGATGGTGGGGCTCTTCCACCAGGAGCACCAGATGGACTGGACGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCCTAGAAAAGGGCCGTCGGCTGCGGCAGCT-CCGCAGTTACAGCAGCTAAGGGACAGTGGGGAGAAAgtgagtcactaaagcagttacaatgagaggactgtgcactgttgtaacaa Alignment from Pairagon AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAG-CTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ggtctaacacatgcttgagtatcacgaaaccttctcttttgtctatgcagAAGATGGTGGGGCTCTTCCACCAGGAGCACCAGATGGACTGGACGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCCTAGAAAAGGGCCGTCGGCTGCGGCAGCT-CCGCAGTTACAGCAGCTAAGGGACAGTGGGGAGAAAgtgagtcactaaagcagttacaatgagaggactgtgcactgttgtaacaa Alignment from Exonerate_protein2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ggtctaacacatgcttgagtatcacgaaaccttctcttttgtctatgcagAAGATGGTGGGGCTCTTCCACCAGGAGCACCAGATGGACTGGACGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCCTAGAAAAGGGCCGTCGGCTGCGGCAGCTCCGCAGTTACAGCAGCTAAGGGACAGTGGGGAGAAAgtgagtcactaaagcagttacaatgagaggactgtgcactgttgtaacaa Alignment from Exonerate_coding2genome AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ggtctaacacatgcttgagtatcacgaaaccttctcttttgtctatgcagAAGATGGTGGGGCTCTTCCACCAGGAGCACCAGATGGACTGGACGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCCTAGAAAAGGGCCGTCGGCTGCGGCAGCTCCGCAGTTACAGCAGCTAAGGGACAGTGGGGAGAAAgtgagtcactaaagcagttacaatgagaggactgtgcactgttgtaacaa Alignment from GeneWise AGGATGGGGGAGCTCTTCCGCCAGGGTCCCCAGAGGGGCTGGAGGAAGACGAGGCAGAGCTGGAGCTGCAGAAGCAGCTGGAGAAGGGGCGCCGGCTGCGGCAGCTGCAGCAACTGCAGCAGCTCCGAGACAGTGGTGAGAAG ggtctaacacatgcttgagtatcacgaaaccttctcttttgtctatgcagAAGATGGTGGGGCTCTTCCACCAGGAGCACCAGATGGACTGGACGAAGATGAGGCAGAACTGGAATTACAAAAGCAGCCTAGAAAAGGGCCGTCGGCTGCGGCAGCTCCGCAGTTACAGCAGCTAAGGGACAGTGGGGAGAAAgtgagtcactaaagcagttacaatgagaggactgtgcactgttgtaacaa #### Sart1_ID964_11 --> 1 - 1 Original Alignment gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAG---GCCCTTGAGGATGAG-GAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACT---------CGAGTAGAGAACATGGACATCAGTGATGAAg agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagaCTTCAGGGACAGGGAAGGCATCAAGTTACC------AAGGAGGAGACAACACTTGAAGATGAGCGGGAAGGATCTCGTTGCCAAGCCACCTCCATCGGATG-CACTCGAGTCATTCAAGTC------ATGGACATCAGTGATGAAggtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from CESAR gCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAG-GAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAg agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagaCTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGCGGGAAGGATCTCGTTGCCAAGCCACCTCCATCGGAT-GCACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAggtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Spaln_aa2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGCGGGAAGGATCTCGTTGCCAAGCCACCTCCATCGGATGCACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Spaln_nt2Genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAG-GAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGT-AGAGAA--CATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAA---GGAGGAGACAACACTTGAAGATGAGCGGGAAGGATCTCGTTGCCAAGCCACCTCCATCGGATG-CACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Pairagon GGACTTTGGATCCAGGCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGG------------------AGGAGG------CCCTTGAGGATGAG-GAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGT------AGAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagacttcagGGAC-------------------------------------------------AGGGAAGGCATCAAGTTACCAAGGAGGAGACAACACTTGAAGATGAGCGGGAAGGATCTCGTTGCCAAGCCACCTCCATCGGATG-CACTCGAGTCATTCAAG---TCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Exonerate_protein2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAG-AAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGA--GTAGAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGCGGGAAGGATCTCGTTGCCAAGCCACCTCCATCGGATGCACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from Exonerate_coding2genome GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAG-AAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGA--GTAGAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGCGGGAAGGATCTCGTTGCCAAGCCACCTCCATCGGATGCACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa Alignment from GeneWise GCTCCGGGGCCGGGGTCGGCGCCGAGTTCCTGAGGTGGAGGAGGAGGCCCTTGAGGATGAGGAGAAGGACCCTGTGGCCCAGCCGCCACCATCGGATGACACTCGAGTA---GAGAACATGGACATCAGTGATGAAG agatggagaaattcaaaggacatagtttaagaagtgcttttctgttttagACTTCAGGGACAGGGAAGGCATCAAGTTACCAAG---GAGGAGACAACACTTGAAGATGAGCGGGAAGGATCTCGTTGCCAAGCCACCTCCATCGGATGCACTCGAGTCATTCAAGTCATGGACATCAGTGATGAAGgtatgttattgctgagtggggatccatggtgaatctgcaggcaggtctaa #### Sart1_ID965_10 --> 0 - 2 Original Alignment GTGACCTTCAAGAAGACCAAACGG-AGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCag aggggatgctagcaacttgggaggctcgggacacggcccgtctcttccagGTGACCTTCAAAAAGTCCAAGTGGCAGGGTCAAAAAAACCAGGAAGAAGGAGCAAG-GGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTCGGGTCAaggtaaggacaagcgtggtaagcacaagatggagaaattcaaaggacatagt Alignment from CESAR GTGACCTTCAAGAAGACCAAACGG-AGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCag aggggatgctagcaacttgggaggctcgggacacggcccgtctcttccagGTGACCTTCAAAAAGTCCAAGTGGCAGGGTCAAAAAAACCAGGAAGAAGGAGCAA-GGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTCGGGTCAaggtaaggacaagcgtggtaagcacaagatggagaaattcaaaggacatagt Alignment from Spaln_aa2Genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctagcaacttgggaggctcgggacacggcccgtctcttccagGTGACCTTCAAAAAGTCCAAGTGGCAGGGTCAAAAAAACCAGGAAGAAGGAGCAAGGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTCGGGTCAAGgtaaggacaagcgtggtaagcacaagatggagaaattcaaaggacatagt Alignment from Spaln_nt2Genome GTGACCTTCAAGAAGACCAAACGG-AGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctagcaacttgggaggctcgggacacggcccgtctcttccagGTGACCTTCAAAAAGTCCAAGTGGCAGGGTCAAAAAAACCAGGAAGAAGGAGCAAG-GGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTCGGGTCAAGgtaaggacaagcgtggtaagcacaagatggagaaattcaaaggacatagt Alignment from Pairagon GTGACCTTCAAGAAGACCAAACGG-AGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGG aggggatgctagcaacttgggaggctcgggacacggcccgtctcttccagGTGACCTTCAAAAAGTCCAAGTGGCAGGGTCAAAAAAACCAGGAAGAAGGAGCAAG-GGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGgttcgggtcaaggtaaggacaagcgtggtaagcacaagatggagaaattcaaaggacatagt Alignment from Exonerate_protein2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctagcaacttgggaggctcgggacacggcccgtctcttccagGTGACCTTCAAAAAGTCCAAGTGGCAGGGTCAAAAAAACCAGGAAGAAGGAGCAAGGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTCGGGTCAAGgtaaggacaagcgtggtaagcacaagatggagaaattcaaaggacatagt Alignment from Exonerate_coding2genome GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctagcaacttgggaggctcgggacacggcccgtctcttccagGTGACCTTCAAAAAGTCCAAGTGGCAGGGTCAAAAAAACCAGGAAGAAGGAGCAAGGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTCGGGTCAAGgtaaggacaagcgtggtaagcacaagatggagaaattcaaaggacatagt Alignment from GeneWise GTGACCTTCAAGAAGACCAAACGGAGAGTGAAGAAAATCCGAAAGAAGGAGAAGGAGGTGATAATGCGGGCAGATGACTTGCTGCCCCTGGGCGACCAGACTCAGGATGGGGACTTTGGATCCAG aggggatgctagcaacttgggaggctcgggacacggcccgtctcttccagGTGACCTTCAAAAAGTCCAAGTGGCAGGGTCAAAAAAACCAGGAAGAAGGAGCAAGGGTGATAATGCAGGCTGATGATTTACTGCCTCTGGGAGATCAGACACAGGATGGG---TTCGGGTCAAGgtaaggacaagcgtggtaagcacaagatggagaaattcaaaggacatagt #### Sart1_ID966_9 --> 0 - 0 Original Alignment ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAG-GCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCACTAAGTTTAATGGGTCCCAGACTTA-TACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from CESAR ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTG-CAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtatgcgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCACTAAGTTTAATGGGTCCCAGACTT-ATACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Spaln_aa2Genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCACTAAGTTTAATGGGTCCCAGACTTATACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Spaln_nt2Genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGC-AGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCACTAAGTTTAATGGGTCCCAGACTT-ATACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Pairagon ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGA--------------------------------------------GTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACT--------------------------------------------ACCACGCCCAATCACTAAGTTTAATGGGTCCCAGACTTATACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Exonerate_protein2genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCACTAAGTTTAATGGGTCCCAGACTTATACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from Exonerate_coding2genome ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCACTAAGTTTAATGGGTCCCAGACTTATACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc Alignment from GeneWise ACAG CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG ACAGgtgagtgtaatcagtctgtgagaacactctccccctttcttcctagCGGAGACCTTGTTCTATTCTAGCTAAGTATGATGAGGAATTAGGCAGTGAGCGTCCACATTCCTGCCGTCTTAAGCATGGTGGTATGGCTGATGGTCTACGGGAGAAAGAGTTAGAAGAAATTCGCACTAAGCTTCGACTACCACGCCCAATCACTAAGTTTAATGGGTCCCAGACTTATACCCAGTATCTTAGTCCTGAAGAGATGgtgagtcggtaggttatggtcatcaatacagtcctgtttacacttacacc #### Sart1_ID968_7 --> 0 - 1 Original Alignment GACCTGTACAGT-GCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAg agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTCGCCCGCGACCTGCAGGGCCTCACTGTGGAACGTGCTA-TGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAggtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from CESAR GACCTGTACAGT-GCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAg agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTCGCCCGCGACCTGCAGGGCCTCACTGTGGAACGTGCTA-TGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAggtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Spaln_aa2Genome GACCTGTACAGT-GCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTcGCCCGCGACCTGCAGGGCCTCACTGTGGAACGTGCTAT-GATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Spaln_nt2Genome GACCTGTACAGT-GCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTCGCCCGCGACCTGCAGGGCCTCACTGTGGAACGTGCTAT-GATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Pairagon GACCTGTACAGT-GCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTCGCCCGCGACCTGCAGGGCCTCACTGTGGAACGTGCTAT-GATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Exonerate_protein2genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTCGCCCGCGACCTGCAGGGCCTCACTGTGGAACGTGCTATGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from Exonerate_coding2genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTCGCCCGCGACCTGCAGGGCCTCACTGTGGAACGTGCTATGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt Alignment from GeneWise GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG agagaactagcttttgttcttatttcgacatgtccttctccttctactagGACCTGTACAGTCGCCCGCGACCTGCAGGGCCTCACTGTGGAACGTGCTATGATTCTTTTCAAGAGGGGGAGACTGTGGTTGTCACCCTCAAAGACAAAGgtgggcggtatctgggagtggcttgattgggtagcctgtggctaaagatt #### Sart1_ID969_6 --> 0 - 0 Original Alignment GCTAAGCTACTA-GAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG atctatctattaagtcccaaaccttttctgttccatcttttgtcctacagGCTAAGCTGTTGCGAGGAAATGGGTCAAAAGTATGGTGTGAGCACAT-AGTTGAGGAAGAGTTTGAGCAAAAGCGACAGgtatcaatccaatttcaggaatgacaattcccaagttgagtatcacaatt Alignment from CESAR GCTAAGCTACTA-GAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG atctatctattaagtcccaaaccttttctgttccatcttttgtcctacagGCTAAGCTGTTGCGAGGAAATGGGTCAAAAGTATGGTGTGAGCA-CATAGTTGAGGAAGAGTTTGAGCAAAAGCGACAGgtatcaatccaatttcaggaatgacaattcccaagttgagtatcacaatt Alignment from Spaln_aa2Genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG atctatctattaagtcccaaaccttttctgttccatcttttgtcctacagGCTAAGCTGTTGCGAGGAAATGGGTCAAAAGTATGGTGTGAGCACATAGTTGAGGAAGAGTTTGAGCAAAAGCGACAGgtatcaatccaatttcaggaatgacaattcccaagttgagtatcacaatt Alignment from Spaln_nt2Genome GCTAAGCTACTA-GAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG atctatctattaagtcccaaaccttttctgttccatcttttgtcctacagGCTAAGCTGTTGCGAGGAAATGGGTCAAAAGTATGGTGTGAGCAC-ATAGTTGAGGAAGAGTTTGAGCAAAAGCGACAGgtatcaatccaatttcaggaatgacaattcccaagttgagtatcacaatt Alignment from Pairagon GCTAAGCTACTA-GAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG atctatctattaagtcccaaaccttttctgttccatcttttgtcctacagGCTAAGCTGTTGCGAGGAAATGGGTCAAAAGTATGGTGTGAGCAC-ATAGTTGAGGAAGAGTTTGAGCAAAAGCGACAGgtatcaatccaatttcaggaatgacaattcccaagttgagtatcacaatt Alignment from Exonerate_protein2genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG atctatctattaagtcccaaaccttttctgttccatcttttgtcctacagGCTAAGCTGTTGCGAGGAAATGGGTCAAAAGTATGGTGTGAGCACATAGTTGAGGAAGAGTTTGAGCAAAAGCGACAGgtatcaatccaatttcaggaatgacaattcccaagttgagtatcacaatt Alignment from Exonerate_coding2genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG atctatctattaagtcccaaaccttttctgttccatcttttgtcctacagGCTAAGCTGTTGCGAGGAAATGGGTCAAAAGTATGGTGTGAGCACATAGTTGAGGAAGAGTTTGAGCAAAAGCGACAGgtatcaatccaatttcaggaatgacaattcccaagttgagtatcacaatt Alignment from GeneWise GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG atctatctattaagtcccaaaccttttctgttccatcttttgtcctacagGCTAAGCTGTTGCGAGGAAATGGGTCAAAAGTATGGTGTGAGCACATAGTTGAGGAAGAGTTTGAGCAAAAGCGACAGgtatcaatccaatttcaggaatgacaattcccaagttgagtatcacaatt #### Sart1_ID970_5 --> 1 - 0 Original Alignment gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagtAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGCATGGATAGAGAGGAGC------CTACAGA-AGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from CESAR gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagtAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGCATGGATAGAGAGGAGC------CTACAGA-AGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Spaln_aa2Genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGcGACGATACAGCAGCATGGATAGAGAGGAGCCTACAGAA-------GAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Spaln_nt2Genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGCATGGATAGAGAGGAGC------CTACAG-AAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Pairagon ---------------------------------------------------AAAATAAAGACACTGGGGGAGGATGACCCCTGGCTG-GATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG TCTTCACATGCCCACAGTTCTGGAAGACGCCACTTTCATTTGTTCTCTAGTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGCATGGATAGAGAGGAGCCTACAG-------AAGAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Exonerate_protein2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGC---ATGGATAGAGAGGAGCCTACAGAA---GAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from Exonerate_coding2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGC---ATGGATAGAGAGGAGCCTACAGAA---GAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt Alignment from GeneWise -AAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG tcttcacatgcccacagttctggaagacgccactttcatttgttctctagTAAAGTTAAAACTCTGGGAGAAGATGACCCCTGGCTGCGACGATACAGCAGC---ATGGATAGAGAGGAGCCTACAGAA---GAGAAGGATTTGGCAAAAAAGAGGgtaaagacaaatgggtatttaaaatctatctattaagtcccaaacctttt #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCC-CTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG aagctgaggcgctatgactacttagaaaaccctctctctgcctgtgtcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTCCGTAGTCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCACTTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCC-CAGAGAGTGTAGCTTGCAAgtaaggcaaagtctgcacttgccctaatcaaggcgatccgatatctctta Alignment from CESAR CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTA-GTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG aagctgaggcgctatgactacttagaaaaccctctctctgcctgtgtcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTCCGTAGTCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCACTTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCC-CAGAGAGTGTAGCTTGCAAgtaaggcaaagtctgcacttgccctaatcaaggcgatccgatatctctta Alignment from Spaln_aa2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCC-CTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG aagctgaggcgctatgactacttagaaaaccctctctctgcctgtgtcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTCCGTAGTCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCAcTTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGC-CCCAGAGAGTGTAGCTTGCAAgtaaggcaaagtctgcacttgccctaatcaaggcgatccgatatctctta Alignment from Spaln_nt2Genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCT-AGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG aagctgaggcgctatgactacttagaaaaccctctctctgcctgtgtcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTCCGTAGTCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCACTTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCC-AGAGAGTGTAGCTTGCAAgtaaggcaaagtctgcacttgccctaatcaaggcgatccgatatctctta Alignment from Pairagon CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCC-CCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG aagctgaggcgctatgactacttagaaaaccctctctctgcctgtgtcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTCCGTAGTCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCACTTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCC-AGAGAGTGTAGCTTGCAAgtaaggcaaagtctgcacttgccctaatcaaggcgatccgatatctctta Alignment from Exonerate_protein2genome CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG aagctgaggcgctatgactacttagaaaaccctctctctgcctgtgtcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTCCGTAGTCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCACTTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCAGAGAGTGTAGCTTGCAAgtaaggcaaagtctgcacttgccctaatcaaggcgatccgatatctctta Alignment from Exonerate_coding2genome aagctgaggcgctatgactacttagaaaaccctctctctgcctgtgtcagctgcctgaagcattcatgacgcctgcaccgactacagccccactccgtagtcctggaccggattcacaacaagccttgcttccaaaaccacttagtctccagtgcaatcttaccccctcctggagccccagagagtgtagcttgcaagtaaggcaaagtctgcacttgccctaatcaaggcgatccgatatctctta Alignment from GeneWise CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG aagctgaggcgctatgactacttagaaaaccctctctctgcctgtgtcagCTGCCTGAAGCATTCATGACGCCTGCACCGACTACAGCCCCACTCCGTAGTCCTGGACCGGATTCACAACAAGCCTTGCTTCCAAAACCACTTAGTCTCCAGTGCAATCTTACCCCCTCCTGGAGCCCCAGAGAGTGTAGCTTGCAAgtaaggcaaagtctgcacttgccctaatcaaggcgatccgatatctctta #### Sec31b_ID9038_14 --> 2 - 0 Original Alignment acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagtattcactgagcaagtgaccttctctcttctgtccctagatACTGATGGGCTACTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAACGAGCGGTTTTCAGATGCTGTTATTTTAGCTCAT---GGGG-TGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaaggactgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from CESAR acACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagtattcactgagcaagtgaccttctctcttctgtccctagatACTGATGGGCTACTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAACGAGCGGTTTTCAGATGCTGTTATTTTAGCTCAT---GGG-GTGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaaggactgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Spaln_aa2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagtattcactgagcaagtgaccttctctcttctgtccctagATACTGATGGGCTACTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAAcGAGCGGTTTTCAGATGCTGTTATTTTAGCTCATGGGGT----GCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaaggactgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Spaln_nt2Genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagtattcactgagcaagtgaccttctctcttctgtccctagATACTGATGGGCTACTAAGCC---CTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAACGAGCGGTTTTCAGATGCTGTTATTTTAGCTCA---TGGGG-TGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaaggactgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Pairagon ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAG-GAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagtattcactgagcaagtgaccttctctcttctgtccctagATACTGATGGGCTACTAAGCC---CTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAACGAGCGGTTTTCAGATGCTGTTATTTTAGCTCA----TGGGGTGCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaaggactgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Exonerate_protein2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagtattcactgagcaagtgaccttctctcttctgtccctagATACTGATGGGCTACTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAACGAGCGGTTTTCAGATGCTGTTATTTTAGCTCATGGGGT---GCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaaggactgttgtccataattgtgttgctcacagccatgtcattcaaca Alignment from Exonerate_coding2genome ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCGCTTCTAGCCTGTGTT atacagtaaagtattcactgagcaagtgaccttctctcttctgtccctagATACTGATGGGCTACTAAGC---CCTTTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAACGAGCGGTTTTCAGATGCTGTTATTTTAGCTCATGGGGT---GCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTGTAAGGACTGTTGTCcataattgtgttgctcacagccatgtcattcaaca Alignment from GeneWise ACACTGATGGACTCCTGAGCCAGGCTCTGCTGCTCGGGGAACTGCGGTCTGCTGTGGAGCTGTGTTTGAAGGAGGAACGCTTTGCTGATGCCATCATCCTGGCTCAGGCTGGGGATGCAGAGCTGCTCAAGTGGACACAAGAACGCTACCTAGCCAAGAGGAGAACCAAAACCTCCTCG atacagtaaagtattcactgagcaagtgaccttctctcttctgtccctagATACTGATGGGCTACTAAGCCCT---TTGTTAATTGGGGAACTGCACTCTGCTGTAGATTTGTGTTTGAAGGAACGAGCGGTTTTCAGATGCTGTTATTTTAGCTCATGGGGT---GCAGAGTGGCTTAAGTGGACCCAAGAGCATTATCTGGCCAAGAGGAGAACAAAAACATCCTCTgtaaggactgttgtccataattgtgttgctcacagccatgtcattcaaca #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTAT-GACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccaggAAAACACTGGAGGCGTCAGAGATATGCCGGCATCGATTTGGCAGAGATTCATGCTGTTTTC---AGTCCCT-TATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTAT-GACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccaggAAAACACTGGAGGCGTCAGAGATATGCCGGCATCGATTTGGCAGAGATTCATGCTGTTTTC---AGTC-CCTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATCGATTTGGCAGAGATTCATGCTGTTTTCAG---TCCCTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Spaln_nt2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTAT-GACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATCGATTTGGCAGAGATTCATGCTGTTTT--CAGTCCC--TTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTAT-GACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATCGATTTGGCAGAGATTCATGCTGTTTT--CAGTCCC--TTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Exonerate_protein2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATCGATTTGGCAGAGATTCATGCTGTTTTCAGTCC---CTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from Exonerate_coding2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATCGATTTGGCAGAGATTCATGCTGTTTTCAGTCC---CTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt Alignment from GeneWise GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG agagagaagtggataagttcattggtgtaatggccccgtgtctctgccagGAAAACACTGGAGGCGTCAGAGATATGCCGGCATCGATTTGGCAGAGATTCATGCTGTTTTCAGTCC---CTTATGGAGTACCAGGATGGTGCCCGCTGCTGGGGGTGTTATGGGGGTGGAGTACATCAACCCCAACCAGGCTTAgtaagtacctaaaatttggagcacactatgtgaaaacatagtaacagggt #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAAT-GTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAACTCC---CAAGATTTGCCTTCACTTGTCCTTGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATCGTACGCTACACACATGTCACAGGTACACACG-CAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAggtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from CESAR TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAAT-GTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAg actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATCGTACGCTACACACATGTCACAGGTACACAC-GCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAggtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Spaln_aa2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAACTCCCAAGATTTGCCTTCACTTGTCCTTGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATCGTACGCTACACACATGTCACAGGTACACACGCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Spaln_nt2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCC---TGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAAT-GTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATCGTACGCTACACACATGTCACAGGTACACACG-CAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Pairagon TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAAT-GTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATCGTACGCTACACACATGTCACAGGTACACACG-CAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Exonerate_protein2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAAT-GTACGCTACACACATCTCACAGGAACACAC--GTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATCGTACGCTACACACATGTCACAGGTACACACGC---AGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from Exonerate_coding2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAAT-GTACGCTACACACATCTCACAGGAACACAC--GTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAATCGTACGCTACACACATGTCACAGGTACACACGC---AGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga Alignment from GeneWise TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCAT---CCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTC---AGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG actatgtgaaaacatagtaacagggtccttgcttccctctatttccacagTGCATCTCTGATTCTCTGCGGAGCGAAGGATACAAC---TCCCAAGATTTGCCTTCACTTGTCCTTGATTCTGTGAAGCTACATCCACCACTGACGGCTCATCCTGTAGTTCCCACACGGGGGCAGCCCCTACTGCTGAAGCACAAT---CGTACGCTACACACATGTCACAGGTACACACGCAGTCCACCTGCAGGACCTACCTACGAGTTGCTATTTCTAGGCACAGgtgagctaaccccaccctgcacctgcctccacctagtggggatacaatga #### Sema4g_ID9253_11 --> 2 - 0 Original Alignment ctGATGGCTGGATCCAC-AAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acccagctatgttgaaccaccagagtccatgctgcccttttgtccctcagcaGATGGCTGGAATCATCAAAGCTATAGTCCAAGGCTCTGGCATGCACA-CATTGAAGAGATACAGGTGGTCAGAGAGCCCCAGTCAGTAGACAATTTACTTATCTCACCAATGCAAgtaaagtattgttactatggtaaggagccccgcttatttaccaatgacat Alignment from CESAR ctGATGGCTGG-ATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acccagctatgttgaaccaccagagtccatgctgcccttttgtccctcagcaGATGGCTGGAATCATCAAAGCTATAGTCCAAGGCTCTGGCATGCACA-CATTGAAGAGATACAGGTGGTCAGAGAGCCCCAGTCAGTAGACAATTTACTTATCTCACCAATGCAAgtaaagtattgttactatggtaaggagccccgcttatttaccaatgacat Alignment from Spaln_aa2Genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acccagctatgttgaaccaccagagtccatgctgcccttttgtccctcagCAGATGGCTGGAATCATCAAAGCTATAGTCCAAGGCTCTGGCATGCACACATTGAAGAGATACAGGTGGTCAGAGAGCCCCAGTCAGTAGACAATTTACTTATCTCACCAATGCAAgtaaagtattgttactatggtaaggagccccgcttatttaccaatgacat Alignment from Spaln_nt2Genome CTGATGGCTGGATCCA-CAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acccagctatgttgaaccaccagagtccatgctgcccttttgtccctcagCAGATGGCTGGAATCATCAAAGCTATAGTCCAAGGCTCTGGCATGCACA-CATTGAAGAGATACAGGTGGTCAGAGAGCCCCAGTCAGTAGACAATTTACTTATCTCACCAATGCAAgtaaagtattgttactatggtaaggagccccgcttatttaccaatgacat Alignment from Pairagon CTGATGGCTGGATCCA-CAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acccagctatgttgaaccaccagagtccatgctgcccttttgtccctcagCAGATGGCTGGAATCATCAAAGCTATAGTCCAAGGCTCTGGCATGCACAC-ATTGAAGAGATACAGGTGGTCAGAGAGCCCCAGTCAGTAGACAATTTACTTATCTCACCAATGCAAgtaaagtattgttactatggtaaggagccccgcttatttaccaatgacat Alignment from Exonerate_protein2genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acccagctatgttgaaccaccagagtccatgctgcccttttgtccctcagCAGATGGCTGGAATCATCAAAGCTATAGTCCAAGGCTCTGGCATGCACACATTGAAGAGATACAGGTGGTCAGAGAGCCCCAGTCAGTAGACAATTTACTTATCTCACCAATGCAAgtaaagtattgttactatggtaaggagccccgcttatttaccaatgacat Alignment from Exonerate_coding2genome CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acccagctatgttgaaccaccagagtccatgctgcccttttgtccctcagCAGATGGCTGGAATCATCAAAGCTATAGTCCAAGGCTCTGGCATGCACACATTGAAGAGATACAGGTGGTCAGAGAGCCCCAGTCAGTAGACAATTTACTTATCTCACCAATGCAAgtaaagtattgttactatggtaaggagccccgcttatttaccaatgacat Alignment from GeneWise CTGATGGCTGGATCCACAAGGCCGTAGTCCTGGGCTCTGGGATGCACATAATTGAAGAGATACAAGTGTTCAGGGAGCCCCAGTCTGTGGACAATCTAGTTATCTCACCAATGCAG acccagctatgttgaaccaccagagtccatgctgcccttttgtccctcagCAGATGGCTGGAATCATCAAAGCTATAGTCCAAGGCTCTGGCATGCACACATTGAAGAGATACAGGTGGTCAGAGAGCCCCAGTCAGTAGACAATTTACTTATCTCACCAATGCAAgtaaagtattgttactatggtaaggagccccgcttatttaccaatgacat #### Sf1_ID1669_10 --> 0 - 1 Original Alignment TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGG-CATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg ggctcggacattgtctatgctaaactagcctcgttctgcttcctttgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGTATGAATTCTGGTCCATCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCCGGTGGGCCTGGTGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCCCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCAC-ACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGggtatgaaaccaagagcatttgcttgggcaaatgtcagacatcccaaggtg Alignment from CESAR TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGG-CATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg ggctcggacattgtctatgctaaactagcctcgttctgcttcctttgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGTATGAATTCTGGTCCATCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCCGGTGGGCCTGGTGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCCCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCA-CACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGggtatgaaaccaagagcatttgcttgggcaaatgtcagacatcccaaggtg Alignment from Spaln_aa2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGG-CATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggctcggacattgtctatgctaaactagcctcgttctgcttcctttgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGTATGAATTCTGGTCCATCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCCGGTGGGCCTGGTGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCcCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACA-CCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtatgaaaccaagagcatttgcttgggcaaatgtcagacatcccaaggtg Alignment from Spaln_nt2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGC-ATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggctcggacattgtctatgctaaactagcctcgttctgcttcctttgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGTATGAATTCTGGTCCATCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCCGGTGGGCCTGGTGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCCCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCA-CACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtatgaaaccaagagcatttgcttgggcaaatgtcagacatcccaaggtg Alignment from Pairagon TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGG-GCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggctcggacattgtctatgctaaactagcctcgttctgcttcctttgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGTATGAATTCTGGTCCATCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCCGGTGGGCCTGGTGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCCCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCA-CACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtatgaaaccaagagcatttgcttgggcaaatgtcagacatcccaaggtg Alignment from Exonerate_protein2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGG-CATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCA--CCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggctcggacattgtctatgctaaactagcctcgttctgcttcctttgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGTATGAATTCTGGTCCATCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCCGGTGGGCCTGGTGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCCCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACA---CCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtatgaaaccaagagcatttgcttgggcaaatgtcagacatcccaaggtg Alignment from Exonerate_coding2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGG-CATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCA--CCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggctcggacattgtctatgctaaactagcctcgttctgcttcctttgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGTATGAATTCTGGTCCATCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCCGGTGGGCCTGGTGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCCCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACA---CCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtatgaaaccaagagcatttgcttgggcaaatgtcagacatcccaaggtg Alignment from GeneWise TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGT-GGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG ggctcggacattgtctatgctaaactagcctcgttctgcttcctttgcagTCTCTCATGTCTACAACTCAGAGCCACCCACCCTGTATGAATTCTGGTCCATCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCCGGTGGGCCTGGTGGAGGCCCCCACAGTTTTCCACACCCATTACCCAGTCTCACAGGTGGCCCATGGTGGTCACCCCATGCAGCACAACCCAAATGGACCACA-CCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCACACCCATCTGGGCACCATGCCCCTCCGCCAATGGgtatgaaaccaagagcatttgcttgggcaaatgtcagacatcccaaggtg #### Sf3b2_ID898_20 --> 0 - 0 Original Alignment GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTG-GAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTACGAGTTGGATTCTATGGCTACAATGCAGAAGT-CAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from CESAR GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTG-GAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTACGAGTTGGATTCTATGGCTACAATGCAGAAG-TCAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Spaln_aa2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTACGAGTTGGATTCTATGGCTACAATGCAGAAGTCAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Spaln_nt2Genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTG-GAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGACATG---GTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTACGAGTTGGATTCTATGGCTACAATGCAGAAGT-CAAAGAACATGTTCAGGAGAA------ACAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Pairagon GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTG-GAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTACGAGTTGGATTCTATGGCTACAATGCAGAAGT-CAAAGAACATGTTCAGGAGAA------ACAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Exonerate_protein2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTACGAGTTGGATTCTATGGCTACAATGCAGAAGTCAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from Exonerate_coding2genome GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTACGAGTTGGATTCTATGGCTACAATGCAGAAGTCAAAGAACATGTTCAGGAGAAA------CAAGTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat Alignment from GeneWise GTTATGAGCCGGAAGGGCCCAGCCCCTGAATTGCAAGGTGTGGAAGTAGCGCTGGCGCCTGAGGAATTGGAGTTGGACCCCATGGCCATGACGCAGAAGTACGAGGAGCACGTTCGGGAGCAGCAGGCACAAGTAGAGAAGGAAGACTTCAGCGAC---ATGGTGGCTGAGCATGCTGCTAAGCAGAAG caggtggggtcattgatctataagattttcagcctgtgtctttctcacagGTAATGAGCCAAAAGAGTGCTGCCTCTGAATTACAAGGTGTTGAGGTTGCATTGGCACCTGAAGAATTACGAGTTGGATTCTATGGCTACAATGCAGAAGTCAAAGAACATGTTCAGGAGAAACAA------GTAGAGAAGGGAGATTTCAGTGATATGATGGTGGCTGAGCATGCTGCAAAGCATAAGgtacagatggtttatgtatacagcatgggggttattctctctagtgagat #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCGGAAGCCCCT-AAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagttctgcctcacataacgatgcctaatgctatttgccattctttatagAAGAAAAAGCCAGAAGCCCCCCAAACTTTCACGAAAGAAGTTGCGTCGAATGAACC-GTTTACAGTTGCAGAATTAAAGCAAgttcgcaattttgggagggtcaaggcaggtactccaactctgtagatcgt Alignment from CESAR GAAAAGAAGCCGGAAGCCCCT-AAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagttctgcctcacataacgatgcctaatgctatttgccattctttatagAAGAAAAAGCCAGAAGCCCCCCAAACTTTCACGAAAGAAGTTGCGTCGAATGAACC-GTTTACAGTTGCAGAATTAAAGCAAgttcgcaattttgggagggtcaaggcaggtactccaactctgtagatcgt Alignment from Spaln_aa2Genome GAAAAGAAGCCGGAAGCC-CCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagttctgcctcacataacgatgcctaatgctatttgccattctttatagAAGAAAAAGCCAGAAGCCcCCCAAACTTTCACGAAAGAAGTTGCGTCGAATGAACCG-TTTACAGTTGCAGAATTAAAGCAAgttcgcaattttgggagggtcaaggcaggtactccaactctgtagatcgt Alignment from Spaln_nt2Genome GAAAAGAAGCCGGAAGCCCCT-AAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagttctgcctcacataacgatgcctaatgctatttgccattctttatagAAGAAAAAGCCAGAAGCCCCCCAAACTTTCACGAAAGAAGTTGCGTCGAATGAACCG-TTTACAGTTGCAGAATTAAAGCAAgttcgcaattttgggagggtcaaggcaggtactccaactctgtagatcgt Alignment from Pairagon GAAAAGAAGCCGGAAG-CCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagttctgcctcacataacgatgcctaatgctatttgccattctttatagAAGAAAAAGCCAGAAGCCCCCCAAACTTTCACGAAAGAAGTTGCGTCGAATGAACCG-TTTACAGTTGCAGAATTAAAGCAAgttcgcaattttgggagggtcaaggcaggtactccaactctgtagatcgt Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagttctgcctcacataacgatgcctaatgctatttgccattctttatagAAGAAAAAGCCAGAAGCCCCCCAAACTTTCACGAAAGAAGTTGCGTCGAATGAACCGTTTACAGTTGCAGAATTAAAGCAAgttcgcaattttgggagggtcaaggcaggtactccaactctgtagatcgt Alignment from Exonerate_coding2genome cagttctgcctcacataacgatgcctaatgctatttgccattctttatagaagaaaaagccagaagccccccaaactttcacgaaagaagttgcgtcgaatgaaccgtttacagttgcagaattaaagcaagttcgcaattttgggagggtcaaggcaggtactccaactctgtagatcgt Alignment from GeneWise GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG cagttctgcctcacataacgatgcctaatgctatttgccattctttatagAAGAAAAAGCCAGAAGCCCCCCAAACTTTCACGAAAGAAGTTGCGTCGAATGAACCGTTTACAGTTGCAGAATTAAAGCAAgttcgcaattttgggagggtcaaggcaggtactccaactctgtagatcgt #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ATGGATGATCCTTCTGTGGGCCCCAAGATCCCC-CAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg ttttttcaacaggataagttttagaccacttctaacattgttttcattagATT---GATCCCTCAGTGGGCCCCAAAATTCCTCCAGGCTGTGGAAAAAATCCTTCAGTTGAAGG-GAGTCAGCAGCAAGAGATGAACTCTCAG---ggtatttttaacagataaacacacattagctgggagctgtcatcactactc Alignment from CESAR ATGGATGATCCTTCTGTGGGCCCCAAGATCCCC-CAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg ttttttcaacaggataagttttagaccacttctaacattgttttcattagATT---GATCCCTCAGTGGGCCCCAAAATTCCTCCAGGCTGTGGAAAAAATCCTTCAGTTGAAG-GGAGTCAGCAGCAAGAGATGAACTCT---CAGggtatttttaacagataaacacacattagctgggagctgtcatcactactc Alignment from Spaln_aa2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG- ttttttcaacaggataagttttagaccacttctaacattgttttcattagATT---GATCCCTCAGTGGGCCCCAAAATTCCTCCAGGCTGTGGAAAAAATCCTTCAGTTGAAGGGAGTCAGCAGCAAGAGATGAACTCTCAGGgtatttttaacagataaacacacattagctgggagctgtcatcactactc Alignment from Spaln_nt2Genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCC-CCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG ttttttcaacaggataagttttagaccacttctaacattgttttcattagAT---TGATCCCTCAGTGGGCCCCAAAATTCCTCCAGGCTGTGGAAAAAATCCTTCAGTTGAAGG-GAGTCAGCAGCAAGAGATGAACTCT---CAGGgtatttttaacagataaacacacattagctgggagctgtcatcactactc Alignment from Pairagon ATGGATGATCCTTCTGTGGGCCCCAAGA-TCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG ttttttcaacaggataagttttagaccacttctaacattgttttcattagAT---TGATCCCTCAGTGGGCCCCAAAATTCCTCCAGGCTGTGGAAAAAATCCTTCAGTTGAAGG-GAGTCAGCAGCAAGAGATGAACTCT---CAGGgtatttttaacagataaacacacattagctgggagctgtcatcactactc Alignment from Exonerate_protein2genome ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGC ttttttcaacaggataagttttagaccacttctaacattgttttcattagATT---GATCCCTCAGTGGGCCCCAAAATTCCTCCAGGCTGTGGAAAAAATCCTTCAGTTGAAGGGAGTCAGCAGCAAGAGATGAACTCTCAGGgtatttttaacagataaacacacattagctgggagctgtcatcactactc Alignment from Exonerate_coding2genome ttttttcaacaggataagttttagaccacttctaacattgttttcattagattgatccctcagtgggccccaaaattcctccaggctgtggaaaaaatccttcagttgaagggagtcagcagcaagagatgaactctcagggtatttttaacagataaacacacattagctgggagctgtcatcactactc Alignment from GeneWise ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG ttttttcaacaggataagttttagaccacttctaacattgttttcattagATTGAT---CCCTCAGTGGGCCCCAAAATTCCTCCAGGCTGTGGAAAAAATCCTTCAGTTGAAGGGAGTCAGCAGCAAGAGATGAACTCT---CAGGgtatttttaacagataaacacacattagctgggagctgtcatcactactc #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTGAGT-GCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcctaaactcccaaacttggttgcttttttctttttaattccttacaggCCGTTAGGGACAGCCTATGTGAGTCGCCACCACTGGAGCTGTGGCTACGGCCCTGGGAC-AAAGTCTCTGACCAAGgttcgttttccctccttctttctaaagtttcaccctcacacggtcaccac Alignment from CESAR gCAGTTGGGGACAGCCTATGTGAGT-GCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcctaaactcccaaacttggttgcttttttctttttaattccttacaggCCGTTAGGGACAGCCTATGTGAGTCGCCACCACTGGAGCTGTGGCTACGGCCCTGGGA-CAAAGTCTCTGACCAAGgttcgttttccctccttctttctaaagtttcaccctcacacggtcaccac Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTGAGT-GCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcctaaactcccaaacttggttgcttttttctttttaattccttacagGCCGTTAGGGACAGCCTATGTGAGTcGCCACCACTGGAGCTGTGGCTACGGCCCTGGGACA-AAGTCTCTGACCAAGgttcgttttccctccttctttctaaagtttcaccctcacacggtcaccac Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTGAGT-GCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcctaaactcccaaacttggttgcttttttctttttaattccttacagGCCGTTAGGGACAGCCTATGTGAGTCGCCACCACTGGAGCTGTGGCTACGGCCCTGGGAC-AAAGTCTCTGACCAAGgttcgttttccctccttctttctaaagtttcaccctcacacggtcaccac Alignment from Pairagon GCAGTTGGGGACAGCCTATGTGAGT-GCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcctaaactcccaaacttggttgcttttttctttttaattccttacagGCCGTTAGGGACAGCCTATGTGAGTCGCCACCACTGGAGCTGTGGCTACGGCCCTGGGAC-AAAGTCTCTGACCAAGgttcgttttccctccttctttctaaagtttcaccctcacacggtcaccac Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcctaaactcccaaacttggttgcttttttctttttaattccttacagGCCGTTAGGGACAGCCTATGTGAGTCGCCACCACTGGAGCTGTGGCTACGGCCCTGGGACAAAGTCTCTGACCAAGgttcgttttccctccttctttctaaagtttcaccctcacacggtcaccac Alignment from Exonerate_coding2genome GCAGTTGGGGACAGCCTATGTGAGTGC-CACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcctaaactcccaaacttggttgcttttttctttttaattccttacagGCCGTTAGGGACAGCCTATGTGAGTCGCCACCACTGGAGCTGTGGCTACGGCCCTGGGACA-AAGTCTCTGACCAAGgttcgttttccctccttctttctaaagtttcaccctcacacggtcaccac Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG cagcctaaactcccaaacttggttgcttttttctttttaattccttacagGCCGTTAGGGACAGCCTATGTGAGTCGCCACCACTGGAGCTGTGGCTACGGCCCTGGGACAAAGTCTCTGACCAAGgttcgttttccctccttctttctaaagtttcaccctcacacggtcaccac #### Shoc2_ID11420_6 --> 0 - 0 Original Alignment GTTCTGATCTTATCGAACAACCTT-CTAAAGAAGCTGCCCCACGGCCTTGGGAACCTCAGAAAGCTACGAGAGCTGGACCTGGAGGAGAACAAGCTGGAGTCCTTGCCCAATGAGATCGCGTATCTCAAGGATCTGCAG acgagtgtctccattttgcatcacaaatcacatctatgttttctacgcagGTCCTGATCCTATCAAACAATCTCCCTAAAGAAGCTCCCCTATGGCCTTGGGAATCTCAGGAAGT-ATGGGAGTTGGATCTAGAAGAGAATAAATTGGAGTCCCTACCCAATGAGATCACCTATCTCAAAGATTTGCAAgtacgtggagcaggccaggataagaacctggcatctgattatctgtccta Alignment from CESAR GTTCTGATCTTATCGAACAACCTT-CTAAAGAAGCTGCCCCACGGCCTTGGGAACCTCAGAAAGCTACGAGAGCTGGACCTGGAGGAGAACAAGCTGGAGTCCTTGCCCAATGAGATCGCGTATCTCAAGGATCTGCAG acgagtgtctccattttgcatcacaaatcacatctatgttttctacgcagGTCCTGATCCTATCAAACAATCTCCCTAAAGAAGCTCCCCTATGGCCTTGGGAATCTCAGGAAG-TATGGGAGTTGGATCTAGAAGAGAATAAATTGGAGTCCCTACCCAATGAGATCACCTATCTCAAAGATTTGCAAgtacgtggagcaggccaggataagaacctggcatctgattatctgtccta Alignment from Spaln_aa2Genome GTTCTGATCTTATCGAACAACCTTCTAAAGAAGCTGCCCCACGGCCTTGGGAACCTCAGAAAGCTACGAGAGCTGGACCTGGAGGAGAACAAGCTGGAGTCCTTGCCCAATGAGATCGCGTATCTCAAGGATCTGCAG acgagtgtctccattttgcatcacaaatcacatctatgttttctacgcagGTCCTGATCCTATCAAACAATCTCCCTAAAGAAGCTCCCCTATGGCCTTGGGAATCTCAGGAAGTATGGGAGTTGGATCTAGAAGAGAATAAATTGGAGTCCCTACCCAATGAGATCACCTATCTCAAAGATTTGCAAgtacgtggagcaggccaggataagaacctggcatctgattatctgtccta Alignment from Spaln_nt2Genome GTTCTGATCTTATCGAACAACCTTC-TAAAGAAGCTGCCCCACGGCCTTGGGAACCTCAGAAAGCTACGAGAGCTGGACCTGGAGGAGAACAAGCTGGAGTCCTTGCCCAATGAGATCGCGTATCTCAAGGATCTGCAG acgagtgtctccattttgcatcacaaatcacatctatgttttctacgcagGTCCTGATCCTATCAAACAATCTCCCTAAAGAAGCTCCCCTATGGCCTTGGGAATCTCAGGAAG-TATGGGAGTTGGATCTAGAAGAGAATAAATTGGAGTCCCTACCCAATGAGATCACCTATCTCAAAGATTTGCAAgtacgtggagcaggccaggataagaacctggcatctgattatctgtccta Alignment from Pairagon GTTCTGATCTTATCGAACAACCT-TCTAAAGAAGCTGCCCCACGGCCTTGGGAACCTCAGAAAGCTACGAGAGCTGGACCTGGAGGAGAACAAGCTGGAGTCCTTGCCCAATGAGATCGCGTATCTCAAGGATCTGCAG acgagtgtctccattttgcatcacaaatcacatctatgttttctacgcagGTCCTGATCCTATCAAACAATCTCCCTAAAGAAGCTCCCCTATGGCCTTGGGAATCTCAGGAAG-TATGGGAGTTGGATCTAGAAGAGAATAAATTGGAGTCCCTACCCAATGAGATCACCTATCTCAAAGATTTGCAAgtacgtggagcaggccaggataagaacctggcatctgattatctgtccta Alignment from Exonerate_protein2genome GTTCTGATCTTATCGAACAACCTTCTAAAGAAGCTGCCCCACGGCCTTGGGAACCTCAGAAAGCTACGAGAGCTGGACCTGGAGGAGAACAAGCTGGAGTCCTTGCCCAATGAGATCGCGTATCTCAAGGATCTGCAG acgagtgtctccattttgcatcacaaatcacatctatgttttctacgcagGTCCTGATCCTATCAAACAATCTCCCTAAAGAAGCTCCCCTATGGCCTTGGGAATCTCAGGAAGTATGGGAGTTGGATCTAGAAGAGAATAAATTGGAGTCCCTACCCAATGAGATCACCTATCTCAAAGATTTGCAAgtacgtggagcaggccaggataagaacctggcatctgattatctgtccta Alignment from Exonerate_coding2genome GTTCTGATCTTATCGAACAACCTTCTAAAGAAGCTGCCCCACGGCCTTGGGAACCTCAGAAAGCTACGAGAGCTGGACCTGGAGGAGAACAAGCTGGAGTCCTTGCCCAATGAGATCGCGTATCTCAAGGATCTGCAG acgagtgtctccattttgcatcacaaatcacatctatgttttctacgcagGTCCTGATCCTATCAAACAATCTCCCTAAAGAAGCTCCCCTATGGCCTTGGGAATCTCAGGAAGTATGGGAGTTGGATCTAGAAGAGAATAAATTGGAGTCCCTACCCAATGAGATCACCTATCTCAAAGATTTGCAAgtacgtggagcaggccaggataagaacctggcatctgattatctgtccta Alignment from GeneWise GTTCTGATCTTATCGAACAACCTTCTAAAGAAGCTGCCCCACGGCCTTGGGAACCTCAGAAAGCTACGAGAGCTGGACCTGGAGGAGAACAAGCTGGAGTCCTTGCCCAATGAGATCGCGTATCTCAAGGATCTGCAG acgagtgtctccattttgcatcacaaatcacatctatgttttctacgcagGTCCTGATCCTATCAAACAATCTCCCTAAAGAAGCTCCCCTATGGCCTTGGGAATCTCAGGAAGTATGGGAGTTGGATCTAGAAGAGAATAAATTGGAGTCCCTACCCAATGAGATCACCTATCTCAAAGATTTGCAAgtacgtggagcaggccaggataagaacctggcatctgattatctgtccta #### Sipa1_ID1138_14 --> 1 - 0 Original Alignment gCCAGAACCCGGGAGC-CTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tcatgttgcttaattttctgtcgggtgtaactgtcctgtcttcattgcaggCCA---CCTGGGAGCCTTATCAGGAAAGGTGTCTCATCTAGAGTCCA-GCTCTGGAAATTGCAAGAAGATCTGCAGCGGgtaagattccaacctggaggaaagggaggaaagggtttacacggttgcca Alignment from CESAR gCCAGAACCCGGGAGCCTG-TCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tcatgttgcttaattttctgtcgggtgtaactgtcctgtcttcattgcaggCCA---CCTGGGAGCCTTATCAGGAAAGGTGTCTCATCTAGAGTCC-AGCTCTGGAAATTGCAAGAAGATCTGCAGCGGgtaagattccaacctggaggaaagggaggaaagggtttacacggttgcca Alignment from Spaln_aa2Genome GCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tcatgttgcttaattttctgtcgggtgtaactgtcctgtcttcattgcaggccacctgggagCCTTATCAGGAAAGGTGTCTCATCTAGAGTCCAG-CTCTGGAAATTGCAAGAAGATCTGCAGCGGgtaagattccaacctggaggaaagggaggaaagggtttacacggttgcca Alignment from Spaln_nt2Genome GCCAGAACCCGGGAGCCTG-TCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tcatgttgcttaattttctgtcgggtgtaactgtcctgtcttcattgcagGCC---ACCTGGGAGCCTTATCAGGAAAGGTGTCTCATCTAGAGTCCA-GCTCTGGAAATTGCAAGAAGATCTGCAGCGGgtaagattccaacctggaggaaagggaggaaagggtttacacggttgcca Alignment from Pairagon GCCAGAACCCGGGAGCC-TGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tcatgttgcttaattttctgtcgggtgtaactgtcctgtcttcattgcagGCC---ACCTGGGAGCCTTATCAGGAAAGGTGTCTCATCTAGAGTCCA-GCTCTGGAAATTGCAAGAAGATCTGCAGCGGgtaagattccaacctggaggaaagggaggaaagggtttacacggttgcca Alignment from Exonerate_protein2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tcatgttgcttaattttctgtcgggtgtaactgtcctgtcttcattgcagGCCA---CCTGGGAGCCTTATCAGGAAAGGTGTCTCATCTAGAGTCCAGCTCTGGAAATTGCAAGAAGATCTGCAGCGGgtaagattccaacctggaggaaagggaggaaagggtttacacggttgcca Alignment from Exonerate_coding2genome tcatgttgcttaattttctgtcgggtgtaactgtcctgtcttcattgcaggccacctgggagccttatcaggaaaggtgtctcatctagagtccagctctggaaattgcaagaagatctgcagcgggtaagattccaacctggaggaaagggaggaaagggtttacacggttgcca Alignment from GeneWise GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tcatgttgcttaattttctgtcgggtgtaactgtcctgtcttcattgcagGCCA---CCTGGGAGCCTTATCAGGAAAGGTGTCTCATCTAGAGTCCAGCTCTGGAAATTGCAAGAAGATCTGCAGCGGgtaagattccaacctggaggaaagggaggaaagggtttacacggttgcca #### Sipa1_ID1140_12 --> 2 - 1 Original Alignment ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGAT-GAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagttATGCCGGAAGCTGCCACTGAAACATTGGAT---CGAATGGCAGTCCATATCTGCAATTTCCTCCACTTGCA-CACAATCCTGGAGTCCCTGTCTCGGGAAggtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaaa Alignment from CESAR ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagttATGCCGGAAGCTGCCACTGAAACATTGGAT--CGAATGGCAGTCCATATCTGCAATTTCCTCCACTT-GCACACAATCCTGGAGTCCCTGTCTCGGGAAggtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaag Alignment from Spaln_aa2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTGGATCGAATGGCAGTCCATATCTGCAATTTCCTCCACTTG---CACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaaa Alignment from Spaln_nt2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTGGA--TCGAATGGCAGTCCATATCTGCAATTTCCTCCACTTGC-ACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaaa Alignment from Pairagon TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTGGA--TCGAATGGCAGTCCATATCTGCAATTTCCTCCACTTGC-ACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaaa Alignment from Exonerate_protein2genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTGGATCGAATGGCAGTCCATATCTGCAATTTCCTCCAC---TTGCACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaaa Alignment from Exonerate_coding2genome taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagttatgccggaagctgccactgaaacattggatcgaatggcagtccatatctgcaatttcctccacttgcacacaatcctggagtccctgtctcgggaaggtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaaa Alignment from GeneWise TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG taggttgataccattgtgtttgctcttgaagagcccttttctggtttcagTTATGCCGGAAGCTGCCACTGAAACATTGGATCGAATGGCAGTCCATATCTGCAATTTCCTCCACTTG---CACACAATCCTGGAGTCCCTGTCTCGGGAAGgtgagttccgtgtcttgggaaggggatgctgttcattgggcttttgcaaa #### Sipa1_ID1141_11 --> 0 - 1 Original Alignment GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGT-GACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTCGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGC-TAGAACCTTATCAGTACGAAATACCATCAGTAAAagtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from CESAR GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGT-GACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGa gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTCGACTCTGGTCCAGAATTAAGGGCCCCAATCTTG-CTAGAACCTTATCAGTACGAAATACCATCAGTAAAagtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Spaln_aa2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTCGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Spaln_nt2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGT-GACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTCGACTCTGGTCCAGAATTAAGGGCCCCAATCTTG-CTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Pairagon GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGT-GACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTCGACTCTGGTCCAGAATTAAGGGCCCCAATCTTG-CTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Exonerate_protein2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTCGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from Exonerate_coding2genome gtctaataacccatagcccactaacaatttccttctggaatcccttccaggatcaatcaggaagccctagtagtcatggggataccagtcgactctggtccagaattaagggccccaatcttgctagaaccttatcagtacgaaataccatcagtaaaagtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct Alignment from GeneWise GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGA gtctaataacccatagcccactaacaatttccttctggaatcccttccagGATCAATCAGGAAGCCCTAGTAGTCATGGGGATACCAGTCGACTCTGGTCCAGAATTAAGGGCCCCAATCTTGCTAGAACCTTATCAGTACGAAATACCATCAGTAAAAgtatcccaggtgacacaggtaaggaacagcctcctattcatgccctgcct #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAG-GCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG aactacgtgattgtaattaagaatagtctctgtacctcttcccccaccagcTCCCTGACTGATGAGCGTCCCTGTCCTACCCAAGATTACACCGGACCTCCTACTGA-TACAACAGCTAACACTTCCGCTCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgggtaacaagtagggtctaataacccatagcccactaacaatggctcc Alignment from CESAR cTCCCTGTCCGATGAG-GCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG aactacgtgattgtaattaagaatagtctctgtacctcttcccccaccagcTCCCTGACTGATGAGCGTCCCTGTCCTACCCAAGATTACACCGGACCTCCTACTGA-TACAACAGCTAACACTTCCGCTCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgggtaacaagtagggtctaataacccatagcccactaacaatttcctt Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG aactacgtgattgtaattaagaatagtctctgtacctcttcccccaccagCTCCCTGACTGATGAGCGTCCCTGTCCTACCCAAGATTACACCGGACCTCCTACTGATACAACAGCTAACACTTCCGCTCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgggtaacaagtagggtctaataacccatagcccactaacaatggctcc Alignment from Spaln_nt2Genome CTCCCTGTCCGATGAGGCTCCA-GTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG aactacgtgattgtaattaagaatagtctctgtacctcttcccccaccagCTCCCTGACTGATGAGCGTCCCTGTCCTACCCAAGATTACACCGGACCTCCTAC-TGATACAACAGCTAACACTTCCGCTCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgggtaacaagtagggtctaataacccatagcccactaacaatggctcc Alignment from Pairagon CTCCCTGTCCGATGAG-GCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG aactacgtgattgtaattaagaatagtctctgtacctcttcccccaccagCTCCCTGACTGATGAGCGTCCCTGTCCTACCCAAGATTACACCGGACCTCCTAC-TGATACAACAGCTAACACTTCCGCTCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgggtaacaagtagggtctaataacccatagcccactaacaatggctcc Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG aactacgtgattgtaattaagaatagtctctgtacctcttcccccaccagCTCCCTGACTGATGAGCGTCCCTGTCCTACCCAAGATTACACCGGACCTCCTACTGATACAACAGCTAACACTTCCGCTCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgggtaacaagtagggtctaataacccatagcccactaacaatggctcc Alignment from Exonerate_coding2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACT------GCCAACCCATCTGCACCTGGTACTGACAGAGA aactacgtgattgtaattaagaatagtctctgtacctcttcccccaccagctccctgactgatgagcgtccctgtcctacccaagattacaccggacctcctactgatacAACAGCTAACACTTCCGCTCCTGATACTGATAGAGAAACACCACCTTCCCAGGTGGGTAACAAGTAGGGTCTAATAACCCATAGCCCACTAACAATGGCTCC Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG aactacgtgattgtaattaagaatagtctctgtacctcttcccccaccagCTCCCTGACTGATGAGCGTCCCTGTCCTACCCAAGATTACACCGGACCTCCTACTGATACAACAGCTAACACTTCCGCTCCTGATACTGATAGAGAAACACCACCTTCCCAGgtgggtaacaagtagggtctaataacccatagcccactaacaatggctcc #### Sipa1_ID1145_7 --> 1 - 0 Original Alignment gGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGC-GACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacaggGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGACGATGTATTGGCCTGGACCTTTTCAGAGCACCAAC-TGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from CESAR gGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGC-GACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacaggGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGACGATGTATTGGCCTGGACCTTTTCAGAGCACCAAC-TGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Spaln_aa2Genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGACGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Spaln_nt2Genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCG-CGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACC------ACCCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGACGATGTATTGGCCTGGACCTTTTCAGAGCACCAACT-GACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Pairagon GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCA-------------GGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCG-CGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCA-------------------GAGACCACCCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGACGATGTATTGGCCTGGACCTTTTCAGAGCACCAACT-GACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Exonerate_protein2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGACGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from Exonerate_coding2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGACGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag Alignment from GeneWise GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG actcttgtctgggcactcaaacttccctgtgatcactgatgtccccacagGGTTGCGGTGAGTTGTACAAAAGACACTCCTGCCTTCAGTCCTGCACTACCAGAAGGTGGAGGTCCCTTTGCAGCCAATACTGACTTCCAAGCATTCCCATGGGCGAAGGCACTAAATGGTGAGCAGGCAGCTGGCCACACAAGGCAGTTCCATGCCATGACTACATGTACACGGCAACAG---CTGCAAGAGTTGGCAAAAAATGAGGTGAGTACTACTTTGCTAGACCTGGCCTCCCGATCTGGGTTACCGTCCCTTGGTGGCAGAGACCAC------CCACAGAGTTCTGGAGCAAAGCTACAAGCAACTGATGCATTGATGTGGGGTGTACATGCGGCTCCTGGGGCACGGGTTGCAGCAGGGGCTGAAACAAAAGGGCCAGAAGATACTGAAGTACCTTGTTTATTGGGTATTTCTGCTGAGACACTAGTGCTGGTCACACCTTCTGATAGTCATGTGGCCTTTAACTGTACGTGTCGACGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTGACCTATACCATGGGCGTGGGAAAGCAATTACATTGCAATTGGATGGTCCACCAGGTCAAGCTGTTGGTGATGTGGTGGCACGTCTGCAAgtgaggtgcaactacacaggagaaaggtacaatgcaattactggagtaag #### Sipa1_ID1146_6 --> 0 - 2 Original Alignment CTCCTGAGGAAGCGTCATATCGGCAAC-GATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACCTACATTGTGACTATTGTTTTTCAAGAGC-TGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTTGCACTCCCCACACATCATACaggtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from CESAR CTCCTGAGGAAGCGTCATATCGGCAAC-GATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACag cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACCTACATTGTGACTATTGTTTTTCAAGAG-CTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTTGCACTCCCCACACATCATACaggtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Spaln_aa2Genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACCTACATTGTGACTATTGTTTTTCAAGAGCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Spaln_nt2Genome CTCCTGAGGAAGCGTCATATCGGCAACG-ATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACCTACATTGTGACTATTGTTTTTCAAGAG-CTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Pairagon CTCCTGAGGAAGCGTCATATCGGCAACG-ATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACCTACATTGTGACTATTGTTTTTCAAGAG-CTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Exonerate_protein2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACCTACATTGTGACTATTGTTTTTCAAGAGCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from Exonerate_coding2genome CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACCTACATTGTGACTATTGTTTTTCAAGAGCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt Alignment from GeneWise CTCCTGAGGAAGCGTCATATCGGCAACGATATTGTGACCATCGTGTTCCAGGAGCCCGGTAGCAAGCCCTTCTGCCCTACGACAATCCGCTCTCACTTCCAGCACGTTTTCTTGGTGGTGCGTGCGCATGCTCCCTGCACCCCACACACCTCATACAG cttgagccactgaagctcaggtatttttattgatttgtttctttgcacagCTATTAAGGAAATGTCACATCAGTAACCTACATTGTGACTATTGTTTTTCAAGAGCTGGCAGCAAACCATTCTGTCCTAAGACAGTATGCTCTCACTTCCCACATGTTTTCTTGGTGGTGCGAGCATTTGCTTCTTGCACTCCCCACACATCATACAGgtaagtacttggttaagctgggatctcagggatgggtaaattgtcatggt #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tgTTTGCCTTCTCCAGCAGCTATGCC-TTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg ctggcatatgtagggaaccaggaaggcatgagactttttgtctcccctagtgTTTGCATAT------GGTTATGCCCTTACTCCTGATTGCCAAGTCCTTGCAAGGAA-AGGTTCATCTTGCTCATCTGTTGCTggtacgttataactaaagtatcaccatgaactcataggtattgagtcaggg Alignment from CESAR tgTTTGCCTTCTCCAGCAGCTATGCCTTC-CTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg ctggcatatgtagggaaccaggaaggcatgagactttttgtctcccctagtgTTTGCATAT------GGTTATGCCCTTACTCCTGATTGCCAAGTCCTTGCAAGGA-AAGGTTCATCTTGCTCATCTGTTGCTggtacgttataactaaagtatcaccatgaactcataggtattgagtcaggg Alignment from Spaln_aa2Genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG ctggcatatgtagggaaccaggaaggcatgagactttttgtctcccctagTGTTTGCATAT------GGTTATGCCCTTACTCCTGATTGCCAAGTCCTTGCAAGGAAAGGTTCATCTTGCTCATCTGTTGCTGgtacgttataactaaagtatcaccatgaactcataggtattgagtcaggg Alignment from Spaln_nt2Genome TGTTTGCCTTCTCCAGCAGCTATGCC-TTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG ctggcatatgtagggaaccaggaaggcatgagactttttgtctcccctagTGTTTGCAT------ATGGTTATGCCCTTACTCCTGATTGCCAAGTCCTTGCAAGGAA-AGGTTCATCTTGCTCATCTGTTGCTGgtacgttataactaaagtatcaccatgaactcataggtattgagtcaggg Alignment from Pairagon TGTTTGCCTTCTCCAGCAGCTATG-------CCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG ctggcatatgtagggaaccaggaaggcatgagactttttgtctcccctagTGTTTGC------------ATATGGTTATGCCCTTACTCCTGATTGCCAAGTCCTTGCAAGGAA-AGGTTCATCTTGCTCATCTGTTGCTGgtacgttataactaaagtatcaccatgaactcataggtattgagtcaggg Alignment from Exonerate_protein2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG ctggcatatgtagggaaccaggaaggcatgagactttttgtctcccctagTGTTTGCATAT------GGTTATGCCCTTACTCCTGATTGCCAAGTCCTTGCAAGGAAAGGTTCATCTTGCTCATCTGTTGCTGgtacgttataactaaagtatcaccatgaactcataggtattgagtcaggg Alignment from Exonerate_coding2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTGGG ctggcatatgtagggaaccaggaaggcatgagactttttgtctcccctagTGTTTGCATAT------GGTTATGCCCTTACTCCTGATTGCCAAGTCCTTGCAAGGAAAGGTTCATCTTGCTCATCTGTTGCTGGTacgttataactaaagtatcaccatgaactcataggtattgagtcaggg Alignment from GeneWise ctggcatatgtagggaaccaggaaggcatgagactttttgtctcccctagtgtttgcatatggttatgcccttactcctgattgccaagtccttgcaaggaaaggttcatcttgctcatctgttgctggtacgttataactaaagtatcaccatgaactcataggtattgagtcaggg #### Slc22a12_ID1788_9 --> 1 - 2 Original Alignment gATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCT-TTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAAca cactgagtaatgaatacaacagaaactgtttaaaatacacctttctttagaATGACTTCAGTTTGTGTCTGCCATGTGGTGGCTCGAGGGGGAGCTACTTTGGGGCCTCTTATTG---------------------------ATACCCTTGC-GGTTTATGGA------CCAGTTCTAAGTGGCTTTGCAGCATTACTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACTATTCAGGATATACAGAAAcagtgcgattaaacagactgtttaaaaatgccatttgattccctccatcttg Alignment from CESAR gATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAAca cactgagtaatgaatacaacagaaactgtttaaaatacacctttctttagaATGACTTCAGTTTGTGTCTGCCATGTGGTGGCTCGAGGGGGAGCTACTTTGGGGCCTCTTATTGAT---------------------------ACCCTTGCGGTTTATGGA------CCAGTTCTAAGTGGCTTTGCAGCATTACTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACTATTCAGGATATACAGAAAcagtgcgattaaacagactgtttaaaaatgccatttgattccctccatcttg Alignment from Spaln_aa2Genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA cactgagtaatgaatacaacagaaactgtttaaaatacacctttctttagAATGACTTCAGTTTGTGTCTGCCATGTGGTGGCTCGAGGGGGAGCTACTTTGGGGCCTCTTATTGATACCCTTGCGGTTTATGGA---------------------------------CCAGTTCTAAGTGGCTTTGCAGCATTACTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACTATTCAGGATATACAGAAACAgtgcgattaaacagactgtttaaaaatgccatttgattccctccatcttg Alignment from Spaln_nt2Genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA cactgagtaatgaatacaacagaaactgtttaaaatacacctttctttagAATGACTTCAGTTTGTGTCTGCCATGTGGTGGCTCGAGGGGGAGCTACTTTGGGGCCT--------------------------CTTATTGATACCCTTGC-GGTTTATGGA------CCAGTTCTAAGTGGCTTTGCAGCATTACTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACTATTCAGGATATACAGAAACAgtgcgattaaacagactgtttaaaaatgccatttgattccctccatcttg Alignment from Pairagon GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA cactgagtaatgaatacaacagaaactgtttaaaatacacctttctttagAATGACTTCAGTTTGTGTCTGCCATGTGGTGGCTCGAGGGGGAGCTACTTTGGGGCCT--------------------------CTTATTGATACCCTTGC-GGTTTATGGA------CCAGTTCTAAGTGGCTTTGCAGCATTACTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACTATTCAGGATATACAGAAACAgtgcgattaaacagactgtttaaaaatgccatttgattccctccatcttg Alignment from Exonerate_protein2genome GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGC cactgagtaatgaatacaacagaaactgtttaaaatacacctttctttagAATGACTTCAGTTTGTGTCTGCCATGTGGTGGCTCGAGGGGGAGCTACTTTGGGGCCTCTTATTGATACCCTTGCGGTTTATGGAccagttctaagtggctttgcagcattactactgcctgagactaaaatattacctcttcctactattcaggatatacagaaacagtgcgattaaacagactgtttaaaaatgccatttgattccctccatcttg Alignment from Exonerate_coding2genome cactgagtaatgaatacaacagaaactgtttaaaatacacctttctttagaatgacttcagtttgtgtctgccatgtggtggctcgagggggagctactttggggcctcttattgatacccttgcggtttatggaccagttctaagtggctttgcagcattactactgcctgagactaaaatattacctcttcctactattcaggatatacagaaacagtgcgattaaacagactgtttaaaaatgccatttgattccctccatcttg Alignment from GeneWise GATGACTGCAGTGGGCCTCTGCCAGGTGGCAGCCCGAGGGGGAGCCATGCTAGGGCCTTTGGTACGGCTGCTGGGTGTCTATGGCTCCTGGATGCCCCTGCTGGTGTATGGAGTGGTGCCAGTGTTAAGTGGCCTAGCTGCACTGCTGCTGCCTGAGACCAAGAACTTACCACTGCCTGACACCATCCAAGACATCCAGAAACA cactgagtaatgaatacaacagaaactgtttaaaatacacctttctttagAATGACTTCAGTTTGTGTCTGCCATGTGGTGGCTCGAGGGGGAGCTACTTTGGGGCCTCTTATTGATACCCTTGCGGTTTATGGA---------------------------------CCAGTTCTAAGTGGCTTTGCAGCATTACTACTGCCTGAGACTAAAATATTACCTCTTCCT---ACTATTCAGGATATACAGAAACAgtgcgattaaacagactgtttaaaaatgccatttgattccctccatcttg #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGG-GGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ccatggctgattgataaattgtgaggtttgctccatctgtttccttccagcaATGGGGGTTCTTCGCTCTGCTCTA---GTCCTAGGGTTAGGCTGCCTAGGTCGGTGCCTTCACATGTATCACAATTTTCTCTA-CGAGCTCTTTCCCACTGTTATTaggtaagagctatgaagcctctggatcacagcactagacgattgcacataga Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGG-GGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag ccatggctgattgataaattgtgaggtttgctccatctgtttccttccagcaATGGGGGTTCTTCGCTCTGCTCTA---GTCCTAGGGTTAGGCTGCCTAGGTCGGTGCCTTCACATGTATCACAATTTTCTCT-ACGAGCTCTTTCCCACTGTTATTaggtaagagctatgaagcctctggatcacagcactagacgattgcacataga Alignment from Spaln_aa2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ccatggctgattgataaattgtgaggtttgctccatctgtttccttccagCAATGGGGGTTCTTCGCTCTGCTCTA---GTCCTAGGGTTAGGCTGCCTAGGTCGGTGCCTTCACATGTATCACAATTTTCTCTACGAGCTCTTTCCCACTGTTATTAGgtaagagctatgaagcctctggatcacagcactagacgattgcacataga Alignment from Spaln_nt2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGG-GGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ccatggctgattgataaattgtgaggtttgctccatctgtttccttccagCAATGGGGGTTCTTCGCTCTGCTCT---AGTCCTAGGGTTAGGCTGCCTAGGTCGGTGCCTTCACATGTATCACAATTTTCTCTA-CGAGCTCTTTCCCACTGTTATTAGgtaagagctatgaagcctctggatcacagcactagacgattgcacataga Alignment from Pairagon GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGG-GGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ccatggctgattgataaattgtgaggtttgctccatctgtttccttccagCAATGGGGGTTCTTCGCTCTGCTCTA---GTCCTAGGGTTAGGCTGCCTAGGTCGGTGCCTTCACATGTATCACAATTTTCTCTA-CGAGCTCTTTCCCACTGTTATTAGgtaagagctatgaagcctctggatcacagcactagacgattgcacataga Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ccatggctgattgataaattgtgaggtttgctccatctgtttccttccagCAATGGGGGTTCTTCGCTCTGCTCTA---GTCCTAGGGTTAGGCTGCCTAGGTCGGTGCCTTCACATGTATCACAATTTTCTCTACGAGCTCTTTCCCACTGTTATTAGgtaagagctatgaagcctctggatcacagcactagacgattgcacataga Alignment from Exonerate_coding2genome ccatggctgattgataaattgtgaggtttgctccatctgtttccttccagcaatgggggttcttcgctctgctctagtcctagggttaggctgcctaggtcggtgccttcacatgtatcacaattttctctacgagctctttcccactgttattaggtaagagctatgaagcctctggatcacagcactagacgattgcacataga Alignment from GeneWise GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG ccatggctgattgataaattgtgaggtttgctccatctgtttccttccagCAATGGGGGTTCTTCGCTCTGCTCTA---GTCCTAGGGTTAGGCTGCCTAGGTCGGTGCCTTCACATGTATCACAATTTTCTCTACGAGCTCTTTCCCACTGTTATTAGgtaagagctatgaagcctctggatcacagcactagacgattgcacataga #### Slc22a12_ID1790_7 --> 1 - 1 Original Alignment gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTG-ATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctaggTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGAC---------CTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGCATTACACATTTGGGCCAACACCTCTGTCAGGTCA-TTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTG------GATggtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from CESAR gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTG-ATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctaggTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGAC---------CTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGCATTACACATTTGGGCCAACACCTCTGTCAGGTC-ATTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTG------GATggtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Spaln_aa2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCC ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGAC---------CTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGCATTACACATTTGGGCCAACACCTCTGTCAGGTCATTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTGGAT---Ggtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Spaln_nt2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTG-ATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGA---------CCTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGCATTACACATTTGGGCCAACACCTCTGTCAGGTCATTTT----TTGGTTCCTGGACTATGTATACTTTCCAATGTATTGG------ATGgtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Pairagon GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTG-ATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCA------GCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGA---------CCTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGCATTACACATTTGGGCCAACACCTCTGTCAGGTCATTTTTTGGTTCCT----------GGACTATGTATACTTTCCAATGTATTGG------ATGgtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Exonerate_protein2genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGAC---------CTTGGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGCATTACACATTTGGGCCAACACCTCTGTCAGGTCATTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTG------GATGgtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from Exonerate_coding2genome ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctaggttttccataggcttcaccttttatggactagctattgaccttgggagcaacatattcctcctccaatcgatcattgggattgtggatttcccagtaaagacaggtagtttgctcctgcattacacatttgggccaacacctctgtcaggtcattttttggttcctggactatgtatactttccaatgtattggatggtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg Alignment from GeneWise GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG ggtcaaggtcagggctattttaagtattgcctccctgaccttttccctagGTTTTCCATAGGCTTCACCTTTTATGGACTAGCTATTGACCTT---------GGGAGCAACATATTCCTCCTCCAATCGATCATTGGGATTGTGGATTTCCCAGTAAAGACAGGTAGTTTGCTCCTGCATTACACATTTGGGCCAACACCTCTGTCAGGTCATTTTTTGGTT---CCTGGACTATGTATACTTTCCAATGTATTG------GATGgtatgtctataatcgcttactgagtaaaaatgtttgacagaaaagagagg #### Slc22a12_ID1791_6 --> 0 - 2 Original Alignment GTGCTGCGGTCAGCTATGGAG-GAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg tggggcagaagcttgaagtgaaaattgagctctgtccctttcttccttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGAGACCAGGCTTGTGCCAGTATTA-CACTTTACTCCACACACCTGGTCTACGTCACCGTAGTATTATCTCTATGCTGTGCctgtacggtcatcaatacaatggtttgcaggcaagagcagttccccagttat Alignment from CESAR GTGCTGCGGTCAGCTATGGAGGAG-GAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg tggggcagaagcttgaagtgaaaattgagctctgtccctttcttccttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGAGACCAGGCTTGTGCCAGTATT-ACACTTTACTCCACACACCTGGTCTACGTCACCGTAGTATTATCTCTATGCTGTGCctgtacggtcatcaatacaatggtttgcaggcaagagcagttccccagttat Alignment from Spaln_aa2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tggggcagaagcttgaagtgaaaattgagctctgtccctttcttccttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGAGACCAGGCTTGTGCCAGTATTACACTTTACTCCACACACCTGGTCTACGTCACCGTAGTATTATCTCTATGCTGTGCCTgtacggtcatcaatacaatggtttgcaggcaagagcagttccccagttat Alignment from Spaln_nt2Genome GTGCTGCGGTCAGCTATGGAGGAG-GAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tggggcagaagcttgaagtgaaaattgagctctgtccctttcttccttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGAGACCAGGCTTGTGCCAGTAT-TACACTTTACTCCACACACCTGGTCTACGTCACCGTAGTATTATCTCTATGCTGTGCCTgtacggtcatcaatacaatggtttgcaggcaagagcagttccccagttat Alignment from Pairagon GTGCTGCGGTCAGCTATGGA-GGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tggggcagaagcttgaagtgaaaattgagctctgtccctttcttccttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGAGACCAGGCTTGTGCCAGTAT-TACACTTTACTCCACACACCTGGTCTACGTCACCGTAGTATTATCTCTATGCTGTGCCTgtacggtcatcaatacaatggtttgcaggcaagagcagttccccagttat Alignment from Exonerate_protein2genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tggggcagaagcttgaagtgaaaattgagctctgtccctttcttccttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGAGACCAGGCTTGTGCCAGTATTACACTTTACTCCACACACCTGGTCTACGTCACCGTAGTATTATCTCTATGCTGTGCCTgtacggtcatcaatacaatggtttgcaggcaagagcagttccccagttat Alignment from Exonerate_coding2genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTGGTTT tggggcagaagcttgaagtgaaaattgagctctgtccctttcttccttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGAGACCAGGCTTGTGCCAGTATTACACTTTACTCCACACACCTGGTCTACGTCACCGTAGTATTATCTCTATGCTGTGCCTGTACggtcatcaatacaatggtttgcaggcaagagcagttccccagttat Alignment from GeneWise GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tggggcagaagcttgaagtgaaaattgagctctgtccctttcttccttagGTCCTATGGTCAGCTATGGACCAAAGAACCAAGCAGAGACCAGGCTTGTGCCAGTATTACACTTTACTCCACACACCTGGTCTACGTCACCGTAGTATTATCTCTATGCTGTGCCTgtacggtcatcaatacaatggtttgcaggcaagagcagttccccagttat #### Slc22a12_ID1792_5 --> 1 - 0 Original Alignment gTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGC-CTGCAGGAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaaggTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTCTTGCAGGAGCTACAAAAGACATCTGCAGTCA-TAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from CESAR gTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGC-CTGCAGGAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaaggTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTCTTGCAGGAGCTACAAAAGACATCTGCAGTC-ATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Spaln_aa2Genome GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAGGAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTCTTGCAGGAGCTACAAAAGACATCTGCAGTCATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Spaln_nt2Genome GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCT-GCAGGAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTCTTGCAGGAGCTACAAAAGACATCTGCAGTC-ATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Pairagon GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGG-CCTGCAGGAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTCTTGCAGGAGCTACAAAAGACATCTGCAGTC-ATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Exonerate_protein2genome GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAGGAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTCTTGCAGGAGCTACAAAAGACATCTGCAGTCATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from Exonerate_coding2genome tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaaggtggttgccagaatctacacagtggcttataacagtgggtaagctagatcaaagtcttgcaggagctacaaaagacatctgcagtcatagaaggaaagcagagggagataccctgacaatggaggtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct Alignment from GeneWise GTGGCTACCAGAATCGGCACGCTGGCTCATCACGGTAGGCAAGCTGGACCAGGGCCTGCAGGAACTACAGAGGGTAGCTGCTGTCAACAGGAGGAAGGCAGAGGGAGACACGTTGACCATGGAG tttcacctgaaggtctgctcctcaccaggacatgtctggcttaacttaagGTGGTTGCCAGAATCTACACAGTGGCTTATAACAGTGGGTAAGCTAGATCAAAGTCTTGCAGGAGCTACAAAAGACATCTGCAGTCATAGAAGGAAAGCAGAGGGAGATACCCTGACAATGGAGgtaagtagataaggagtattatgcctcaaatgcctccctatagagaccct #### Slc22a12_ID1793_4 --> 2 - 2 Original Alignment tgATGGAGTGGACATCAGCCCAGGGTAGCCCTTTGGTGATGACCTTGAACGCCTTGGGCTTCAGCTTTGGGCAGGTCCTGACAGGTTCTGTGGCCTATGGTGTGCGCAGCTGG-AGGATGCTACAGCTGGCTGTCTCTGCCCCCTTCTTCCTCTTCTTTGTTTATTCAtg tcccagagtgattgctccaagggtagtgtgtctgtattcttgttatttagtaATGGAATGGACACTGACAGAAGGAAGCCCTCTGGTCATGATTCTGAATGCCTTGGGTTTTAGCTTTGTCCAAGTCTTAACAGGATCAGTAGCTCATGGTGTGCGCAGTTGGCAGTATGCTGCAGCTGACTGTATCTGTCCCTTTCT-CCTTTTTTTTGTTTACTCAtggtgaggactatgtgtccagaatgattcgatgtaccaaggtcactgtgcat Alignment from CESAR tgATGGAGTGGACATCAGCCCAGGGTAGCCCTTTGGTGATGACCTTGAACGCCTTGGGCTTCAGCTTTGGGCAGGTCCTGACAGGTTCTGTGGCCTATGGTGTGCGCAGCTGGAGG-ATGCTACAGCTGGCTGTCTCTGCCCCCTTCTTCCTCTTCTTTGTTTATTCAtg tcccagagtgattgctccaagggtagtgtgtctgtattcttgttatttagtaATGGAATGGACACTGACAGAAGGAAGCCCTCTGGTCATGATTCTGAATGCCTTGGGTTTTAGCTTTGTCCAAGTCTTAACAGGATCAGTAGCTCATGGTGTGCGCAGTTGGCAGTATGCTGCAGCTGACTGTATCTGTCCCTT-TCTCCTTTTTTTTGTTTACTCAtggtgaggactatgtgtccagaatgattcgatgtaccaaggtcactgtgcat Alignment from Spaln_aa2Genome TGATGGAGTGGACATCAGCCCAGGGTAGCCCTTTGGTGATGACCTTGAACGCCTTGGGCTTCAGCTTTGGGCAGGTCCTGACAGGTTCTGTGGCCTATGGTGTGCGCAGCTGGAGGATGCTACAGCTGGCTGTCTCTGCCCCCTTCTTCCTCTTCTTTGTTTATTCATG tcccagagtgattgctccaagggtagtgtgtctgtattcttgttatttagTAATGGAATGGACACTGACAGAAGGAAGCCCTCTGGTCATGATTCTGAATGCCTTGGGTTTTAGCTTTGTCCAAGTCTTAACAGGATCAGTAGCTCATGGTGTGCGCAGTTGGCAGTATGCTGCAGCTGACTGTATCTGTCCCTTTCTCCTTTTTTTTGTTTACTCATGgtgaggactatgtgtccagaatgattcgatgtaccaaggtcactgtgcat Alignment from Spaln_nt2Genome TGATGGAGTGGACATCAGCCCAGGGTAGCCCTTTGGTGATGACCTTGAACGCCTTGGGCTTCAGCTTTGGGCAGGTCCTGACAGGTTCTGTGGCCTATGGTGTGCGCAGCTGG-AGGATGCTACAGCTGGCTGTCTCTGCCCCCTTCTTCCTCTTCTTTGTTTATTCATG tcccagagtgattgctccaagggtagtgtgtctgtattcttgttatttagTAATGGAATGGACACTGACAGAAGGAAGCCCTCTGGTCATGATTCTGAATGCCTTGGGTTTTAGCTTTGTCCAAGTCTTAACAGGATCAGTAGCTCATGGTGTGCGCAGTTGGCAGTATGCTGCAGCTGACTGTATCTGTCCCTTTC-TCCTTTTTTTTGTTTACTCATGgtgaggactatgtgtccagaatgattcgatgtaccaaggtcactgtgcat Alignment from Pairagon TGATGGAGTGGACATCAGCCCAGGGTAGCCCTTTGGTGATGACCTTGAACGCCTTGGGCTTCAGCTTTGGGCAGGTCCTGACAGGTTCTGTGGCCTATGGTGTGCGCAGCTGG-AGGATGCTACAGCTGGCTGTCTCTGCCCCCTTCTTCCTCTTCTTTGTTTATTCATG tcccagagtgattgctccaagggtagtgtgtctgtattcttgttatttagTAATGGAATGGACACTGACAGAAGGAAGCCCTCTGGTCATGATTCTGAATGCCTTGGGTTTTAGCTTTGTCCAAGTCTTAACAGGATCAGTAGCTCATGGTGTGCGCAGTTGGCAGTATGCTGCAGCTGACTGTATCTGTCCCTTTC-TCCTTTTTTTTGTTTACTCATGgtgaggactatgtgtccagaatgattcgatgtaccaaggtcactgtgcat Alignment from Exonerate_protein2genome TGATGGAGTGGACATCAGCCCAGGGTAGCCCTTTGGTGATGACCTTGAACGCCTTGGGCTTCAGCTTTGGGCAGGTCCTGACAGGTTCTGTGGCCTATGGTGTGCGCAGCTGGAGGATGCTACAGCTGGCTGTCTCTGCCCCCTTCTTCCTCTTCTTTGTTTATTCATG tcccagagtgattgctccaagggtagtgtgtctgtattcttgttatttagTAATGGAATGGACACTGACAGAAGGAAGCCCTCTGGTCATGATTCTGAATGCCTTGGGTTTTAGCTTTGTCCAAGTCTTAACAGGATCAGTAGCTCATGGTGTGCGCAGTTGGCAGTATGCTGCAGCTGACTGTATCTGTCCCTTTCTCCTTTTTTTTGTTTACTCATGgtgaggactatgtgtccagaatgattcgatgtaccaaggtcactgtgcat Alignment from Exonerate_coding2genome TGATGGAGTGGACATCAGCCCAGGGTAGCCCTTTGGTGATGACCTTGAACGCCTTGGGCTTCAGCTTTGGGCAGGTCCTGACAGGTTCTGTGGCCTATGGTGTGCGCAGCTGGAGGATGCTACAGCTGGCTGTCTCTGCCCCCTTCTTCCTCTTCTTTGTTTATTCATG tcccagagtgattgctccaagggtagtgtgtctgtattcttgttatttagTAATGGAATGGACACTGACAGAAGGAAGCCCTCTGGTCATGATTCTGAATGCCTTGGGTTTTAGCTTTGTCCAAGTCTTAACAGGATCAGTAGCTCATGGTGTGCGCAGTTGGCAGTATGCTGCAGCTGACTGTATCTGTCCCTTTCTCCTTTTTTTTGTTTACTCATGgtgaggactatgtgtccagaatgattcgatgtaccaaggtcactgtgcat Alignment from GeneWise TGATGGAGTGGACATCAGCCCAGGGTAGCCCTTTGGTGATGACCTTGAACGCCTTGGGCTTCAGCTTTGGGCAGGTCCTGACAGGTTCTGTGGCCTATGGTGTGCGCAGCTGGAGGATGCTACAGCTGGCTGTCTCTGCCCCCTTCTTCCTCTTCTTTGTTTATTCATG tcccagagtgattgctccaagggtagtgtgtctgtattcttgttatttagTAATGGAATGGACACTGACAGAAGGAAGCCCTCTGGTCATGATTCTGAATGCCTTGGGTTTTAGCTTTGTCCAAGTCTTAACAGGATCAGTAGCTCATGGTGTGCGCAGTTGGCAGTATGCTGCAGCTGACTGTATCTGTCCCTTTCTCCTTTTTTTTGTTTACTCATGgtgaggactatgtgtccagaatgattcgatgtaccaaggtcactgtgcat #### Slc22a12_ID1794_3 --> 1 - 1 Original Alignment gTTTGGGCGCAGA-AGGGTGCTGACCTGGAGCTAT---------------CTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt cctgttatccagagaactattactgcgcatgttttgctttcctacctcaggTTCGGCTGCCGGCAGAGTTCTGACCTGGAGCTACCTGACCTGGAGCT-CCTTTTGGTGTCTGTTTCCGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTATTCTTTACTACTAGCCTCCTCCGTGGCTGGAATCATGATGAATACAGCTAGTCTTtgtatgacccgtggttgctggctgacagaacaatttatcacacctcactca Alignment from CESAR gTTTGGGCGCAGA-AGGGTGCTGACCTGGAGCTATCTT--CTG------------GTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt cctgttatccagagaactattactgcgcatgttttgctttcctacctcaggTTCGGCTGCCGGCAGAGTTCTGACCTGGAGCTACCTGACCTGGAGCTCCTTTTGGTGTCTGTTTCCGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTATTCTTTACTACTAGCCTCCTCCGTGGCTGGAATCATGATGAATACAGCTAGTCTTtgtatgacccgtggttgctggctgacagaacaatttatcacacctcactca Alignment from Spaln_aa2Genome GTTTGGGCGCAGAAGG---------------GTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT cctgttatccagagaactattactgcgcatgttttgctttcctacctcagGTTCGGCTGCCGGCAGAGTTCTGACCTGGAGCTACCTGACCTGGAGCTCCTTTTGGTGTCTGTTTCCGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTATTCTTTACTACTAGCCTCCTCCGTGGCTGGAATCATGATGAATACAGCTAGTCTTTgtatgacccgtggttgctggctgacagaacaatttatcacacctcactca Alignment from Spaln_nt2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT cctgttatccagagaactattactgcgcatgttttgctttcctacctcaggttcggctgccggcagAGTTCTGACCTGGAGCTACCTGACCTGGAGCT-CCTTTTGGTGTCTGTTTCCGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTATTCTTTACTACTAGCCTCCTCCGTGGCTGGAATCATGATGAATACAGCTAGTCTTTgtatgacccgtggttgctggctgacagaacaatttatcacacctcactca Alignment from Pairagon GTTTGGGCG-CAGAAGGGTGCTGACCTGGAGCTA--------------TCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT cctgttatccagagaactattactgcgcatgttttgctttcctacctcagGTTCGGCTGCCGGCAGAGTTCTGACCTGGAGCTACCTGACCTGGAGCTCCTTTTGGTGTCTGTTTCCGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTATTCTTTACTACTAGCCTCCTCCGTGGCTGGAATCATGATGAATACAGCTAGTCTTTgtatgacccgtggttgctggctgacagaacaatttatcacacctcactca Alignment from Exonerate_protein2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGC--TATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT cctgttatccagagaactattactgcgcatgttttgctttcctacctcaggttcggctgccggcagAGTTCTGACCTGGAGCTACCTGACCTGGAGCTC---CTTTTGGTGTCTGTTTCCGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTATTCTTTACTACTAGCCTCCTCCGTGGCTGGAATCATGATGAATACAGCTAGTCTTTgtatgacccgtggttgctggctgacagaacaatttatcacacctcactca Alignment from Exonerate_coding2genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGC--TATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT cctgttatccagagaactattactgcgcatgttttgctttcctacctcaggttcggctgccggcagAGTTCTGACCTGGAGCTACCTGACCTGGAGCTC---CTTTTGGTGTCTGTTTCCGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTATTCTTTACTACTAGCCTCCTCCGTGGCTGGAATCATGATGAATACAGCTAGTCTTTgtatgacccgtggttgctggctgacagaacaatttatcacacctcactca Alignment from GeneWise GTTTGGGCGCAGAAGG---------------GTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT cctgttatccagagaactattactgcgcatgttttgctttcctacctcagGTTCGGCTGCCGGCAGAGTTCTGACCTGGAGCTACCTGACCTGGAGCTCCTTTTGGTGTCTGTTTCCGTCACAGGTGCTGCTTTCATGCCCACCTTCCCACTGCATTGTCTGTATTCTTTACTACTAGCCTCCTCCGTGGCTGGAATCATGATGAATACAGCTAGTCTTTgtatgacccgtggttgctggctgacagaacaatttatcacacctcactca #### Slc22a20_ID1344_9 --> 1 - 2 Original Alignment gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCT-GTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAcg gactcaatcatctctagaccaggtcctttcttttctgttgcttgctctaggCAAATGGGTATGGAGTTGACTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATCACATCATTAGGCGAAATCAGCCCAGTATTACCACCTCGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCATGG-TGTAGCTTGCTTCCTAACC---ACTCGTAATGTACCACTAGTCGAAGTTATCACTGCTATGGAGAGAcggtaaggacattctgatgatgaccagcaacgcttatgtcatgtggacgtat Alignment from CESAR gCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCT-GTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGAcg gactcaatcatctctagaccaggtcctttcttttctgttgcttgctctaggCAAATGGGTATGGAGTTGACTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATCACATCATTAGGCGAAATCAGCCCAGTATTACCACCTCGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCATGG-TGTAGCTTGCTTCCTAACC---ACTCGTAATGTACCACTAGTCGAAGTTATCACTGCTATGGAGAGAcggtaaggacattctgatgatgaccagcaacgcttatgtcatgtggacgtat Alignment from Spaln_aa2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gactcaatcatctctagaccaggtcctttcttttctgttgcttgctctagGCAAATGGGTATGGAGTTGACTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATCACATCATTAGGCGAAATCAGCCCAGTATTACCACCTCGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCATGGTGTAGCTTGCTTCCTAACC---ACTCGTAATGTACCACTAGTCGAAGTTATCACTGCTATGGAGAGACGgtaaggacattctgatgatgaccagcaacgcttatgtcatgtggacgtat Alignment from Spaln_nt2Genome GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCT-GTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gactcaatcatctctagaccaggtcctttcttttctgttgcttgctctagGCAAATGGGTATGGAGTTGACTTCTGTCAATGC---TATTGGAGGTTTGGTGCTCCCATTGATCACATCATTAGGCGAAATCAGCCCAGTATTACCACCTCGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCATGG-TGTAGCTTGCTTCCTAAC---CACTCGTAATGTACCACTAGTCGAAGTTATCACTGCTATGGAGAGACGgtaaggacattctgatgatgaccagcaacgcttatgtcatgtggacgtat Alignment from Pairagon GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCT-GTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gactcaatcatctctagaccaggtcctttcttttctgttgcttgctctagGCAAATGGGTATGGAGTTGACTTCTGTCAATGC---TATTGGAGGTTTGGTGCTCCCATTGATCACATCATTAGGCGAAATCAGCCCAGTATTACCACCTCGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCATGG-TGTAGCTTGCTTCCTAACC---ACTCGTAATGTACCACTAGTCGAAGTTATCACTGCTATGGAGAGACGgtaaggacattctgatgatgaccagcaacgcttatgtcatgtggacgtat Alignment from Exonerate_protein2genome GATCAGGCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gactcaatcatctctagaccaggtcctttcttttctgttgcttgCTCTAGGCAAATGGGTATGGAGTTGACTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATCACATCATTAGGCGAAATCAGCCCAGTATTACCACCTCGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCATGGTGTAGCTTGCTTCCTAACC---ACTCGTAATGTACCACTAGTCGAAGTTATCACTGCTATGGAGAGACGgtaaggacattctgatgatgaccagcaacgcttatgtcatgtggacgtat Alignment from Exonerate_coding2genome gactcaatcatctctagaccaggtcctttcttttctgttgcttgctctaggcaaatgggtatggagttgacttctgtcaatgctattggaggtttggtgctcccattgatcacatcattaggcgaaatcagcccagtattaccacctcgtattttctggtgctacatctgttctagctggcatggtgtagcttgcttcctaaccactcgtaatgtaccactagtcgaagttatcactgctatggagagacggtaaggacattctgatgatgaccagcaacgcttatgtcatgtggacgtat Alignment from GeneWise GCAGATGGGGATGGGATTTGCTTCTGTCAATGCCCGCCTCGGAGGCTTGGTGGCACCCCTGATCACCACACTTGGCGAGATCAGTCCAGTTCTGCCACCTGTATCCTTTGGTGCCACTTCAGTCTTGGCTGGAATGGCTGTCGCCTGCTTCCTGACTGAGACCCGCAATGTGCCACTGGTAGAAACTATTGCTGCAATGGAGAGACG gactcaatcatctctagaccaggtcctttcttttctgttgcttgctctagGCAAATGGGTATGGAGTTGACTTCTGTCAATGCT---ATTGGAGGTTTGGTGCTCCCATTGATCACATCATTAGGCGAAATCAGCCCAGTATTACCACCTCGTATTTTCTGGTGCTACATCTGTTCTAGCTGGCATGGTGTAGCTTGCTTCCTAACC---ACTCGTAATGTACCACTAGTCGAAGTTATCACTGCTATGGAGAGACGgtaaggacattctgatgatgaccagcaacgcttatgtcatgtggacgtat #### Slc22a20_ID1345_8 --> 2 - 2 Original Alignment atCTGCAGACCTTGCGGACAGTGCAGGCA-GCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag attggtattaaagaggagggtttgatacacttttccttcctcatccacaggtCAGCAAATGTTGCGAACTGTGCAAGCCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTG-TTACCTCTTTATAGGGGGACTATATCCA------ATCaggtaagaccaggactcaatcatctctagaccaggtccttaaagtttctgat Alignment from CESAR atCTGCAGACCTTGCGGACAGTGCAGGCA-GCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCag attggtattaaagaggagggtttgatacacttttccttcctcatccacaggtCAGCAAATGTTGCGAACTGTGCAAGCCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTG-TTACCTCTTTATAGGGGGACTATATCCA------ATCaggtaagaccaggactcaatcatctctagaccaggtcctttcttttctgttg Alignment from Spaln_aa2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCA-GCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG attggtattaaagaggagggtttgatacacttttccttcctcatccacagGTCAGCAAATGTTGCGAACTGTGCAAGCCcGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGT-TACCTCTTTATAGGGGGACTATATCCA------ATCAGgtaagaccaggactcaatcatctctagaccaggtccttaaagtttctgat Alignment from Spaln_nt2Genome ATCTGCAGACCTTGCGGACAGTGCAGGCA-GCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG attggtattaaagaggagggtttgatacacttttccttcctcatccacagGTCAGCAAATGTTGCGAACTGTGCAAGCCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGT-TACCTCTTTATAGGGGGACTATATCC------AATCAGgtaagaccaggactcaatcatctctagaccaggtccttaaagtttctgat Alignment from Pairagon attggtattaaagaggagggtttgatacacttttccttcctcatccacaggtcagcaaatgttgcgaactgtgcaagcccgaattagggaagggctgtctcttgagttcatttatctgtgttacctctttatagggggactatatccaatcaggtaagaccaggactcaatcatctctagaccaggtccttaaagtttctgat Alignment from Exonerate_protein2genome ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG attggtattaaagaggagggtttgatacacttttccttcctcatccacagGTCAGCAAATGTTGCGAACTGTGCAAGCCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGTTACCTCTTTATAGGGGGACTATATCCA------ATCAGgtaagaccaggactcaatcatctctagaccaggtccttaaagtttctgat Alignment from Exonerate_coding2genome attggtattaaagaggagggtttgatacacttttccttcctcatccacaggtcagcaaatgttgcgaactgtgcaagcccgaattagggaagggctgtctcttgagttcatttatctgtgttacctctttatagggggactatatccaatcaggtaagaccaggactcaatcatctctagaccaggtccttaaagtttctgat Alignment from GeneWise ATCTGCAGACCTTGCGGACAGTGCAGGCAGCGCTGGGCAAAGGCTGCCTGGCCAGCTCCTTCATCTGCGTGTATCTGTTCACGGGAGAACTCTATCCCACAGAGATCAG attggtattaaagaggagggtttgatacacttttccttcctcatccacagGTCAGCAAATGTTGCGAACTGTGCAAGCCCGAATTAGGGAAGGGCTGTCTCTTGAGTTCATTTATCTGTGTTACCTCTTTATAGGGGGACTATATCCA------ATCAGgtaagaccaggactcaatcatctctagaccaggtccttaaagtttctgat #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAG-TCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCT-GTTTGGTTGTGTAGCAGACaggtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCT-CAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTG-CCTGTTTGGTTGTGTAGCAGACaggtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Spaln_aa2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTC-AGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCC-TGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGG-CTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCC-TGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Exonerate_protein2genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from Exonerate_coding2genome gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagtgggatctggtttgtgaaacccgcactctacatgacctggccccactctatctatatgtctggaatatcagtaggcgctgcctgtttggttgtgtagcagacaggtacgagacttggatgaggaactctattcccttactcttaattgtaagtt Alignment from GeneWise TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gcctaaccacacaaccatagtgcagtgcaaccttgtcacatttcttgcagTGGGATCTGGTTTGTGAAACCCGCACTCTACATGACCTGGCCCCACTCTATCTATATGTCTGGAATATCAGTAGGCGCTGCCTGTTTGGTTGTGTAGCAGACAGgtacgagacttggatgaggaactctattcccttactcttaattgtaagtt #### Slc22a6_ID2284_5 --> 1 - 0 Original Alignment gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGA-AGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactcaataacttactatgctgatttctgtatttaaatgctgtccccaggTTCTACATTGAGTCAACACGGTGGTAC---TCATCTGGTCAGGTTAGACTTTACCCTCCGAGCTTTGCAGAGAGTGG-TTGTATCAATGCAAAACAGGAAGAAGGGCCCAAACTGTGCATTGAGgtaaggtctagccttatcatgctcagatgggatctgcattactcctagac Alignment from CESAR gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactcaataacttactatgctgatttctgtatttaaatgctgtccccaggTTCTACATTGAGTCAACACGGTGGTACTCATCTGGT--CAGGTTAGACTTTACCCTCCGAGCTTTGCAGAGAGTGGTT-GTATCAATGCAAAACAGGAAGAAGGGCCCAAACTGTGCATTGAGgtaaggtctagccttatcatgctcagatgggatctgcattactcctagac Alignment from Spaln_aa2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactcaataacttactatgctgatttctgtatttaaatgctgtccccagGTTCTACATTGAGTCAACACGGTGGTAC---TCATCTGGTCAGGTTAGACTTTACCCTCCGAGCTTTGCAGAGAGTGGTTGTATCAATGCAAAACAGGAAGAAGGGCCCAAACTGTGCATTGAGgtaaggtctagccttatcatgctcagatgggatctgcattactcctagac Alignment from Spaln_nt2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGA-AGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactcaataacttactatgctgatttctgtatttaaatgctgtccccagGTTCTACATTGAGTCAACACGGTGGTA---CTCATCTGGTCAGGTTAGACTTTACCCTCCGAGCTTTGCAGAGAGTGG-TTGTATCAATGCAAAACAGGAAGAAGGGCCCAAACTGTGCATTGAGgtaaggtctagccttatcatgctcagatgggatctgcattactcctagac Alignment from Pairagon GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGG-AAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactcaataacttactatgctgatttctgtatttaaatgctgtccccagGTTCTACATTGAGTCAACACGGTGGTA---CTCATCTGGTCAGGTTAGACTTTACCCTCCGAGCTTTGCAGAGAGTGG-TTGTATCAATGCAAAACAGGAAGAAGGGCCCAAACTGTGCATTGAGgtaaggtctagccttatcatgctcagatgggatctgcattactcctagac Alignment from Exonerate_protein2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactcaataacttactatgctgatttctgtatttaaatgctgtccccagGTTCTACATTGAGTCAACACGGTGGTAC---TCATCTGGTCAGGTTAGACTTTACCCTCCGAGCTTTGCAGAGAGTGGTTGTATCAATGCAAAACAGGAAGAAGGGCCCAAACTGTGCATTGAGgtaaggtctagccttatcatgctcagatgggatctgcattactcctagac Alignment from Exonerate_coding2genome aaactcaataacttactatgctgatttctgtatttaaatgctgtccccaggttctacattgagtcaacacggtggtactcatctggtcaggttagactttaccctccgagctttgcagagagtggttgtatcaatgcaaaacaggaagaagggcccaaactgtgcattgaggtaaggtctagccttatcatgctcagatgggatctgcattactcctagac Alignment from GeneWise GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaactcaataacttactatgctgatttctgtatttaaatgctgtccccagGTTCTACATTGAGTCAACACGGTGGTACTCATCT---GGTCAGGTTAGACTTTACCCTCCGAGCTTTGCAGAGAGTGGTTGTATCAATGCAAAACAGGAAGAAGGGCCCAAACTGTGCATTGAGgtaaggtctagccttatcatgctcagatgggatctgcattactcctagac #### Slc22a8_ID2270_3 --> 1 - 1 Original Alignment gTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTC-TTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGa gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacaggTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCACTTGTTAACTGCAAGTGCTTGCAGTGGTG-CCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAagtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from CESAR gTTTGGCCGCAAGCCCATCCTGACCTGGAGCTAT-CTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGa gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacaggTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCACTTGTTAACTGCAAGTGCTTGCAGTGGTGCC-TTAGCCCAACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAagtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Spaln_aa2Genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGA gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCACTTGTTAACTGCAAGTGCTTGCAGTGGTGCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Spaln_nt2Genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTAT-CTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCA---GCCTCAC---TGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTGAGC---ACCATTATCTTGA gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCACTTGTTAACTGCAAGTGCTTGCAGTGGTGCCTT-AGCCCAACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Pairagon GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTA-TCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCCAGCC------------TCACTGTCTATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTGAG gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCACTTGTTAACTGCAAGTGCTTGCAGTGGTGCCTT-------AGCCCAACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGgtgtacaactactctaagtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Exonerate_protein2genome GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTG---AGCACCATTATCTTGA gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCACTTGTTAACTGCAAGTGCTTGCAGTGGTGCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from Exonerate_coding2genome gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacaggtttggtcaccagcccattctcacctggagttattcacttgttaactgcaagtgcttgcagtggtgccttagcccaactagccttaccattttttatattcttttccaagttctatgcagttgcagcatctcaggcatttctttgaggtgtacaactactctaagtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg Alignment from GeneWise GTTTGGCCGCAAGCCCATCCTGACCTGGAGCTATCTCTTGCTGGCAGCCAGTGGCTCCAGTGCTGCCTTCAGCCCC---AGCCTCACTGTC---TATATGATCTTCCGATTCCTGTGTGGCTGCAGCATCTCGGGCATTTCTCTGAGC---ACCATTATCTTGA gatggtcccaaaagcatgctctcaagccatgtcctttctgcccccaacagGTTTGGTCACCAGCCCATTCTCACCTGGAGTTATTCACTTGTTAACTGCAAGTGCTTGCAGTGGTGCCTTAGCCCAACTAGCCTTACCATTTTTTATATTCTTTTCCAAGTTCTATGCAGTTGCAGCATCTCAGGCATTTCTTTGAGGTGTACAACTACTCTAAgtaatttcatagtattgccagaccaggcattttgtgtggccttgggtagg #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aaATGCAGCTCTTGAGA-ACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tcttccttagcaaattcacatgcaaaagtctcaaccgtttgtgtccccagaaATGGAGATCGTGAGGCACAGCACTAGCTGTGTTTGGCATGGGATGCTTATCTGGTGCCT-TAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCaggtacgtgttctttgggttagcagaccactaaaagagtggtatgcccaatt Alignment from CESAR aaATGCAGCTCTTGAGA-ACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tcttccttagcaaattcacatgcaaaagtctcaaccgtttgtgtccccagaaATGGAGATCGTGAGGCACAGCACTAGCTGTGTTTGGCATGGGATGCTTATCTGGTGCC-TTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCaggtacgtgttctttgggttagcagaccactaaaagagtggtatgcccaatt Alignment from Spaln_aa2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tcttccttagcaaattcacatgcaaaagtctcaaccgtttgtgtccccagAAATGGAGATCGTGAGGCACAGCACTAGCTGTGTTTGGCATGGGATGCTTATCTGGTGCCTTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtacgtgttctttgggttagcagaccactaaaagagtggtatgcccaatt Alignment from Spaln_nt2Genome AAATGCAGCTCTTGAGA-ACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tcttccttagcaaattcacatgcaaaagtctcaaccgtttgtgtccccagAAATGGAGATCGTGAGGCACAGCACTAGCTGTGTTTGGCATGGGATGCTTATCTGGTGCCTT-AGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtacgtgttctttgggttagcagaccactaaaagagtggtatgcccaatt Alignment from Pairagon AAATGCAGCTCTTGAGA-ACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tcttccttagcaaattcacatgcaaaagtctcaaccgtttgtgtccccagAAATGGAGATCGTGAGGCACAGCACTAGCTGTGTTTGGCATGGGATGCTTATCTGGTGCCTT-AGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtacgtgttctttgggttagcagaccactaaaagagtggtatgcccaatt Alignment from Exonerate_protein2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tcttccttagcaaattcacatgcaaaagtctcaaccgtttgtgtccccagAAATGGAGATCGTGAGGCACAGCACTAGCTGTGTTTGGCATGGGATGCTTATCTGGTGCCTTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtacgtgttctttgggttagcagaccactaaaagagtggtatgcccaatt Alignment from Exonerate_coding2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tcttccttagcaaattcacatgcaaaagtctcaaccgtttgtgtccccagAAATGGAGATCGTGAGGCACAGCACTAGCTGTGTTTGGCATGGGATGCTTATCTGGTGCCTTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtacgtgttctttgggttagcagaccactaaaagagtggtatgcccaatt Alignment from GeneWise AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tcttccttagcaaattcacatgcaaaagtctcaaccgtttgtgtccccagAAATGGAGATCGTGAGGCACAGCACTAGCTGTGTTTGGCATGGGATGCTTATCTGGTGCCTTAGCTGCCTCTTCTTTTACACTAGTGAGCTCTACCCCAGAGTTCTCAGgtacgtgttctttgggttagcagaccactaaaagagtggtatgcccaatt #### Slc25a45_ID1293_4 --> 0 - 0 Original Alignment GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTC------GGAGTGTACAGCAACACGCTCCTGGCG-CTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG tggtacaggattccactgccaaagtttgttatgtctcctatcccctgcagGTTCTAGGATTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAACTCTGGTTAATTCGGTCTTGTTTTTGTTTGGAGTGTATAGCAACACACTTGTGGCACTTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTC-AAGTCACACAAATACCTTTATAGCAGGTTGTACAAGAGGTCTCCGGCAGgtcagtaggtcatggacaaaggataacttacatacacttaggttggagaa Alignment from CESAR GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTC------CTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTA-ACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG tggtacaggattccactgccaaagtttgttatgtctcctatcccctgcagGTTCTAGGATTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAACTCTGGTTAATTCGGTCTTGTTTTTGTTTGGAGTGTATAGCAACACACTTGTGGCACTTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCT-CAAGTCACACAAATACCTTTATAGCAGGTTGTACAAGAGGTCTCCGGCAGgtcagtaggtcatggacaaaggataacttacatacacttaggttggagaa Alignment from Spaln_aa2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTC------CTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG tggtacaggattccactgccaaagtttgttatgtctcctatcccctgcagGTTCTAGGATTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAACTCTGGTTAATTCGGTCTTGTTTTTGTTTGGAGTGTATAGCAACACACTTGTGGCACTTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCAAGTCACACAAATACCTTTATAGCAGGTTGTACAAGAGGTCTCCGGCAGgtcagtaggtcatggacaaaggataacttacatacacttaggttggagaa Alignment from Spaln_nt2Genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTC------GGAGTGTACAGCAACACGCTCCTGGCGCT-AACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG tggtacaggattccactgccaaagtttgttatgtctcctatcccctgcagGTTCTAGGATTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAACTCTGGTTAATTCGGTCTTGTTTTTGTTTGGAGTGTATAGCAACACACTTGTGGCACTTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCC-TCAAGTCACACAAATACCTTTATAGCAGGTTGTACAAGAGGTCTCCGGCAGgtcagtaggtcatggacaaaggataacttacatacacttaggttggagaa Alignment from Pairagon GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTC------CTGTTCGGAGTGTACAGCAACACGCTCCTGGCGC-TAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG tggtacaggattccactgccaaagtttgttatgtctcctatcccctgcagGTTCTAGGATTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAACTCTGGTTAATTCGGTCTTGTTTTTGTTTGGAGTGTATAGCAACACACTTGTGGCACTTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCC-TCAAGTCACACAAATACCTTTATAGCAGGTTGTACAAGAGGTCTCCGGCAGgtcagtaggtcatggacaaaggataacttacatacacttaggttggagaa Alignment from Exonerate_protein2genome GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTC------CTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG tggtacaggattccactgccaaagtttgttatgtctcctatcccctgcagGTTCTAGGATTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAACTCTGGTTAATTCGGTCTTGTTTTTGTTTGGAGTGTATAGCAACACACTTGTGGCACTTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCAAGTCACACAAATACCTTTATAGCAGGTTGTACAAGAGGTCTCCGGCAGgtcagtaggtcatggacaaaggataacttacatacacttaggttggagaa Alignment from Exonerate_coding2genome CGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCAGTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTC------CTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG TGGTACAGGATTCCACTGCCAAAGTTTGTTATGTCTCCTATCCCCTGCAGGTTCTAGGATTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAACTCTGGTTAATTCGGTCTTGTTTTTGTTTGGAGTGTATAGCAACACACTTGTGGCACTTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCAAGTCACACAAATACCTTTATAGCAGGTTGTACAAGAGGTCTCCGGCAGgtcagtaggtcatggacaaaggataacttacatacacttaggttggagaa Alignment from GeneWise GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTC------GGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG tggtacaggattccactgccaaagtttgttatgtctcctatcccctgcagGTTCTAGGATTCTTTAAAGGAATGAGTTTCCCAATAGCTACTGTAACTCTGGTTAATTCGGTCTTGTTTTTGTTTGGAGTGTATAGCAACACACTTGTGGCACTTAACAGCCACATCCCATCAGGAACACCAGGTTCAGCCTCAAGTCACACAAATACCTTTATAGCAGGTTGTACAAGAGGTCTCCGGCAGgtcagtaggtcatggacaaaggataacttacatacacttaggttggagaa #### Slc29a2_ID788_2 --> 1 - 0 Original Alignment cTACCACCTGGTTGGGATCAGCTTC-TTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagcTACCACCTTGCTGGCATCAGCTTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGA-TTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from CESAR cTACCACCTGGTTGGGATCAGC-TTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagcTACCACCTTGCTGGCATCAGCTTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCT-GGATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Spaln_aa2Genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagCTACCACCTTGCTGGCATCAGCTTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Spaln_nt2Genome CTACCACCTGGTTGGGATCAGCTT-CTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagCTACCACCTTGCTGGCATCAGCTTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGG-ATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Pairagon CTACCACCTGGTTGGGATCAGCT-TCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagCTACCACCTTGCTGGCATCAGCTTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGG-ATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Exonerate_protein2genome CTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgctctttccagCTACCACCTTGCTGGCATCAGCTTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from Exonerate_coding2genome TCGGGACAGCTACCACCTGGTTGGGATCAGCTT-CTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcagctactctcccctctgcTCTTTCCAGCTACCACCTTGCTGGCATCAGCTTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAT-TTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga Alignment from GeneWise GCGCGGGGAAACGCCCCTCGGGACAGCTACCACCTGGTTGGGATCAGCTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGAACTTCTTCATTACCGCCATCCCG gcgacatctgatggatggctggcaGCTACTCTCCCCTCTGCTCTTTCCAGCTACCACCTTGCTGGCATCAGCTTTCTTCATTCTGGGACTGGGCACCCTTCTCCCCTGGATTTCTTCATTACGGCAATCCCAgtgggttagtgcaatatggccaccttttcacaggctaagccttcttgaga #### Slc29a2_ID789_3 --> 0 - 2 Original Alignment TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACA-GACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAG---tg tgggggttactcttgagaggatccctgtattgtttgtttttatttaccagTATCTCCGGGGAGAATTGGCGGGTACTAACAGCAGTGCTGGCACCATCAGCAAAAACCACACTAGTCCTACTCGATGTATCAAATATCAACAATTGGGTGACGC-GCTATCACAATTGCCTCGATTATTGTTCACACTGCTCAACTCCTTCCTGTACCAGTGGtggtaagtaccatatagagtcaatctctcaactattatcatacacctcttgc Alignment from CESAR TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACA-GACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAG---tg tgggggttactcttgagaggatccctgtattgtttgtttttatttaccagTATCTCCGGGGAGAATTGGCGGGTACTAACAGCAGTGCTGGCACCATCAGCAAAAACCACACTAGTCCTACTCGATGTATCAAATATCAACAATTGGGTGACG-CGCTATCACAATTGCCTCGATTATTGTTCACACTGCTCAACTCCTTCCTGTACCAGTGGtggtaagtaccatatagagtcaatctctcaactattatcatacacctcttgc Alignment from Spaln_aa2Genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaggatccctgtattgtttgtttttatttaccagTATCTCCGGGGAGAATTGGCGGGTACTAACAGCAGTGCTGGCACCATCAGCAAAAACCACACTAGTCCTACTCGATGTATCAAATATCAACAATTGGGTGACGCGCTATCACAATTGCCTCGATTATTGTTCACACTGCTCAACTCCTTCCTGTACCAGTGgtggtaagtaccatatagagtcaatctctcaactattatcatacacctcttgc Alignment from Spaln_nt2Genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACT-TCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG--- tgggggttactcttgagaggatccctgtattgtttgtttttatttaccagTATCTCCGGGGAGAATTGGCGGGTACTAACAGCAGTGCTGGCACCATCAGCAAAAACCACACTAGTCCTACTCGATGTATCAAATATCAACAATTGGGTGACGC-GCTATCACAATTGCCTCGATTATTGTTCACACTGCTCAACTCCTTCCTGTACCAGTGGTGgtaagtaccatatagagtcaatctctcaactattatcatacacctcttgc Alignment from Pairagon TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCAC--------------AGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaggatccctgtattgtttgtttttatttaccagTATCTCCGGGGAGAATTGGCGGGTACTAACAGCAGTGCTGGCACCATCAGCAAAAACCACACTAGTCCTACTCGATGTATCAAATA-------------TCAACAATTGGGTGACGC-GCTATCACAATTGCCTCGATTATTGTTCACACTGCTCAACTCCTTCCTGTACCAGTGgtggtaagtaccatatagagtcaatctctcaactattatcatacacctcttgc Alignment from Exonerate_protein2genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaggatccctgtattgtttgtttttatttaccagTATCTCCGGGGAGAATTGGCGGGTACTAACAGCAGTGCTGGCACCATCAGCAAAAACCACACTAGTCCTACTCGATGTATCAAATATCAACAATTGGGTGACGCGCTATCACAATTGCCTCGATTATTGTTCACACTGCTCAACTCCTTCCTGTACCAGTGgtggtaagtaccatatagagtcaatctctcaactattatcatacacctcttgc Alignment from Exonerate_coding2genome TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaggatccctgtattgtttgtttttatttaccagTATCTCCGGGGAGAATTGGCGGGTACTAACAGCAGTGCTGGCACCATCAGCAAAAACCACACTAGTCCTACTCGATGTATCAAATATCAACAATTGGGTGACGCGCTATCACAATTGCCTCGATTATTGTTCACACTGCTCAACTCCTTCCTGTACCAGTGgtggtaagtaccatatagagtcaatctctcaactattatcatacacctcttgc Alignment from GeneWise TACTTCCAGGGGCGGTTAGCAGGGACCAACAGCAGTGCTGAGACCATGGGCACCAACCACACCAGTCCCACAGACACTTTCAACTTCAACAACTGGGTGACACTGCTGTCCCAGCTGCCTCTACTGCTCTTCACGCTCCTCAACTCCTTCCTGTATCAGTG tgggggttactcttgagaggatccctgtattgtttgtttttatttaccagTATCTCCGGGGAGAATTGGCGGGTACTAACAGCAGTGCTGGCACCATCAGCAAAAACCACACTAGTCCTACTCGATGTATCAAATATCAACAATTGGGTGACGCGCTATCACAATTGCCTCGATTATTGTTCACACTGCTCAACTCCTTCCTGTACCAGTGgtggtaagtaccatatagagtcaatctctcaactattatcatacacctcttgc #### Slc29a2_ID792_6 --> 2 - 0 Original Alignment gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCC-TGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacaggtGATGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCTCTGTGTGGGCATCCTACTCCCCATTGTATGTT-CCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from CESAR gtGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCC-TGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacaggtGATGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCTCTGTGTGGGCATCCTACTCCCCATTGTAT-GTTCCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Spaln_aa2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCTCTGTGTGGGCATCCTACTCCCCATTGTATGTTCCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Spaln_nt2Genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACC-CTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCTCTGTGTGGGCATCCTACTCCCCATTGTATGTT-CCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Pairagon GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACC-CTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCTCTGTGTGGGCATCCTACTCCCCATTGTATGTT-CCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Exonerate_protein2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCTCTGTGTGGGCATCCTACTCCCCATTGTATGTTCCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from Exonerate_coding2genome GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCTCTGTGTGGGCATCCTACTCCCCATTGTATGTTCCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac Alignment from GeneWise GTGGCGTGGATGCCCAGACCTCTGCTCTTGGATACTTCATCACACCCTGTGTGGGCATCCTCCTCTCCATCGTATGTTACCTCAGCCTGCCTCATCTG acaaacgaagctggaatgggggacatttcagttctgttccttccctacagGTGATGTGGATGCCCAAACCTCTGCTCTGGGATACTTCATCACACCTCTGTGTGGGCATCCTACTCCCCATTGTATGTTCCTTAGCTTGCCACACCTGgtaaattgcttcataatttatgtgatgcatggaccgcttaaatataaaac #### Slc29a2_ID795_9 --> 0 - 1 Original Alignment ATCTGGCTGACGGCGCTG-TGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg ttgacctaaatactgactatccagaggcttttccctttatcctttcacagATCTGGCTGACAGCGCTGCTGCCTTGTGTTAGTCTTCACAGTTACCCTCTCTGTTT-TCCTGCAATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtgtgtatttgccatactccacagtatggaccagaagagccatttcttgt Alignment from CESAR ATCTGGCTGACGGCGCTG-TGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg ttgacctaaatactgactatccagaggcttttccctttatcctttcacagATCTGGCTGACAGCGCTGCTGCCTTGTGTTAGTCTTCACAGTTACCCTCTCTG-TTTTCCTGCAATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGggtgtgtatttgccatactccacagtatggaccagaagagccatatgctgc Alignment from Spaln_aa2Genome GCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG ttgacctaaatactgactatccagaggcttttccctttatcctttcacagatctggctgacagCGCTGCTGCCTTGTGTTAGTCTTCACAGTTACCCTCTCTGT-TTTCCTGCAATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtgtgtatttgccatactccacagtatggaccagaagagccatttcttgt Alignment from Spaln_nt2Genome ATCTGGCTGACGGCGCTG-TGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG ttgacctaaatactgactatccagaggcttttccctttatcctttcacagATCTGGCTGACAGCGCTGCTGCCTTGTGTTAGTCTTCACAGTTACCCTCTCTGT-TTTCCTGCAATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtgtgtatttgccatactccacagtatggaccagaagagccatttcttgt Alignment from Pairagon ATCTGGCTGACGGCGCTG-TGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG ttgacctaaatactgactatccagaggcttttccctttatcctttcacagATCTGGCTGACAGCGCTGCTGCCTTGTGTTAGTCTTCACAGTTACCCTCTCTGT-TTTCCTGCAATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtgtgtatttgccatactccacagtatggaccagaagagccatttcttgt Alignment from Exonerate_protein2genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG ttgacctaaatactgactatccagaggcttttccctttatcctttcacagATCTGGCTGACAGCGCTGCTGCCTTGTGTTAGTCTTCACAGTTACCCTCTCTGTTTTCCTGCAATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtgtgtatttgccatactccacagtatggaccagaagagccatttcttgt Alignment from Exonerate_coding2genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG ttgacctaaatactgactatccagaggcttttccctttatcctttcacagATCTGGCTGACAGCGCTGCTGCCTTGTGTTAGTCTTCACAGTTACCCTCTCTGTTTTCCTGCAATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtgtgtatttgccatactccacagtatggaccagaagagccatttcttgt Alignment from GeneWise ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGG ttgacctaaatactgactatccagaggcttttccctttatcctttcacagATCTGGCTGACAGCGCTGCTGCCTTGTGTTAGTCTTCACAGTTACCCTCTCTGTTTTCCTGCAATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGGAAATGGGgtgtgtatttgccatactccacagtatggaccagaagagccatttcttgt #### Slc29a2_ID796_10 --> 2 - 0 Original Alignment gtCTGTTCTTCAACCCT-ATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG actccacagtatggaccagaagagccatatgctgcctctctacttcccaggtCTGTTCTTCAACCCTCATCTGCTGCTTTCCACTCTTCAACGTCATGGATTGGT-GGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtaagagcctcaggcaagctgtcattaatgaaacgcactagggaaccagg Alignment from CESAR gtCTGTTCTTCAACCCT-ATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG actccacagtatggaccagaagagccatatgctgcctctctacttcccaggtCTGTTCTTCAACCCTCATCTGCTGCTTTCCACTCTTCAACGTCATGGATT-GGTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtaagagcctcaggcaagctgtcattaatgaaacgcactagggaaccagg Alignment from Spaln_aa2Genome GTCTGTTCTTCAACCCTATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG actccacagtatggaccagaagagccatatgctgcctctctacttcccagGTCTGTTCTTCAACCCTCATCTGCTGCTTTCCACTCTTCAACGTCATGGATTGGTGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtaagagcctcaggcaagctgtcattaatgaaacgcactagggaaccagg Alignment from Spaln_nt2Genome GTCTGTTCTTCAACCCT-ATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG actccacagtatggaccagaagagccatatgctgcctctctacttcccagGTCTGTTCTTCAACCCTCATCTGCTGCTTTCCACTCTTCAACGTCATGGATTGG-TGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtaagagcctcaggcaagctgtcattaatgaaacgcactagggaaccagg Alignment from Pairagon GTCTGTTCTTCAACCCT-ATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG actccacagtatggaccagaagagccatatgctgcctctctacttcccagGTCTGTTCTTCAACCCTCATCTGCTGCTTTCCACTCTTCAACGTCATGGATTGG-TGGGCCGGAGCCTGACTTCCTACTTCCTGTGGgtaagagcctcaggcaagctgtcattaatgaaacgcactagggaaccagg Alignment from Exonerate_protein2genome GTCTGTTCTTCAACCCT-ATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGG--CTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG actccacagtatggaccagaagagccatatgctgcctctctacttcccagGTCTGTTCTTCAACCCTCATCTGCTGCTTTCCACTCTTCAACGTCATGGATTGGTG---GGCCGGAGCCTGACTTCCTACTTCCTGTGGgtaagagcctcaggcaagctgtcattaatgaaacgcactagggaaccagg Alignment from Exonerate_coding2genome GTCTGTTCTTCAACCCT-ATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGG--CTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG actccacagtatggaccagaagagccatatgctgcctctctacttcccagGTCTGTTCTTCAACCCTCATCTGCTGCTTTCCACTCTTCAACGTCATGGATTGGTG---GGCCGGAGCCTGACTTCCTACTTCCTGTGGgtaagagcctcaggcaagctgtcattaatgaaacgcactagggaaccagg Alignment from GeneWise TCAACCCT------------------------------------------------------------ATCTGTTGCTTTCTGCTCTTCAACGTCATGGATTGGCTGGGCCGGAGCCTGACCTCCTACTTCCTGTGG ACTCCACAGTATGGACCAGAAGAGCCATATGCTGCCTCTCTACTTCCCAGGTCTGTTCTTCAACCCTCATCTGCTGCTTTCCACTCTTCAACGTCATGGATTGGTG-GGCCGGAGCCTGACTTCCTACTTCCTGTGGgtaagagcctcaggcaagctgtcattaatgaaacgcactagggaaccagg #### Slit1_ID8206_32 --> 1 - 0 Original Alignment tGGACAGCTCTGTGAGATCCCACCTGCCCCCAGGAGCTCCTGTGAG-GGGACGGAGTGCCAGAATGGAGCCAACTGCGTAGACCAGGGAAGCCGGCCCGTATGCCAGTGCCTACCAGGCTTTGGTGGCCCTGAATGTGAGAAATTGCTCAGTGTCAACTTTGTGGACCGGGACACTTATCTGCAGTTCACTGACCTGCAGAACTGGCCTCGGGCCAACATCACTCTTCAG gtcatggattctagctactatgaatattgcttgagtgtcacctcctccagtGGGCAGTTGTGTGAGATAAAACCTGCTCCCAGAAGCTCCTCTGAGCGGGACAGAGTGTCACATTGGAGCAAATTGTG-GGACCAACAAAGTCATCCTGCATGCCAGTGCCTCCCAGGTATAGGGAGTCCTAAATCTGAAAAGTTGGTTAGTGTTAACTTTGTTGAACGGGACTCCTACCTACAGTCAACTGATCTACAAAATTGGCCACAAGCCAACATCACTCTTCAGgtaaattcatcatctagactctaggtagaccagaggtgcaaggagttcca Alignment from CESAR tGGACAGCTCTGTGAGATCCCACCTGCCCCCAGGAGCTCCTGTGAG-GGGACGGAGTGCCAGAATGGAGCCAACTGCGTAGACCAGGGAAGCCGGCCCGTATGCCAGTGCCTACCAGGCTTTGGTGGCCCTGAATGTGAGAAATTGCTCAGTGTCAACTTTGTGGACCGGGACACTTATCTGCAGTTCACTGACCTGCAGAACTGGCCTCGGGCCAACATCACTCTTCAG gtcatggattctagctactatgaatattgcttgagtgtcacctcctccagtGGGCAGTTGTGTGAGATAAAACCTGCTCCCAGAAGCTCCTCTGAGCGGGACAGAGTGTCACATTGGAGCAAATTGT-GGGACCAACAAAGTCATCCTGCATGCCAGTGCCTCCCAGGTATAGGGAGTCCTAAATCTGAAAAGTTGGTTAGTGTTAACTTTGTTGAACGGGACTCCTACCTACAGTCAACTGATCTACAAAATTGGCCACAAGCCAACATCACTCTTCAGgtaaattcatcatctagactctaggtagaccagaggtgcaaggagttcca Alignment from Spaln_aa2Genome TGGACAGCTCTGTGAGATCCCACCTGCCCCCAGGAGCTCCTGTGAGGGGACGGAGTGCCAGAATGGAGCCAACTGCGTAGACCAGGGAAGCCGGCCCGTATGCCAGTGCCTACCAGGCTTTGGTGGCCCTGAATGTGAGAAATTGCTCAGTGTCAACTTTGTGGACCGGGACACTTATCTGCAGTTCACTGACCTGCAGAACTGGCCTCGGGCCAACATCACTCTTCAG gtcatggattctagctactatgaatattgcttgagtgtcacctcctccagTGGGCAGTTGTGTGAGATAAAACCTGCTCCCAGAAGCTCCTCTGAGCGGGACAGAGTGTCACATTGGAGCAAATTGTGGGACCAACAAAGTCATCCTGCATGCCAGTGCCTCCCAGGTATAGGGAGTCCTAAATCTGAAAAGTTGGTTAGTGTTAACTTTGTTGAACGGGACTCCTACCTACAGTCAACTGATCTACAAAATTGGCCACAAGCCAACATCACTCTTCAGgtaaattcatcatctagactctaggtagaccagaggtgcaaggagttcca Alignment from Spaln_nt2Genome TGGACAGCTCTGTGAGATCCCACCTGCCCCCAGGAGCTCCTGTGAG-GGGACGGAGTGCCAGAATGGAGCCAACTGCGTAGACCAGGGAAGCCGGCCCGTATGCCAGTGCCTACCAGGCTTTGGTGGCCCTGAATGTGAGAAATTGCTCAGTGTCAACTTTGTGGACCGGGACACTTATCTGCAGTTCACTGACCTGCAGAACTGGCCTCGGGCCAACATCACTCTTCAG gtcatggattctagctactatgaatattgcttgagtgtcacctcctccagTGGGCAGTTGTGTGAGATAAAACCTGCTCCCAGAAGCTCCTCTGAGCGGGACAGAGTGTCACATTGGAGCAAATTGTG-GGACCAACAAAGTCATCCTGCATGCCAGTGCCTCCCAGGTATAGGGAGTCCTAAATCTGAAAAGTTGGTTAGTGTTAACTTTGTTGAACGGGACTCCTACCTACAGTCAACTGATCTACAAAATTGGCCACAAGCCAACATCACTCTTCAGgtaaattcatcatctagactctaggtagaccagaggtgcaaggagttcca Alignment from Pairagon TGGACAGCTCTGTGAGATCCCACCTGCCCCCAGGAGCTCCTGTGAG-GGGACGGAGTGCCAGAATGGAGCCAACTGCGTAGACCAGGGAAGCCGGCCCGTATGCCAGTGCCTACCAGGCTTTGGTGGCCCTGAATGTGAGAAATTGCTCAGTGTCAACTTTGTGGACCGGGACACTTATCTGCAGTTCACTGACCTGCAGAACTGGCCTCGGGCCAACATCACTCTTCAG gtcatggattctagctactatgaatattgcttgagtgtcacctcctccagTGGGCAGTTGTGTGAGATAAAACCTGCTCCCAGAAGCTCCTCTGAGCGGGACAGAGTGTCACATTGGAGCAAATTGTG-GGACCAACAAAGTCATCCTGCATGCCAGTGCCTCCCAGGTATAGGGAGTCCTAAATCTGAAAAGTTGGTTAGTGTTAACTTTGTTGAACGGGACTCCTACCTACAGTCAACTGATCTACAAAATTGGCCACAAGCCAACATCACTCTTCAGgtaaattcatcatctagactctaggtagaccagaggtgcaaggagttcca Alignment from Exonerate_protein2genome TGGACAGCTCTGTGAGATCCCACCTGCCCCCAGGAGCTCCTGTGAGGGGACGGAGTGCCAGAATGGAGCCAACTGCGTAGACCAGGGAAGCCGGCCCGTATGCCAGTGCCTACCAGGCTTTGGTGGCCCTGAATGTGAGAAATTGCTCAGTGTCAACTTTGTGGACCGGGACACTTATCTGCAGTTCACTGACCTGCAGAACTGGCCTCGGGCCAACATCACTCTTCAG gtcatggattctagctactatgaatattgcttgagtgtcacctcctccagTGGGCAGTTGTGTGAGATAAAACCTGCTCCCAGAAGCTCCTCTGAGCGGGACAGAGTGTCACATTGGAGCAAATTGTGGGACCAACAAAGTCATCCTGCATGCCAGTGCCTCCCAGGTATAGGGAGTCCTAAATCTGAAAAGTTGGTTAGTGTTAACTTTGTTGAACGGGACTCCTACCTACAGTCAACTGATCTACAAAATTGGCCACAAGCCAACATCACTCTTCAGgtaaattcatcatctagactctaggtagaccagaggtgcaaggagttcca Alignment from Exonerate_coding2genome TGGACAGCTCTGTGAGATCCCACCTGCCCCCAGGAGCTCCTGTGAGGGGACGGAGTGCCAGAATGGAGCCAACTGCGTAGACCAGGGAAGCCGGCCCGTATGCCAGTGCCTACCAGGCTTTGGTGGCCCTGAATGTGAGAAATTGCTCAGTGTCAACTTTGTGGACCGGGACACTTATCTGCAGTTCACTGACCTGCAGAACTGGCCTCGGGCCAACATCACTCTTCAG gtcatggattctagctactatgaatattgcttgagtgtcacctcctccagTGGGCAGTTGTGTGAGATAAAACCTGCTCCCAGAAGCTCCTCTGAGCGGGACAGAGTGTCACATTGGAGCAAATTGTGGGACCAACAAAGTCATCCTGCATGCCAGTGCCTCCCAGGTATAGGGAGTCCTAAATCTGAAAAGTTGGTTAGTGTTAACTTTGTTGAACGGGACTCCTACCTACAGTCAACTGATCTACAAAATTGGCCACAAGCCAACATCACTCTTCAGgtaaattcatcatctagactctaggtagaccagaggtgcaaggagttcca Alignment from GeneWise TGGACAGCTCTGTGAGATCCCACCTGCCCCCAGGAGCTCCTGTGAGGGGACGGAGTGCCAGAATGGAGCCAACTGCGTAGACCAGGGAAGCCGGCCCGTATGCCAGTGCCTACCAGGCTTTGGTGGCCCTGAATGTGAGAAATTGCTCAGTGTCAACTTTGTGGACCGGGACACTTATCTGCAGTTCACTGACCTGCAGAACTGGCCTCGGGCCAACATCACTCTTCAG gtcatggattctagctactatgaatattgcttgagtgtcacctcctccagTGGGCAGTTGTGTGAGATAAAACCTGCTCCCAGAAGCTCCTCTGAGCGGGACAGAGTGTCACATTGGAGCAAATTGTGGGACCAACAAAGTCATCCTGCATGCCAGTGCCTCCCAGGTATAGGGAGTCCTAAATCTGAAAAGTTGGTTAGTGTTAACTTTGTTGAACGGGACTCCTACCTACAGTCAACTGATCTACAAAATTGGCCACAAGCCAACATCACTCTTCAGgtaaattcatcatctagactctaggtagaccagaggtgcaaggagttcca #### Slit1_ID8232_7 --> 1 - 2 Original Alignment gACCCTGAACAACAACAAC-ATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt caggtgtgattagctctcttggtccattgcttttactttttcttttccagtCCATTCAATAATAATAACCATCAGTGCTATCCCC------CGTTTCAATCATA-CCCTAAGCTCCACACTttgtcagtttgcaactgctggtgtatcacctacactatggataaggtgccat Alignment from CESAR gACCCTGAACAACAACAAC-ATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt caggtgtgattagctctcttggtccattgcttttactttttcttttccagtCCATTCAATAATAATAACCATCAGTGCTATCCCC------CGTTTCAATCAT-ACCCTAAGCTCCACACTttgtcagtttgcaactgctggtgtatcacctacactatggataaggtgccat Alignment from Spaln_aa2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT caggtgtgattagctctcttggtccattgcttttactttttcttttccagTCCATTCAATAATAATAACCATCAGTGCTATCCC------CCGTTTCAATCATACCCTAAGCTCCACACTTTgtcagtttgcaactgctggtgtatcacctacactatggataaggtgccat Alignment from Spaln_nt2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT caggtgtgattagctctcttggtccattgcttttactttttcttttccagTCCATTCAATAATA-----ATAACCATCAGTGCTATCCCCCGTTTCAATCATA-CCCTAAGCTCCACACTTTgtcagtttgcaactgctggtgtatcacctacactatggataaggtgccat Alignment from Pairagon caggtgtgattagctctcttggtccattgcttttactttttcttttccagtccattcaataataataaccatcagtgctatcccccgtttcaatcataccctaagctccacactttgtcagtttgcaactgctggtgtatcacctacactatggataaggtgccat Alignment from Exonerate_protein2genome caggtgtgattagctctcttggtccattgcttttactttttcttttccagtccattcaataataataaccatcagtgctatcccccgtttcaatcataccctaagctccacactttgtcagtttgcaactgctggtgtatcacctacactatggataaggtgccat Alignment from Exonerate_coding2genome caggtgtgattagctctcttggtccattgcttttactttttcttttccagtccattcaataataataaccatcagtgctatcccccgtttcaatcataccctaagctccacactttgtcagtttgcaactgctggtgtatcacctacactatggataaggtgccat Alignment from GeneWise caggtgtgattagctctcttggtccattgcttttactttttcttttccagtccattcaataataataaccatcagtgctatcccccgtttcaatcataccctaagctccacactttgtcagtttgcaactgctggtgtatcacctacactatggataaggtgccat #### Slk_ID10264_16 --> 0 - 0 Original Alignment GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATT-CAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG aatcccctaaaacagtcgttagttccgggctgtttccatctgtgttccagGAGACTGAACAAATGCAACGTTACAATCAACGACTCATTGAAGAGTTGAAAAATAGAGAGACTCAGGAGAGAGTGCGACTCGCCAAAATTCCAAAGGAGCGAATCAAAAATAAGAATGGCTATGT-TAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCTGATCAAGATCATGAAAAAATAAAACAAgtgagtctggatagttcaatttctttacctcaatatgagatgtatgtaaa Alignment from CESAR GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATT-CAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG aatcccctaaaacagtcgttagttccgggctgtttccatctgtgttccagGAGACTGAACAAATGCAACGTTACAATCAACGACTCATTGAAGAGTTGAAAAATAGAGAGACTCAGGAGAGAGTGCGACTCGCCAAAATTCCAAAGGAGCGAATCAAAAATAAGAATGGCTATG-TTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCTGATCAAGATCATGAAAAAATAAAACAAgtgagtctggatagttcaatttctttacctcaatatgagatgtatgtaaa Alignment from Spaln_aa2Genome GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG aatcccctaaaacagtcgttagttccgggctgtttccatctgtgttccagGAGACTGAACAAATGCAACGTTACAATCAACGACTCATTGAAGAGTTGAAAAATAGAGAGACTCAGGAGAGAGTGCGACTCGCCAAAATTCCAAAGGAGCGAATCAAAAATAAGAATGGCTATGTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCTGATCAAGATCATGAAAAAATAAAACAAgtgagtctggatagttcaatttctttacctcaatatgagatgtatgtaaa Alignment from Spaln_nt2Genome GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTC-AAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG aatcccctaaaacagtcgttagttccgggctgtttccatctgtgttccagGAGACTGAACAAATGCAACGTTACAATCAACGACTCATTGAAGAGTTGAAAAATAGAGAGACTCAGGAGAGAGTGCGACTCGCCAAAATTCCAAAGGAGCGAATCAAAAATAAGAATGGCTATG-TTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCTGATCAAGATCATGAAAAAATAAAACAAgtgagtctggatagttcaatttctttacctcaatatgagatgtatgtaaa Alignment from Pairagon GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATT-CAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG aatcccctaaaacagtcgttagttccgggctgtttccatctgtgttccagGAGACTGAACAAATGCAACGTTACAATCAACGACTCATTGAAGAGTTGAAAAATAGAGAGACTCAGGAGAGAGTGCGACTCGCCAAAATTCCAAAGGAGCGAATCAAAAATAAGAATGGCTATG-TTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCTGATCAAGATCATGAAAAAATAAAACAAgtgagtctggatagttcaatttctttacctcaatatgagatgtatgtaaa Alignment from Exonerate_protein2genome GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG aatcccctaaaacagtcgttagttccgggctgtttccatctgtgttccagGAGACTGAACAAATGCAACGTTACAATCAACGACTCATTGAAGAGTTGAAAAATAGAGAGACTCAGGAGAGAGTGCGACTCGCCAAAATTCCAAAGGAGCGAATCAAAAATAAGAATGGCTATGTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCTGATCAAGATCATGAAAAAATAAAACAAgtgagtctggatagttcaatttctttacctcaatatgagatgtatgtaaa Alignment from Exonerate_coding2genome GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG aatcccctaaaacagtcgttagttccgggctgtttccatctgtgttccagGAGACTGAACAAATGCAACGTTACAATCAACGACTCATTGAAGAGTTGAAAAATAGAGAGACTCAGGAGAGAGTGCGACTCGCCAAAATTCCAAAGGAGCGAATCAAAAATAAGAATGGCTATGTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCTGATCAAGATCATGAAAAAATAAAACAAgtgagtctggatagttcaatttctttacctcaatatgagatgtatgtaaa Alignment from GeneWise GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG aatcccctaaaacagtcgttagttccgggctgtttccatctgtgttccagGAGACTGAACAAATGCAACGTTACAATCAACGACTCATTGAAGAGTTGAAAAATAGAGAGACTCAGGAGAGAGTGCGACTCGCCAAAATTCCAAAGGAGCGAATCAAAAATAAGAATGGCTATGTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCTGATCAAGATCATGAAAAAATAAAACAAgtgagtctggatagttcaatttctttacctcaatatgagatgtatgtaaa #### Smc3_ID11336_24 --> 2 - 0 Original Alignment atTTGGACAATTCCATTGACAAAACAGAAGCTGGAATTAAAGAGCTCCAGAAAAGTATGGAG-CGCTGGAAAAATATGGAGAAAGAACACATGGATGCCATAAATCATGATACTAAAGAGCTGGAGAAGATGACCAACCGGCAAGGCATGCTGTTGAAGAAGAAGGAGGAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAG tttttagaacaatccaataatttgtcctcatattccctttttctttgtagacTTGGAAAATTCTCTTTACAAGACAAGGGCA---------GAGTTGCAACAAAGT------CACCTGGCAAAATACAGAGAAAGAGCACATGGATGCCATAA-TCATGATATGAAAGAGTTAGATAAGATG---AACCAACAAGGCATGCTTCTTAAA---AAGCAA---------AAA------------------ACCCTCCCTTGGGAAGTG------GAGGATCAGACACTCCTGTTAAAGGAGgtaagtctctttgcaataagtgctcagcccccctatacatcttgttaatc Alignment from CESAR atTTGGACAATTCCATTGACAAAACAGAAGCTGGAATTAAAGAGCTCCAGAAAAGTATGGAGCGC-TGGAAAAATATGGAGAAAGAACACATGGATGCCATAAATCATGATACTAAAGAGCTGGAGAAGATGACCAACCGGCAAGGCATGCTGTTGAAGAAGAAGGAGGAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAG tttttagaacaatccaataatttgtcctcatattccctttttctttgtagacTTGGAAAATTCTCTTTACAAGACAAGGGCA---------GAGTTGCAACAAAGT------CACCTGGCAAAATACAGAGAAAGAGCACATGGATGCCA-TAATCATGATATGAAAGAGTTAGATAAGATG---AACCAACAAGGCATGCTTCTTAAAAAGCAAAAA------------------------------ACCCTCCCTTGGGAAGTG---GAGGAT---CAGACACTCCTGTTAAAGGAGgtaagtctctttgcaataagtgctcagcccccctatacatcttgttaatc Alignment from Spaln_aa2Genome ATTTGGACAATTCCATTGACAAAACAGAAGCTGGAATTAAAGAGCTCCAGAAAAGTATGGAGCGCTGGAAAAATATGGAGAAAGAACACATGGATGCCATAAATCATGATACTAAAGAGCTGGAGAAGATGACCAACCGGCAAGGCATGCTGTTGAAGAAGAAGGAGGAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAA---GCGTTTGAGAAGTACC tttttagaacaatccaataatttgtcctcatattccctttttctttgtagACTTGGAAAATTCTCTTTACAAGACAAGGGCAGAGTTGCAACAAAGTCACCTGGCA------------AAATACAGAGAAAGAGCACAT---GGATGCCATAATCATGATATGAAAGAGTTAGATAAGATG---AACCAACAAGGCATGCTTCTTAAAAAGCAAAAAACCCTCCCTTGGGAAGTGGAGGATCAGACACTCCTGTTAAAGGAGGTAAGTCTCTTTGCAATAAgtgctcagcccccctatacatcttgttaatc Alignment from Spaln_nt2Genome ATTTGGACAATTCCATTGACAAAACAGAAGCTGGAATTAAAGAGCTCCAGAAAAGTATGGAGCGCTGGAAAAATATGGAGAAAGAACACATGGATGCCATAAATCATGATACTAAAGAGCTGGAGAAGATGACCAACCGGCAAGGCATGCTGTTGAAGAAGAAGGAGGAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAG tttttagaacaatccaataatttgtcctcatattccctttttctttgtagACTTGGAAAATTCTCTTTACAAGACAAGGGC---------AGAGTTGCAACAAAGT-----CACCTGGCAAAATACAGAGAAAGAGCACATGGATGCCATAA-TCATGATATGAAAGAGTTAGATAAGATG---AACCAACAAGGCATGCTTCTTAAAAAGCA-------------AAAAA-----------------CCCTCCCTTGGGAA------GTGGAGGATCAGACACTCCTGTTAAAGGAGgtaagtctctttgcaataagtgctcagcccccctatacatcttgttaatc Alignment from Pairagon ATTTGGACAATTCCATTGACAAAACAGAAGCTGGAATTAAAGAGCTCCAGAAAAGTATGGAGCG--------------------CTGGAAAAATATGGAGAAAGAACACATGGATGCCATAAATCATGATACTAAAGAGCTGGAGAAGATGACCAACCGGCAAGGCATGCTGTTGAAGAAG---------------------------------------------AAGGAG tttttagaacaatccaataatttgtcctcatattccctttttctttgtagACTTGGAAAATTCTCTTTACAAGACA----------------------------------AGGGCAGAGTTGCAACAAAGTCACCTGGCAAAATACAGAGAAAGAGCACATGGATGCCAT-AATCATGATATGAAAGAGTTAGATAAGATG---AACCAACAAGGCATGCTTCTTAAAAAGCAAAAAACCCTCCCTTGGGAAGTGGAGGATCAGACACTCCTGTTAAAGGAGgtaagtctctttgcaataagtgctcagcccccctatacatcttgttaatc Alignment from Exonerate_protein2genome ATTTGGACAATTCCATTGACAAAACAGAAGCTGGAATTAAAGAGCTCCAGAAAAGTATGGAGCGCTGGAAAAATATGGAGAAAGAACACATGGATGCCATAAATCATGATACTAAAGAGCTGGAGAAGATGACCAACCGGCAAGGCATGCTGTTGAAGAAGAAGGAGGAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAA tttttagaacaatccaataatttgtcctcatattccctttttctttgtagACTTGGAAAATTCTCTTTACAAGACAAGGGCA---------GAGTTGCAACAAAGT---CACCTGGCAAAATACAGAGAAAGAGCACAT---GGATGCCATAATCATGATATGAAAGAGTTAGATAAGATG---AACCAACAAGGCATGCTTCTTAAAAAGCAAAAAACCCTCCCTTGGGAAGTGGAGGATCAGACACTCCTGTTAAAGGAGgtaagtctctttgcaataagtgctcagcccccctatacatcttgttaatc Alignment from Exonerate_coding2genome ATTTGGACAATTCCATTGACAAAACAGAAGCTGGAATTAAAGAGCTCCAGAAAAGTATGGAGCGCTGGAAAAATATGGAGAAAGAACACATGGATGCCATAAATCATGATACTAAAGAGCTGGAGAAGATGACCAACCGGCAAGGCATGCTGTTGAAGAAGAAGGAGGAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAA tttttagaacaatccaataatttgtcctcatattccctttttctttgtagACTTGGAAAATTCTCTTTACAAGACAAGGGCA---------GAGTTGCAACAAAGT-----CACCTGGCAAAATACAGAGAAAGAGCACATGGATGCCAT-AATCATGATATGAAAGAGTTAGATAAGATG---AACCAACAAGGCATGCTTCTTAAAAAGCAAAAAACCCTCCCTTGGGAAGTGGAGGATCAGACACTCCTGTTAAAGGAGgtaagtctctttgcaataagtgctcagcccccctatacatcttgttaatc Alignment from GeneWise ATTTGGACAATTCCATTGACAAAACAGAAGCTGGAATTAAAGAGCTCCAGAAAAGTATGGAGCGCTGGAAAAATATGGAGAAAGAACACATGGATGCCATAAATCATGATACTAAAGAGCTGGAGAAGATGACCAACCGGCAAGGCATGCTGTTGAAGAAGAAGGAGGAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAG tttttagaacaatccaataatttgtcctcatattccctttttctttgtagACTTGGAAAATTCTCTTTACAAGACAAGGGCA---------GAGTTGCAACAAAGT---CACCTGGCAAAATACAGAGAAAGAGCACAT---GGATGCCATAATCATGATATGAAAGAGTTAGATAAGATG---AACCAACAAGGCATGCTTCTTAAAAAGCAAAAA------------------------------ACCCTCCCTTGGGAAGTGGAGGAT------CAGACACTCCTGTTAAAGGAGgtaagtctctttgcaataagtgctcagcccccctatacatcttgttaatc #### Smc3_ID11337_25 --> 0 - 0 Original Alignment TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGC-CACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGA-CTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTT---AGC---CATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from CESAR TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGC-CACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCCGTGTGAACAAAAAGGCACTAGATCAGCTGG-TGACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTT------AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Spaln_aa2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTT------AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Spaln_nt2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCAC-GTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGAC-TTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGA---GGTTA---GCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Pairagon GAGTGTATGAAGAAGATCCGGGAGCTGGGGTCCCTCCCCCAGGAAGCGTTTGAGAAGTACCAGACACTGAGCCTGAAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCAC---------GTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagG---------------------------------------------------------------------------------TGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGA--------CACATAGCCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTG-ACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGA---GGTTA---GCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Exonerate_protein2genome GCGTTTGAGAAGTACCAGACACTGAGCCTG---AAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaGCTCTGAAACCTACAATCCTTATCTGTCTTTACCTTCAGGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTT------AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from Exonerate_coding2genome GCGTTTGAGAAGTACCAGACACTGAGCCTG---AAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaaGCTCTGAAACCTACAATCCTTATCTGTCTTTACCTTCAGGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTT------AGCCATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc Alignment from GeneWise TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG attatattaaagctctgaaacctacaatccttatctgtctttaccttcagGTGTTCCAAAAACTGGAGCAATGCAATACAGAATTGAAGACACATAGCCCGTGTGAACAAAAAGGCACTAGATCAGCTGGTGACTTCTCTGAGAAAAAGGAAAAGTCGATAAAATGGCAGGAGGAGGTTAGC------CATAAGTCAGTCATGGAACTGATGAATGTACTGGAACTAAAGAAACACGAAGCTGTTCATTTAACTTTCAAGCAAgtaagaaatagtttcttctaatgcacagcattaatggatacacaggttgc #### Smc5_ID5113_20 --> 0 - 0 Original Alignment GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTA-TTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGGGCTTCATGCTTCA-AGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from CESAR GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTA-TTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGGGCTTCATGCTTC-AAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Spaln_aa2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTA-TTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCTAAACACATTGGATGAAACTGATGCATTAcTTAACTGCAGAAAGATCAAGGGCTTCATGCTTCAA-GAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Spaln_nt2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTA-TTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGGGCTTCATGCTTCA-AGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Pairagon GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTA-TTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGGGCTTCATGCTTCA-AGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Exonerate_protein2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGGGCTTCATGCTTCAAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from Exonerate_coding2genome ATGGCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgTAGGCATTTGAAGATCTTCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGGGCTTCATGCTTCAAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc Alignment from GeneWise GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG tcagcatactggtatgctcattatttacgcctgttttctttcttttgtagGCATTTGAAGATCTTCTAAACACATTGGATGAAACTGATGCATTACTTAACTGCAGAAAGATCAAGGGCTTCATGCTTCAAGAATTCAATCCTTCGgtaagactccatattgtttttgttcaccctatttccaaatgactggattc #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGG-GACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg agtgtacccagcccttgctagggtctgctttgtctatcttttgttcacagGTAGTAGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTCGAATTAGCCTACACCCACCGGAATCTCTTCC-GGATCTCGAGGAGTTCTCAGCATTCCCACAAGCCCAGGTGTTTggtgaggtttagacaacatctccaggtgatgacatctagtatctctaaatg Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGG-GACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTg agtgtacccagcccttgctagggtctgctttgtctatcttttgttcacagGTAGTAGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTCGAATTAGCCTACACCCACCGGAATCTCTTCCGG-ATCTCGAGGAGTTCTCAGCATTCCCACAAGCCCAGGTGTTTggtgaggtttagacaacatctccaggtgatgacatctagtatctctaaatg Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG agtgtacccagcccttgctagggtctgctttgtctatcttttgttcacagGTAGTAGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTCGAATTAGCCTACACCCACCGGAATCTCTTCCGGATCTCGAGGAGTTCTCAGCATTCCCACAAGCCCAGGTGTTTGgtgaggtttagacaacatctccaggtgatgacatctagtatctctaaatg Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGG-GACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG agtgtacccagcccttgctagggtctgctttgtctatcttttgttcacagGTAGTAGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTCGAATTAGCCTACACCCACCGGAATCTCTTCCG-GATCTCGAGGAGTTCTCAGCATTCCCACAAGCCCAGGTGTTTGgtgaggtttagacaacatctccaggtgatgacatctagtatctctaaatg Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGG-GGACTTGGCCTATACTCACCGAAACCTCTTCCG----TCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG agtgtacccagcccttgctagggtctgctttgtctatcttttgttcacagGTAGTAGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTCGAATTAGCCTACACCCACCGGAATCTCTTCCGGATCTC-----GAGGAGTTCTCAGCATTCCCACAAGCCCAGGTGTTTGgtgaggtttagacaacatctccaggtgatgacatctagtatctctaaatg Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG agtgtacccagcccttgctagggtctgctttgtctatcttttgttcacagGTAGTAGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTCGAATTAGCCTACACCCACCGGAATCTCTTCCGGATCTCGAGGAGTTCTCAGCATTCCCACAAGCCCAGGTGTTTGgtgaggtttagacaacatctccaggtgatgacatctagtatctctaaatg Alignment from Exonerate_coding2genome GTAACCGCTCAGTTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG agTGTACCCAGCCCTTGCTAGGGTCTGCTTTGTCTATCTTTTGTTCACAGGTAGTAGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTCGAATTAGCCTACACCCACCGGAATCTCTTCCGGATCTCGAGGAGTTCTCAGCATTCCCACAAGCCCAGGTGTTTGgtgaggtttagacaacatctccaggtgatgacatctagtatctctaaatg Alignment from GeneWise ---TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTG agtgtacccagCCCTTGCTAGGGTCTGCTTTGTCTATCTTTTGTTCACAGGTAGTAGTCTGGAAGCAGTACAGTGATTTCCGTAAGCTTCATGGTCGAATTAGCCTACACCCACCGGAATCTCTTCCGGATCTCGAGGAGTTCTCAGCATTCCCACAAGCCCAGGTGTTTGgtgaggtttagacaacatctccaggtgatgacatctagtatctctaaatg #### Snx32_ID1073_5 --> 1 - 0 Original Alignment gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTC-CTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcaggGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCCTCCAACGCCTGGCAGCCCATCCCACCCTCC-TAGGGATCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from CESAR gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTC-TTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcaggGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCCTCCAACGCCTGGCAGCCCATCCCACCCTC-CTAGGGATCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Spaln_aa2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCCTCCAACGCCTGGCAGCCCATCCCACCCTCCTAGGGATCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Spaln_nt2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTT-CCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCCTCCAACGCCTGGCAGCCCATCCCACCCT-CCTAGGGATCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Pairagon GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTC-TTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCCTCCAACGCCTGGCAGCCCATCCCACCCT-CCTAGGGATCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Exonerate_protein2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCCTCCAACGCCTGGCAGCCCATCCCACCCTCCTAGGGATCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat Alignment from Exonerate_coding2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGATCTGAGTGTTCGAGAGAAGAACAGGAAG acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCCTCCAACGCCTGGCAGCCCATCCCACCCTCCTAGGGATCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATGTAAGTTTGTTGAATCATGACAATAAAatgaagggctgatggcatgtgat Alignment from GeneWise GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT acttttccagcaacaagtaatatagcatactctgcatatcactatttcagGGAATACTTGGCCATTTTTAAGAAGATTGTTGCTATGCATGAAGTCTTTCCTCCAACGCCTGGCAGCCCATCCCACCCTCCTAGGGATCACAACTTCTCCATCTTCTTGGAATATAGCCAGGATgtaagtttgttgaatcatgacaataaaatgaagggctgatggcatgtgat #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment AAGACTGCAgg aTACCCCAATGTCAATGTGCACAAC-TTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg AAAACAGCTgggtaagctgatgtgaccaggagttctgtttctctcctcaggTACCCCAATGTAAATGTGCATAACCTTCACCACCAGCTGGAGAGATGGGCTAGCTT-CAATGCCATCATACATAAACACcggtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from CESAR AAGACTGCAgg aTACCCCAATGTCAATGTGCACAAC-TTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg AAAACAGCTgggtgagttgatgtgaccaggagttctgtttctctcctcaggTACCCCAATGTAAATGTGCATAACCTTCACCACCAGCTGGAGAGATGGGCTAG-CTTCAATGCCATCATACATAAACACcggtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Spaln_aa2Genome AAGACTGCAGG ATACCCCAATGTCAATGTGCACAAC-TTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG AAAACAGCTGGgtaagctgatgtgaccaggagttctgtttctctcctcagGTACCCCAATGTAAATGTGCATAACcTTCACCACCAGCTGGAGAGATGGGCTAGC-TTCAATGCCATCATACATAAACACCGgtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Spaln_nt2Genome AAGACTGCAGG ATACCCCAATGTCAATGTGCACAA-CTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG AAAACAGCTGGgtaagctgatgtgaccaggagttctgtttctctcctcagGTACCCCAATGTAAATGTGCATAACCTTCACCACCAGCTGGAGAGATGGGCTAG-CTTCAATGCCATCATACATAAACACCGgtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Pairagon AAGACTGCAGG ATACCCCAATGTCAATGTGCACAA-CTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG AAAACAGCTGGgtaagctgatgtgaccaggagttctgtttctctcctcagGTACCCCAATGTAAATGTGCATAACCTTCACCACCAGCTGGAGAGATGGGCTAG-CTTCAATGCCATCATACATAAACACCGgtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Exonerate_protein2genome aaaacagctgggtaagctgatgtgaccaggagttctgtttctctcctcaggtaccccaatgtaaatgtgcataaccttcaccaccagctggagagatgggctagcttcaatgccatcatacataaacaccggtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from Exonerate_coding2genome aaaacagctgggtaagctgatgtgaccaggagttctgtttctctcctcaggtaccccaatgtaaatgtgcataaccttcaccaccagctggagagatgggctagcttcaatgccatcatacataaacaccggtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg Alignment from GeneWise AAGACTGCAGG ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG AAAACAGCTGGgtaagctgatgtgaccaggagttctgtttctctcctcagGTACCCCAATGTAAATGTGCATAACCTTCACCACCAGCTGGAGAGATGGGCTAGCTTCAATGCCATCATACATAAACACCGgtagaggtttgaggtcatagctacttctgatttacctatttatttgcatg #### Sptbn2_ID612_7 --> 2 - 0 Original Alignment atGTGAATGTAGACCAGCCCGACGAGAAG-TCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG ggacttggggggagaacacaaattattgcgggggtgctttgctacccaagatGTGAATGTAGATCAGCCAGATGAGCAGCTCTGTCATTACCTATGTG------TACTACCACTACTTCT-CAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtaagatctccattataagctatctgtatgttcctataaggaccagatta Alignment from CESAR atGTGAATGTAGACCAGCCCGACGAGAAG-TCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG ggacttggggggagaacacaaattattgcgggggtgctttgctacccaagatGTGAATGTAGATCAGCCAGATGAGCAGCTCTGTCATTACCTATGTG------TACTACCACTACTTCT-CAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtaagatctccattataagctatctgtatgttcctataaggaccagatta Alignment from Spaln_aa2Genome ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG ggacttggggggagaacacaaattattgcgggggtgctttgctacccaagATGTGAATGTAGATCAGCCAGATGAGCAG---CTCTGTCATTACCTATGTGTA---CTACCACTACTTCTCAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtaagatctccattataagctatctgtatgttcctataaggaccagatta Alignment from Spaln_nt2Genome ATGTGAATGTAGACCAGCCCGACGAGAAG-TCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG ggacttggggggagaacacaaattattgcgggggtgctttgctacccaagATGTGAATGTAGATCAGCCAGATGAGCAGCTCTGTCATTACCTATGTG------TACTACCACTACTTCT-CAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtaagatctccattataagctatctgtatgttcctataaggaccagatta Alignment from Pairagon ATGTGAATGTAGACCAGCCCGACGAGAAG-TCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG ggacttggggggagaacacaaattattgcgggggtgctttgctacccaagATGTGAATGTAGATCAGCCAGATGAGCAGCTCTGTCATTACCTATGTG------TACTACCACTACTTCT-CAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtaagatctccattataagctatctgtatgttcctataaggaccagatta Alignment from Exonerate_protein2genome ggacttggggggagaacacaaattattgcgggggtgctttgctacccaagatgtgaatgtagatcagccagatgagcagctctgtcattacctatgtgtactaccactacttctcaggatgaaggctctttcagtggaagggaaaagaactgggaaggtaagatctccattataagctatctgtatgttcctataaggaccagatta Alignment from Exonerate_coding2genome ggacttggggggagaacacaaattattgcgggggtgctttgctacccaagatgtgaatgtagatcagccagatgagcagctctgtcattacctatgtgtactaccactacttctcaggatgaaggctctttcagtggaagggaaaagaactgggaaggtaagatctccattataagctatctgtatgttcctataaggaccagatta Alignment from GeneWise ATGTGAATGTAGACCAGCCCGACGAGAAGTCTATCATCACCTACGTGGCCACTTACTACCACTACTTCTCCAAGATGAAGGCCCTGGCTGTGGAAGGCAAAAGAATTGGCAAG ggacttggggggagaacacaaattattgcgggggtgctttgctacccaagATGTGAATGTAGATCAGCCAGATGAGCAG------CTCTGTCATTACCTATGTGTACTACCACTACTTCTCAGGATGAAGGCTCTTTCAGTGGAAGGGAAAAGAACTGGGAAGgtaagatctccattataagctatctgtatgttcctataaggaccagatta #### Sptbn2_ID628_23 --> 0 - 2 Original Alignment GATGAGCTGAGC-GCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag cAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTCGCCCAGGCAGAGGTAAGGAAGCATCAGGTGC-AGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGaggtaagcccatatagttatctattacctaattgcaatgacactttcagcAC Alignment from CESAR GATGAGCTGAGC-GCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGag cAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTCGCCCAGGCAGAGGTAAGGAAGCATCAGGTG-CAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGaggtaagcccatatagttatctattactgctgacccttggttccctcagcAC Alignment from Spaln_aa2Genome GATGAGCTGAGC-GCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTcGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCA-GAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacctaattgcaatgacactttcagCAC Alignment from Spaln_nt2Genome GATGAGCTGAG-CGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTCGCCCAGGCAGAGGTAAGGAAGCATCAGGT-GCAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacctaattgcaatgacactttcagCAC Alignment from Pairagon ------------------------------------------------AGGATGAGCTGAG-CGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC CTGTTACTCAAGCAAACCTGAATTCATGCTTTTTACCCTGGTGACAACAGGATGAGCTGAGTCGCCCAGGCAGAGGTAAGGAAGCATCAGGTG-CAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacctaattgcaatgacactttcagCAC Alignment from Exonerate_protein2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTCGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacctaattgcaatgacactttcagCAC Alignment from Exonerate_coding2genome GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTCGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacctaattgcaatgacactttcagCAC Alignment from GeneWise GATGAGCTGAGCGCCCAGGCAGAAGTGAAGAAGCATCAGGTATTGGAACAAGCCCTTGCTGACTATGCCCAGACCATCAAACAACTAGCAGCCAGCAGTCAAGATATGATTGACCATGAACATCCAGAGAG CAC ctgttactcaagcaaacctgaattcatgctttttaccctggtgacaacagGATGAGCTGAGTCGCCCAGGCAGAGGTAAGGAAGCATCAGGTGCAGAACAAGCGCTAGCTGACTATGCCCAAACCATTAAACAACTATCTGCCAGTAGTCAAGATATGATTGACCATGAGCATCCAGAGAGgtaagcccatatagttatctattacctaattgcaatgacactttcagCAC #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAG-ACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag gacagacaccccacagcaatgcagtagtcttttctgtgtgctccttcgagGGCTCTGGTATGGGGGATGAGCCCCGTGGGCCTCAGGGTGAGAGACAGCACTCTGCTGCCCCGTGGAGCTGCTCCTTCTCCAA-GTCCCAAAGTAAATCATTGGAAGCAGCCCATGGTGCCACCTTACCTATGCAAGGTCCGGAGCTCTCAGCTCAGGAACAGATGGATGGGATCCTGGGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAGGCTGCAAATaggtaagtataatacatacggatgccttttcctcactccccctagcttctaa Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAG-ACCCTG---CCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACag gacagacaccccacagcaatgcagtagtcttttctgtgtgctccttcgagGGCTCTGGTATGGGGGATGAGCCCCGTGGGCCTCAGGGTGAGAGACAGCACTCTGCTGCCCCGTGGAGCTGCTCCTTCTCCAAGTC-CCAAAGTAAATCATTGGAAGCAGCCCATGGTGCCACCTTACCTATGCAAGGTCCGGAGCTCTCAGCTCAGGAACAGATGGATGGGATCCTGGGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAGGCTGCAAATaggtaagtataatacatacggatgccttttcctcactccccctagcttctaa Alignment from Spaln_aa2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAG---ACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG gacagacaccccacagcaatgcagtagtcttttctgtgtgctccttcgagGGCTCTGGTATGGGGGATGAGCCCCGTGGGCCTCAGGGTGAGAGACAGCACTCTGCTGCCCCGTGGAGCTGCTCCTTCTCCAAGTCCCAAAGTAAATCATTGGAAGCAGCCCATGGTGCCACCTTACCTATGCAAGGTCCGGAGCTCTCAGCTCAGGAACAGATGGATGGGATCCTGGGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAGGCTGCAAATAGgtaagtataatacatacggatgccttttcctcactccccctagcttctaa Alignment from Spaln_nt2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC----CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG gacagacaccccacagcaatgcagtagtcttttctgtgtgctccttcgagGGCTCTGGTATGGGGGATGAGCCCCGTGGGCCTCAGGGTGAGAGACAGCACTCTGCTGCCCCGTGGAGCTGCTCCTTCTCCAA-GTCCCAAAGTAAATCATTGGAAGCAGCCCATGGTGCCACCTTACCTATGCAAGGTCCGGAGCTCTCAGCTCAGGAACAGATGGATGGGATCCTGGGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAGGCTGCAAATAGgtaagtataatacatacggatgccttttcctcactccccctagcttctaa Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACC----CTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG gacagacaccccacagcaatgcagtagtcttttctgtgtgctccttcgagGGCTCTGGTATGGGGGATGAGCCCCGTGGGCCTCAGGGTGAGAGACAGCACTCTGCTGCCCCGTGGAGCTGCTCCTTCTCCAA-GTCCCAAAGTAAATCATTGGAAGCAGCCCATGGTGCCACCTTACCTATGCAAGGTCCGGAGCTCTCAGCTCAGGAACAGATGGATGGGATCCTGGGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAGGCTGCAAATAGgtaagtataatacatacggatgccttttcctcactccccctagcttctaa Alignment from Exonerate_protein2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAG---ACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG gacagacaccccacagcaatgcagtagtcttttctgtgtgctccttcgagGGCTCTGGTATGGGGGATGAGCCCCGTGGGCCTCAGGGTGAGAGACAGCACTCTGCTGCCCCGTGGAGCTGCTCCTTCTCCAAGTCCCAAAGTAAATCATTGGAAGCAGCCCATGGTGCCACCTTACCTATGCAAGGTCCGGAGCTCTCAGCTCAGGAACAGATGGATGGGATCCTGGGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAGGCTGCAAATAGgtaagtataatacatacggatgccttttcctcactccccctagcttctaa Alignment from Exonerate_coding2genome gacagacaccccacagcaatgcagtagtcttttctgtgtgctccttcgagggctctggtatgggggatgagccccgtgggcctcagggtgagagacagcactctgctgccccgtggagctgctccttctccaagtcccaaagtaaatcattggaagcagcccatggtgccaccttacctatgcaaggtccggagctctcagctcaggaacagatggatgggatcctgggccgagaacaagacatggaagcgttgaacaagaaggctgcaaataggtaagtataatacatacggatgccttttcctcactccccctagcttctaa Alignment from GeneWise GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAG---ACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAG gacagacaccccacagcaatgcagtagtcttttctgtgtgctccttcgagGGCTCTGGTATGGGGGATGAGCCCCGTGGGCCTCAGGGTGAGAGACAGCACTCTGCTGCCCCGTGGAGCTGCTCCTTCTCCAAGTCCCAAAGTAAATCATTGGAAGCAGCCCATGGTGCCACCTTACCTATGCAAGGTCCGGAGCTCTCAGCTCAGGAACAGATGGATGGGATCCTGGGCCGAGAACAAGACATGGAAGCGTTGAACAAGAAGGCTGCAAATAGgtaagtataatacatacggatgccttttcctcactccccctagcttctaa #### Ssh3_ID443_13 --> 1 - 0 Original Alignment cCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGG-GGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA aggttgtagcttactaaactgaggagtcctttctcatttttttcttccagcCAACAGAGCCGTGTTTGGGAGCAAACAGTAGGTGGTATT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTTCCATCGTTTCCTCCTGAACCAGGACGGAAGTGGGGAGGTTATGGTGATGGGCCTGG-AGGAAGCCAAGAGATGCCAAAAGAAGACCTGGGACTGCAGCCTAGAATTAACCTCCGGGGGGCCATGCAATCCATTCCTCTACTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCACAGgtaagaccagaacagaggtatgcaccattgcagtaatcaccttgtcaccc Alignment from CESAR cCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCG------CCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGG-GGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA aggttgtagcttactaaactgaggagtcctttctcatttttttcttccagcCAACAGAGCCGTGTTTGGGAGCAAACAGTAGGTGGTATT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTTCCATCGTTTCCTCCTGAACCAGGACGGAAGTGGGGAGGTTATGGTGATGGGCCTGG-AGGAAGCCAAGAGATGCCAAAAGAAGACCTGGGACTGCAGCCTAGAATTAACCTCCGGGGGGCCATGCAATCCATTCCTCTACTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCACAGgtaagaccagaacagaggtatgcaccattgcagtaatcaccttgtcaccc Alignment from Spaln_aa2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA aggttgtagcttactaaactgaggagtcctttctcatttttttcttccagCCAACAGAGCCGTGTTTGGGAGCAAACAGTAGGTGGTATT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTTCCATCGTTTCCTCCTGAACCAGGACGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAGGAAGCCAAGAGATGCCAAAAGAAGACCTGGGACTGCAGCCTAGAATTAACCTCCGGGGGGCCATGCAATCCATTCCTCTACTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCACAGgtaagaccagaacagaggtatgcaccattgcagtaatcaccttgtcaccc Alignment from Spaln_nt2Genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCC------TGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGG-GGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA aggttgtagcttactaaactgaggagtcctttctcatttttttcttccagCCAACAGAGCCGTGTTTGGGAGCAAACAGTAG--GTGGTAT-TCCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTTCCATCGTTTCCTCCTGAACCAGGACGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAGGA-AGCCAAGAGATGCCAAAAGAAGACCTGGGACTGCAGCCTAGAATTAACCTCCGGGGGGCCATGCAATCCATTCCTCTACTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCACAGgtaagaccagaacagaggtatgcaccattgcagtaatcaccttgtcaccc Alignment from Pairagon CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG-------------------------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGG-GGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA aggttgtagcttactaaactgaggagtcctttctcatttttttcttccagCCAACAGAGCCGTGTTTGGGAGCAAACAGTAGGTG----------------------GTATTCCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTTCCATCGTTTCCTCCTGAACCAGGACGGAAGTGGGGAGGTTATGGTGATGGGCCTGG-AGGAAGCCAAGAGATGCCAAAAGAAGACCTGGGACTGCAGCCTAGAATTAACCTCCGGGGGGCCATGCAATCCATTCCTCTACTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCACAGgtaagaccagaacagaggtatgcaccattgcagtaatcaccttgtcaccc Alignment from Exonerate_protein2genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA aggttgtagcttactaaactgaggagtcctttctcatttttttcttccagCCAACAGAGCCGTGTTTGGGAGCAAACAGTAGGTGGTATT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTTCCATCGTTTCCTCCTGAACCAGGACGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAGGAAGCCAAGAGATGCCAAAAGAAGACCTGGGACTGCAGCCTAGAATTAACCTCCGGGGGGCCATGCAATCCATTCCTCTACTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCACAGgtaagaccagaacagaggtatgcaccattgcagtaatcaccttgtcaccc Alignment from Exonerate_coding2genome CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTG------GCGCCTGAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA aggttgtagcttactaaactgaggagtcctttctcatttttttcttccagCCAACAGAGCCGTGTTTGGGAGCAAACAGTAGGTGGTATT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTTCCATCGTTTCCTCCTGAACCAGGACGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAGGAAGCCAAGAGATGCCAAAAGAAGACCTGGGACTGCAGCCTAGAATTAACCTCCGGGGGGCCATGCAATCCATTCCTCTACTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCACAGgtaagaccagaacagaggtatgcaccattgcagtaatcaccttgtcaccc Alignment from GeneWise CCGGCAGAGCCACGTCTGGGAGCAGAAAGTGGGTGTGGTCTCCCCAGAGGAGCCCCTGGCGCCT------GAAGTTTCTACACCATTGCCACCTCTTCCACCAGAACCAGGGGGCAGTGGGGAGGTGATGGTAATGGGCCTGGAAGGAAGCCAGGAAACCCCAAAAGAAGAACTTGGACTGCGGCCCCGCATCAACCTTCGAGGGGTCATGCGCTCCATCAGTCTCCTGGAGCCCTCAGAGTCAGAGAGTACCCCAGAGGCGGGAGGCCTGCCAGAA aggttgtagcttactaaactgaggagtcctttctcatttttttcttccagCCAACAGAGCCGTGTTTGGGAGCAAACAGTAGGTGGTATT---CCTGAGGAACCCTTAGCACCAGCACCTGAAGTTTCCACCCCATTTCCATCGTTTCCTCCTGAACCAGGACGGAAGTGGGGAGGTTATGGTGATGGGCCTGGAGGAAGCCAAGAGATGCCAAAAGAAGACCTGGGACTGCAGCCTAGAATTAACCTCCGGGGGGCCATGCAATCCATTCCTCTACTTGAACCCTCAGAGGTAGAGAGTACACCAGAGGCAGGGGGTCTGCCACAGgtaagaccagaacagaggtatgcaccattgcagtaatcaccttgtcaccc #### Ssh3_ID447_9 --> 0 - 0 Original Alignment ATCCGTCAGGCCCTG-GAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC taggccttcagaccgcttagacattaagtgatccaaaaatctcttttaagCTTCATCGGGCATTACGAACTACTCCTTGGATGTCCTTTA------T-TCGTGTCTTTATTGATAACCAGATGCTGCTTCTCATGGCCCATCAGGATCAGACATCCCGAATCTACCCATACCTCTATTTAgtaatgagtcttctattcattcttcctgacatagctgtttttctcagGGC Alignment from CESAR ATCCGTCAGGCCCTG-GAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC taggccttcagaccgcttagacattaagtgatccaaaaatctcttttaagCTTCATCGGGCATTACGAACTACTCCTTGGATGTCCTTTA------T-TCGTGTCTTTATTGATAACCAGATGCTGCTTCTCATGGCCCATCAGGATCAGACATCCCGAATCTACCCATACCTCTATTTAgtaatgagtcttctattcattcttccatgtaataatttctcttctagGGC Alignment from Spaln_aa2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC taggccttcagaccgcttagacattaagtgatccaaaaatctcttttaagCTTCATCGGGCATTACGAACTACTCCTTGGATGTCCTTT------ATTCGTGTCTTTATTGATAACCAGATGCTGCTTCTCATGGCCCATCAGGATCAGACATCCCGAATCTACCCATACCTCTATTTAgtaatgagtcttctattcattcttcctgacatagctgtttttctcagGGC Alignment from Spaln_nt2Genome ATCCGTCAGGCCCTG-GAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC taggccttcagaccgcttagacattaagtgatccaaaaatctcttttaagCTTCATCGGGCATTACGAACTACTCCTTGGATGTCCTTT-----ATT--CGTGTCTTTATTGATAACCAGATGCTGCTTCTCATGGCCCATCAGGATCAGACATCCCGAATCTACCCATACCTCTATTTAgtaatgagtcttctattcattcttcctgacatagctgtttttctcagGGC Alignment from Pairagon TCTCCAGCAGTAC-------------------------------------------------------------------------------CGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTT-----------------------------------------------GGGC -----------ACCGCTTAGACATTAAGTGATCCAAAAATCTCTTTTAAGCTTCATCGGGCATTACGAACTACTCCTTGGATGTCCTTTATTCGTGTCTTTATTGATAACCAGATGCTGCTTCTCATGGCCCATCAGGATCAGACATCCCGAATCTACCCATACCTCTATTTAGTAATGAGTCTTCTATTCATTCTTCCTGACATAGCTGTTTTTCTCAGGGC Alignment from Exonerate_protein2genome GAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC taggccttcagaccgcttagacattaagtgatccaaaaatctcttttaagcttcatcggGCATTACGAACTACTCCTTGGATGTCCTTTATTCGTGTCTTTATTGATAACCAGATGCTGCTTCTCATGGCCCATCAGGATCAGACATCCCGAATCTACCCATACCTCTATTTAgtaatgagtcttctattcattcttcctgacatagctgtttttctcagGGC Alignment from Exonerate_coding2genome ATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC taggccttcagaccgcttagacattaagtgatccaaaaatctcttttaagcttcatcgggcattacgaactactccttggatgtcctttattcgtgtctttattgataaccagATGCTGCTTCTCATGGCCCATCAGGATCAGACATCCCGAATCTACCCATACCTCTATTTAgtaatgagtcttctattcattcttcctgacatagctgtttttctcagGGC Alignment from GeneWise ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTAC---CGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGC taggccttcagaccgcttagacattaagtgatccaaaaatctcttttaagCTTCATCGGGCATTACGAACTACT---------CCTTGGATGTCCTTTATTCGTGTCTTTATTGATAACCAGATGCTGCTTCTCATGGCCCATCAGGATCAGACATCCCGAATCTACCCATACCTCTATTTAgtaatgagtcttctattcattcttcctgacatagctgtttttctcagGGC #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAA-AAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG gtagagggtgtttactgccactttctaaatgtgctgtgtctgttaattaggGCCTCAGAGCAAGAGCAAGACA---------------GTAGAATTGTGGCGAGTAT-AGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaagttaaagtagggtatgtcaatggttcatatctgatgccccccatac Alignment from CESAR gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG gtagagggtgtttactgccactttctaaatgtgctgtgtctgttaattaggGCCTCAGAGCAAGAGCAA---GACAGTAGAATTGTGGCGAGT------------ATAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaagttaaagtagggtatgtcaatggttcatatctgatgccccccatac Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG gtagagggtgtttactgccactttctaaatgtgctgtgtctgttaattagGGCCTCAGAGCAAGAGCAAGACAGTAGAATTGTGGCGAGT---------------ATAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaagttaaagtagggtatgtcaatggttcatatctgatgccccccatac Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG gtagagggtgtttactgccactttctaaatgtgctgtgtctgttaattagGGCCTCAGAGCA---------AGAGCAAGACA-----GTAGAATTGTGGCGAGT-ATAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaagttaaagtagggtatgtcaatggttcatatctgatgccccccatac Alignment from Pairagon GGCTTCAGAGCAGGA-------------------------AAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG gtagagggtgtttactgccactttctaaatgtgctgtgtctgttaattagGGCCTCAGAGCAAGAGCAAGACAGTAGAATTGTGGCGAGTATAGAT----------------------------------------ACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaagttaaagtagggtatgtcaatggttcatatctgatgccccccatac Alignment from Exonerate_protein2genome AGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG gtagagggtgtttactgccactttctaaatgtgctgtgtctgttaattagggcctcagAGCAAGAGCAAGACAGTAGAATTGTGGCGAGTATAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaagttaaagtagggtatgtcaatggttcatatctgatgccccccatac Alignment from Exonerate_coding2genome CTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAGATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAG GTAGAGGGTGTTTACTGCCACTTTCTAAATGTGCTGTGTCTGTTAATTAGGGCCTCAGAGCAAGAGCAAGACAGTAGAATTGTGGCGAGTATAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaagttaaagtagggtatgtcaatggttcatatctgatgccccccatac Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG gtagagggtgtttactgccactttctaaatgtgctgtgtctgttaattagGGCCTCAGAGCAAGAGCAAGACAGTAGAATTGTGGCGAGT---------------ATAGATACCAGTGATCTAGAAAGTGTTACCTCCAAAGAGgtaagttaaagtagggtatgtcaatggttcatatctgatgccccccatac #### Ssh3_ID450_6 --> 1 - 2 Original Alignment gGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagtAGTTTGAGTGTGCACACCCGGCGGCAAAAGCCGGATCTTCAAGC-TCTCTCTATTCAGACCATGtggtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from CESAR gGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGtg gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagtAGTTTGAGTGTGCACACCCGGCGGCAAAAGCCGGATCTTCA-AGCTCTCTCTATTCAGACCATGtggtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Spaln_aa2Genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagTAGTTTGAGTGTGCACACCCGGCGGCAAAAGCCGGATCTTCAAGCTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Spaln_nt2Genome GGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagTAGTTTGAGTGTGCACACCCGGCGGCAAAAGCCGGATCTTCAAG-CTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Pairagon GGGCTTCAGTGTG-ACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagTAGTTTGAGTGTGCACACCCGGCGGCAAAAGCCGGATCTTCAAG-CTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Exonerate_protein2genome GGGCTTCAGTGTGACATCTGGTGGTCAAAGCCGAATCTTCAAGCCTGTCTCTATCCAGACCATGTG gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagTAGTTTGAGTGTGCACACCCGGCGGCAAAAGCCGGATCTTCAAGCTCTCTCTATTCAGACCATGTGgtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from Exonerate_coding2genome gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagtagtttgagtgtgcacacccggcggcaaaagccggatcttcaagctctctctattcagaccatgtggtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa Alignment from GeneWise gcctattgattaccttctctcaaagtctacctgttacctcttctcctaagtagtttgagtgtgcacacccggcggcaaaagccggatcttcaagctctctctattcagaccatgtggtaagtggtccaaattataagtttccaaggatacttggttgaccttctaa #### Ssh3_ID451_5 --> 1 - 2 Original Alignment tTCCCAC---------AGCTGC-ACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATgg ctattgacattatagaggtagacagattggagaaactgctacccttacagtTGTCATAGCTGCACAAGTTGCCACACTTGGACTGGTTGTGCCCCTTTGGAGTG-TACTCATGTATACCTATATGGAGATgggtaagtggctctccgtcagggaaacaagatagggctgagaaaattgggcc Alignment from CESAR tTCCCACAGCTGC-ACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATgg agcagcctgctattgacattatagaggtagacagactgctacccttacagttgtcatagcTGCACAAGTTGCCACACTTGGACTGGTTGTGCCCCTTTGGAGT-GTACTCATGTATACCTATATGGAGATgggtaagtggctctccgtcagggaaacaagatagggctgagaaaattgggcc Alignment from Spaln_aa2Genome GCAGTTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatagaggtagacagattggagaaactgctacccttacagttgtcatagCT---GCACAAGTTGCCACACTTGGACTGGTTGTGCCCCTTTGGAGTGT-ACTCATGTATACCTATATGGAGATGGgtaagtggctctccgtcagggaaacaagatagggctgagaaaattgggcc Alignment from Spaln_nt2Genome TTCCCACAGCTGCACC----------CTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatagaggtagacagattggagaaactgctacccttacagTTGTCATAGCTGCACAAGTTGCCACACTTGGACTGGTTGTGCCCCTTTGGAGTG-TACTCATGTATACCTATATGGAGATGGgtaagtggctctccgtcagggaaacaagatagggctgagaaaattgggcc Alignment from Pairagon TTCCCACAGCTG----------CACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatagaggtagacagattggagaaactgctacccttacagTTGTCATAGCTGCACAAGTTGCCACACTTGGACTGGTTGTGCCCCTTTGGAGTG-TACTCATGTATACCTATATGGAGATGGgtaagtggctctccgtcagggaaacaagatagggctgagaaaattgggcc Alignment from Exonerate_protein2genome TTCCCACAGCTGCACCCTGGGCCTGGTCTTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatagaggtagacagattggagaaactgctacccttacagttgtcatagCTGCACAAGTTGCCACACTTGGACTGGTTGTGCCCCTTTGGAGTGTACTCATGTATACCTATATGGAGATGGgtaagtggctctccgtcagggaaacaagatagggctgagaaaattgggcc Alignment from Exonerate_coding2genome ctattgacattatagaggtagacagattggagaaactgctacccttacagttgtcatagctgcacaagttgccacacttggactggttgtgcccctttggagtgtactcatgtatacctatatggagatgggtaagtggctctccgtcagggaaacaagatagggctgagaaaattgggcc Alignment from GeneWise TTCCCACAGCTGCACCCTGGGCCTGGTC------------TTGCCCCTCTGGAGTGATACCCAGGTGTACCTGGACGGCGATGG ctattgacattatagaggtagacagattggagaaactgctacccttacagTTGTCATAGCTGCACAAGTTGCCACACTTGGACTGGTTGTGCCCCTTTG---GAGTGTACTCATGTATACCTATATGGAGATGGgtaagtggctctccgtcagggaaacaagatagggctgagaaaattgggcc #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCAGCT-GCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ttttctccattatatttccacaaatcgtcttcttgtctttcaacaaccagacAAGGGTTATACCCGACAGGCAGTTCGCTTTAGAAGCCATGAAGGACTATACAAAAG-AATGCAT------CAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtgaggtagggatatcttgcatacagactgtgattatgtaattgaggggt Alignment from CESAR tcAAGGGTTATACACGGAAAGCAGCT-GCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ttttctccattatatttccacaaatcgtcttcttgtctttcaacaaccagacAAGGGTTATACCCGACAGGCAGTTCGCTTTAGAAGCCATGAAGGACTATACAAAA-GAATG------CATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtgaggtagggatatcttgcatacagactgtgattatgtaattgaggggt Alignment from Spaln_aa2Genome TCAAGGGTTATACACGGAAAGCAGCT-GCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ttttctccattatatttccacaaatcgtcttcttgtctttcaacaaccagACAAGGGTTATACCCGACAGGCAGTTcGCTTTAGAAGCCATGAAGGACTATACAAAAGA-------ATGCATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtgaggtagggatatcttgcatacagactgtgattatgtaattgaggggt Alignment from Spaln_nt2Genome TCAAGGGTTATACACGGAAAGCAGCT-GCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ttttctccattatatttccacaaatcgtcttcttgtctttcaacaaccagACAAGGGTTATACCCGACAGGCAGTTCGCTTTAGAAGCCATGAAGGACTATACAAAAG-AATGCAT------CAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtgaggtagggatatcttgcatacagactgtgattatgtaattgaggggt Alignment from Pairagon TCAAGGGTTATACACGGAAAGCAGCT-GCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ttttctccattatatttccacaaatcgtcttcttgtctttcaacaaccagACAAGGGTTATACCCGACAGGCAGTTCGCTTTAGAAGCCATGAAGGACTATACAAAAGA-------ATGCATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtgaggtagggatatcttgcatacagactgtgattatgtaattgaggggt Alignment from Exonerate_protein2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ttttctccattatatttccacaaatcgtcttcttgtctttcaacaaccagACAAGGGTTATACCCGACAGGCAGTTCGCTTTAGAAGCCATGAAGGACTATACAAAAGAATG------CATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtgaggtagggatatcttgcatacagactgtgattatgtaattgaggggt Alignment from Exonerate_coding2genome ttttctccattatatttccacaaatcgtcttcttgtctttcaacaaccagacaagggttatacccgacaggcagttcgctttagaagccatgaaggactatacaaaagaatgcatcaaaaggcattagacctagactcctgttgcaaggtgaggtagggatatcttgcatacagactgtgattatgtaattgaggggt Alignment from GeneWise TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ttttctccattatatttccacaaatcgtcttcttgtctttcaacaaccagACAAGGGTTATACCCGACAGGCAGTTCGCTTTAGAAGCCATGAAGGACTATACAAAAGAATG------CATCAAAAGGCATTAGACCTAGACTCCTGTTGCAAGgtgaggtagggatatcttgcatacagactgtgattatgtaattgaggggt #### Stip1_ID1994_7 --> 2 - 2 Original Alignment ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAG-CTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCaa ttgttcgtttatctagcttttttatctagaagctcgctttcttcccacagctGTTCACTTTGACAAGGGTGATTATAACGAATGTCGGGATCCTCTGCGAAAAGGCTATAGAGGTTGGAAGAGAGA-TCGTGAGGATTACCGTCAAATTGCTaagtaagtcatcaaatgctgaacgaggcaaggcacctttcttagtgcctact Alignment from CESAR ctGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAG-CTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCaa ttgttcgtttatctagcttttttatctagaagctcgctttcttcccacagctGTTCACTTTGACAAGGGTGATTATAACGAATGTCGGGATCCTCTGCGAAAAGGCTATAGAGGTTGGAAGAG-AGATCGTGAGGATTACCGTCAAATTGCTaagtaagtcatcaaatgctgaacgaggcaaggcacctttcttagtgcctact Alignment from Spaln_aa2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA ttgttcgtttatctagcttttttatctagaagctcgctttcttcccacagCTGTTCACTTTGACAAGGGTGATTATAACGAATGTCGGGATCCTCTGCGAAAAGGCTATAGAGGTTGGAAGAGAGATCGTGAGGATTACCGTCAAATTGCTAAgtaagtcatcaaatgctgaacgaggcaaggcacctttcttagtgcctact Alignment from Spaln_nt2Genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGC-TCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA ttgttcgtttatctagcttttttatctagaagctcgctttcttcccacagCTGTTCACTTTGACAAGGGTGATTATAACGAATGTCGGGATCCTCTGCGAAAAGGCTATAGAGGTTGGAAGAGAG-ATCGTGAGGATTACCGTCAAATTGCTAAgtaagtcatcaaatgctgaacgaggcaaggcacctttcttagtgcctact Alignment from Pairagon CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGA-GCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA ttgttcgtttatctagcttttttatctagaagctcgctttcttcccacagCTGTTCACTTTGACAAGGGTGATTATAACGAATGTCGGGATCCTCTGCGAAAAGGCTATAGAGGTTGGAAGAGAG-ATCGTGAGGATTACCGTCAAATTGCTAAgtaagtcatcaaatgctgaacgaggcaaggcacctttcttagtgcctact Alignment from Exonerate_protein2genome CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA ttgttcgtttatctagcttttttatctagaagctcgctttcttcccacagCTGTTCACTTTGACAAGGGTGATTATAACGAATGTCGGGATCCTCTGCGAAAAGGCTATAGAGGTTGGAAGAGAGATCGTGAGGATTACCGTCAAATTGCTAAgtaagtcatcaaatgctgaacgaggcaaggcacctttcttagtgcctact Alignment from Exonerate_coding2genome ttgttcgtttatctagcttttttatctagaagctcgctttcttcccacagctgttcactttgacaagggtgattataacgaatgtcgggatcctctgcgaaaaggctatagaggttggaagagagatcgtgaggattaccgtcaaattgctaagtaagtcatcaaatgctgaacgaggcaaggcacctttcttagtgcctact Alignment from GeneWise CTGTGCACTTTGAGAAGGGCGACTATAACAAATGCCGGGAGCTCTGTGAGAAGGCCATTGAAGTGGGCAGAGAGAACCGAGAGGACTACCGGCAGATCGCCAA ttgttcgtttatctagcttttttatctagaagctcgctttcttcccacagCTGTTCACTTTGACAAGGGTGATTATAACGAATGTCGGGATCCTCTGCGAAAAGGCTATAGAGGTTGGAAGAGAGATCGTGAGGATTACCGTCAAATTGCTAAgtaagtcatcaaatgctgaacgaggcaaggcacctttcttagtgcctact #### Stip1_ID1997_4 --> 2 - 2 Original Alignment agAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTCAGTGACCCC-ACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCac tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagagAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTAAGTGACCCTCGCCTACCGGGAGCTCATAGAACAGCTGCAAAACA-GCCATCTGACTTGGGCacgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from CESAR agAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTCAGTGACCCC-ACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCac tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagagAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTAAGTGACCCTCGCCTACCGGGAGCTCATAGAACAGCTGCAAA-ACAGCCATCTGACTTGGGCacgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Spaln_aa2Genome AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTCAGTGACCCC-ACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTAAGTGACCCTcGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAG-CCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Spaln_nt2Genome AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTCAGTGACCC-CACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTAAGTGACCCTCGCCTACCGGGAGCTCATAGAACAGCTGCAAAAC-AGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Pairagon AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTCAGTGACCC-CACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTAAGTGACCCTCGCCTACCGGGAGCTCATAGAACAGCTGCAAAAC-AGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Exonerate_protein2genome AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTCAGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTAAGTGACCCTCGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise AGAGGAAATTCATGAATCCATTCAACTTGCCTAATCTATACCAAAAGTTGGAAAACGACCCCAGGACAAGGTCGCTGCTCAGTGACCCCACCTACAGGGAGCTCATAGAACAGCTGCAGAACAAGCCGTCAGACCTGGGCAC tttaccaaccagccccatgactcatatcttcctacctcctgaattttcagAGAGGAAATTCATGAATCCATTTAACCTTCCAAACCTATATCAAAAGTTGGAAAATGACCCAGGTGCAAGGTCATTGCTAAGTGACCCTCGCCTACCGGGAGCTCATAGAACAGCTGCAAAACAGCCATCTGACTTGGGCACgtaaaacaatgatgcaccttaggagaactatctgcagtatctgagatctc #### Stx3_ID3300_6 --> 0 - 1 Original Alignment CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAG-GTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTa taagactacaccaatatagtttgataggctcaccttttccactcctccagCAGTCTATCCTCTTGCAGAAA---GTGGAGGTGATGACCAAGTACAACGACACCCAGCTTAGATTTTCGAGAACGGAGCAAAGGCCGCA-CCAATATCAACTTGAAATCagtaggattcaagtaccagtggatatcttgccatgtagccactacccttaa Alignment from CESAR CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAGGTG-GACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTa taagactacaccaatatagtttgataggctcaccttttccactcctccagCAGTCTATCCTCTTGCAGAAA---GTGGAGGTGATGACCAAGTACAACGACACCCAGCTTAGATTTTCGAGAACGGAGCAAAGGCCGC-ACCAATATCAACTTGAAATCagtaggattcaagtaccagtggatatcttgccatgtagccactacccttaa Alignment from Spaln_aa2Genome CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAGGTGGAC-TTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA taagactacaccaatatagtttgataggctcaccttttccactcctccagCAGTCTATCCTCTTGCAGAAA---GTGGAGGTGATGACCAAGTACAACGACACCCAGCTTAGAtTTTCGAGAACGGAGCAAAGGCCGCAC-CAATATCAACTTGAAATCAgtaggattcaagtaccagtggatatcttgccatgtagccactacccttaa Alignment from Spaln_nt2Genome CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAGGTG-GACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA taagactacaccaatatagtttgataggctcaccttttccactcctccagCAGTCTATCCTCTTGCAGAA---AGTGGAGGTGATGACCAAGTACAACGACACCCAGCTTAGATTTTCGAGAACGGAGCAAAGGCCGCA-CCAATATCAACTTGAAATCAgtaggattcaagtaccagtggatatcttgccatgtagccactacccttaa Alignment from Pairagon GAAAGTCCCAGCACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAGG-TGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA taagactacaccaatatagtttgataggctcaccttttccactcctccagcagtctatcctcttgcagAAA--------------------------------GTGGAGGTGATGACCAAGTACAACGACACCCAGCTTAGATTTTCGAGAACGGAGCAAAGGCCGCA-CCAATATCAACTTGAAATCAgtaggattcaagtaccagtggatatcttgccatgtagccactacccttaa Alignment from Exonerate_protein2genome AGGAAGATGAGGTTCGGTCATCTGCAGACCTTCGGATACGAAAGTCCCAGCACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA TAAGACTACACCAATATAGTTTGATAGGCTCACCTTTTCCACTCCTCCAGCAGTCTATCCTCTTGCAGAAA---GTGGAGGTGATGACCAAGTACAACGACACCCAGCTTAGATTTTCGAGAACGGAGCAAAGGCCGCACCAATATCAACTTGAAATCAgtaggattcaagtaccagtggatatcttgccatgtagccactacccttaa Alignment from Exonerate_coding2genome CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA taagactacaccaatatagtttgataggctcaccttttccactcctccagCAGTCTATCCTCTTGCAGAAA---GTGGAGGTGATGACCAAGTACAACGACACCCAGCTTAGATTTTCGAGAACGGAGCAAAGGCCGCACCAATATCAACTTGAAATCAgtaggattcaagtaccagtggatatcttgccatgtagccactacccttaa Alignment from GeneWise CACTCCGTCCTCTCCCGGAAGTTTGTGGAGGTGATGACAAAGTACAATGAGGCTCAGGTGGACTTCCGTGAACGCAGCAAAGGGCGCATCCAACGGCAGCTTGAAATTA taagactacaccaatatagtttgataggctcaccttttccactcctccagCAGTCTATCCTCTTGCAGAAA---GTGGAGGTGATGACCAAGTACAACGACACCCAGCTTAGATTTTCGAGAACGGAGCAAAGGCCGCACCAATATCAACTTGAAATCAgtaggattcaagtaccagtggatatcttgccatgtagccactacccttaa #### Stx5a_ID2335_7 --> 0 - 1 Original Alignment AATCTGAAACAGCAGAGG-AACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGGCAATCGA---GCCCAGCTA---TGGGCCC-TGTGTCTGCCTTTCCATTAGCACCCAATAACCTTggtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from CESAR AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCA------CCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTg ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGG------------CAATCGAGCCCAGCTATGGGCCCTGTGTCTGCCTTTCCATTAGCACCCAATAACCTTggtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Spaln_aa2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAG------AGGCAATCGAGCCCAGCTATGGGCCCTGTGTCTGCCTTTCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Spaln_nt2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGG--CAATCGAGCCCAGCTAT---GGGC-CCTGTGTCTGCCTTTCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Pairagon AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCA-------------------CCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGA-------------------------GGCAATCGAGCCCAGCTATGGGCCCTGTGTCTGCCTTTCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Exonerate_protein2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAG------AGGCAATCGAGCCCAGCTATGGGCCCTGTGTCTGCCTTTCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from Exonerate_coding2genome ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagaatttaaaacagcagaggcaatcgagcccagctatgggccctgtgtctgcctttccattagcacccaataaccttggtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa Alignment from GeneWise AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTG ccatgtgcaaatgtctacagagccttggaaattctttgttttttttctagAATTTAAAACAGCAGAGG------CAATCGAGCCCAGCTATGGGCCCTGTGTCTGCCTTTCCATTAGCACCCAATAACCTTGgtaagattaccttatttagtatagtgggtctgacctgaactgctccaaaa #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agactgaaattggcagtacctttgaatgacccttgtatgtgtgtccacagGTTCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGAAAGGTGATGGGGAAGGTGTTCTTTGGGCAGC-GAGGGCACCAGAGATGGAAgtacttagggtctgggcaagggttcttgccatgctggctgtcttacagct Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agactgaaattggcagtacctttgaatgacccttgtatgtgtgtccacagGTTCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGAAAGGTGATGGGGAAGGTGTTCTTTGGGCAG-CGAGGGCACCAGAGATGGAAgtacttagggtctgggcaagggttcttgccatgctggctgtcttacagct Alignment from Spaln_aa2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAG-GTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agactgaaattggcagtacctttgaatgacccttgtatgtgtgtccacagGTTCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGAAAgGTGATGGGGAAGGTGTTCTTTGGGCAGCG-AGGGCACCAGAGATGGAAgtacttagggtctgggcaagggttcttgccatgctggctgtcttacagct Alignment from Spaln_nt2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agactgaaattggcagtacctttgaatgacccttgtatgtgtgtccacagGTTCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGAAAGGTGATGGGGAAGGTGTTCTTTGGGCAGC-GAGGGCACCAGAGATGGAAgtacttagggtctgggcaagggttcttgccatgctggctgtcttacagct Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG agactgaaattggcagtacctttgaatgacccttgtatgtgtgtccacagGTTCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGAAAGGTGATGGGGAAGGTGTTCTTTGGGCAGC-GAGGGCACCAGAGATGGAAgtacttagggtctgggcaagggttcttgccatgctggctgtcttacagct Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAG agactgaaattggcagtacctttgaatgacccttgtatgtgtgtccacagGTTCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGAAAGGTGATGGGGAAGGTGTTCTTTGGGCAGcgagggcaccagagatggaagtacttagggtctgggcaagggttcttgccatgctggctgtcttacagct Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTG-GGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAGCACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTT agactgaaattggcagtacctttgaatgacccttgtatgtgtgtccacagGTTCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGAAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCGA-GGGCACCAGAGATGGAAGTACTTAGGGTCTGGGCAAGGGTTCTTGCCATGCTGGCTGTCTTACAGCT Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG-------------------------------------------------- agactgaaattggcagtacctttgaatgacccttgtatgtgtgtccacagGTTCTATACATACAGGCCTTTGTTCTTGTCTTCCTCTTGCGGAAAGGTGATGGGGAAGGTGTTCTTTGGGCAGCGAGGGCACCAGAGATGGAAGTACTTAGGGTCTGGGCAAGGGTTCTTGCCATGCTGGCTGTCTTACAGCT #### Syvn1_ID1384_3 --> 0 - 0 Original Alignment CACCTTCTGGAACGGTCCTGGTACGCTGTTACT-GAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACACGAAATCTGTTTGACCTTTACAGTTATTGGCGATG-CTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from CESAR CACCTTCTGGAACGGTCCTGGTACGCTGTTACT-GAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACACGAAATCTGTTTGACCTTTACAGTTATTGGCGATGCT-CAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Spaln_aa2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACACGAAATCTGTTTGACCTTTACAGTTATTGGCGATGCTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Spaln_nt2Genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACT-GAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACACGAAATCTGTTTGACCTTTACAGTTATTGGCGATG-CTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Pairagon CACCTTCTGGAACGGTCCTGGTACGCTGTTAC-TGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACACGAAATCTGTTTGACCTTTACAGTTATTGGCGATG-CTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Exonerate_protein2genome CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACACGAAATCTGTTTGACCTTTACAGTTATTGGCGATGCTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from Exonerate_coding2genome ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagcacctgctggaacagtcttggtatgctgtcacacgaaatctgtttgacctttacagttattggcgatgctcaagtccccaatttgtcgcactcttcatgcttcttctcttccttaagtgcttccagtggttagctgcagatcatgttgattctgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg Alignment from GeneWise CACCTTCTGGAACGGTCCTGGTACGCTGTTACTGAGACTTGTTTGGCCTTCACCGTTTTTCGGGATGACTTCAGCCCTCGCTTTGTGGCGCTCTTTACGCTGCTCCTCTTCCTCAAATGTTTCCATTGGTTGGCTGAAGACCGTGTGGACTTT ttgccatgctggctgtcttacagcttcaaattctgtaatcatccttgcagCACCTGCTGGAACAGTCTTGGTATGCTGTCACACGAAATCTGTTTGACCTTTACAGTTATTGGCGATGCTCAAGTCCCCAATTTGTCGCACTCTTCATGCTTCTTCTCTTCCTTAAGTGCTTCCAGTGGTTAGCTGCAGATCATGTTGATTCTgtaggctcaatccactgatgaatatgcaggtgctcttcttgtttcacagg #### Syvn1_ID1386_5 --> 2 - 0 Original Alignment ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCAC-GCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcgagaagccttatcacttctctctcttctgcccccagttCTCATGTTTCTCCTGGGCATCCTGGATTTCCTTTTTGTCAGCCACCACTTATCACAGGGTTGTGACTCGTGGTACTTCAGTGC-GTTGGTATTTGGCTTTGTTgtaaaggcaggcaagaggtaacaagtcagctcttctacaagctcttctac Alignment from CESAR ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCAC-GCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcgagaagccttatcacttctctctcttctgcccccagttCTCATGTTTCTCCTGGGCATCCTGGATTTCCTTTTTGTCAGCCACCACTTATCACAGGGTTGTGACTCGTGGTACTTCAGTG-CGTTGGTATTTGGCTTTGTTgtaaaggcaggcaagaggtaacaagtcagctcttctacaagctcttctac Alignment from Spaln_aa2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcgagaagccttatcacttctctctcttctgcccccagTTCTCATGTTTCTCCTGGGCATCCTGGATTTCCTTTTTGTCAGCCACCACTTATCACAGGGTTGTGACTCGTGGTACTTCAGTGCGTTGGTATTTGGCTTTGTTgtaaaggcaggcaagaggtaacaagtcagctcttctacaagctcttctac Alignment from Spaln_nt2Genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACG-CTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcgagaagccttatcacttctctctcttctgcccccagTTCTCATGTTTCTCCTGGGCATCCTGGATTTCCTTTTTGTCAGCCACCACTTATCACAGGGTTGTGACTCGTGGTACTTCAGTGC-GTTGGTATTTGGCTTTGTTgtaaaggcaggcaagaggtaacaagtcagctcttctacaagctcttctac Alignment from Pairagon CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCA-CGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcgagaagccttatcacttctctctcttctgcccccagTTCTCATGTTTCTCCTGGGCATCCTGGATTTCCTTTTTGTCAGCCACCACTTATCACAGGGTTGTGACTCGTGGTACTTCAGTGC-GTTGGTATTTGGCTTTGTTgtaaaggcaggcaagaggtaacaagtcagctcttctacaagctcttctac Alignment from Exonerate_protein2genome CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcgagaagccttatcacttctctctcttctgcccccagTTCTCATGTTTCTCCTGGGCATCCTGGATTTCCTTTTTGTCAGCCACCACTTATCACAGGGTTGTGACTCGTGGTACTTCAGTGCGTTGGTATTTGGCTTTGTTgtaaaggcaggcaagaggtaacaagtcagctcttctacaagctcttctac Alignment from Exonerate_coding2genome CTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcgagaagccttatcacttctctctcttctgcccccagttCTCATGTTTCTCCTGGGCATCCTGGATTTCCTTTTTGTCAGCCACCACTTATCACAGGGTTGTGACTCGTGGTACTTCAGTGCGTTGGTATTTGGCTTTGTTgtaaaggcaggcaagaggtaacaagtcagctcttctacaagctcttctac Alignment from GeneWise CTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaaacataaggtcgagaagccttatcacttctctctcttctgcccccagTTCTCATGTTTCTCCTGGGCATCCTGGATTTCCTTTTTGTCAGCCACCACTTATCACAGGGTTGTGACTCGTGGTACTTCAGTGCGTTGGTATTTGGCTTTGTTgtaaaggcaggcaagaggtaacaagtcagctcttctacaagctcttctac #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACC-ATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag tttgtacatcttccatccttacagttggcactttcaaaaatcatttctaggcTTTATCAAGGTGCTGCTATATATGGCCTTCATGACCCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCA-TAAGCCCATGTACCTGGCTATGaggtcagttaggcctcacatctgctattttatcaccttgatttttgtcttcc Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACC-ATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag tttgtacatcttccatccttacagttggcactttcaaaaatcatttctaggcTTTATCAAGGTGCTGCTATATATGGCCTTCATGACCCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCA-TAAGCCCATGTACCTGGCTATGaggtcagttaggcctcacatctgctattttatcaccttgatttttgtcttcc Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACC-ATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tttgtacatcttccatccttacagttggcactttcaaaaatcatttctagGCTTTATCAAGGTGCTGCTATATATGGCCTTCATGACCcATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATAAGCCC-ATGTACCTGGCTATGAGgtcagttaggcctcacatctgctattttatcaccttgatttttgtcttcc Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGA-CCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tttgtacatcttccatccttacagttggcactttcaaaaatcatttctagGCTTTATCAAGGTGCTGCTATATATGGCCTTCATGACCCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCA-TAAGCCCATGTACCTGGCTATGAGgtcagttaggcctcacatctgctattttatcaccttgatttttgtcttcc Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGA-CCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tttgtacatcttccatccttacagttggcactttcaaaaatcatttctagGCTTTATCAAGGTGCTGCTATATATGGCCTTCATGACCCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCA-TAAGCCCATGTACCTGGCTATGAGgtcagttaggcctcacatctgctattttatcaccttgatttttgtcttcc Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACC-ATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATT--AGGCCCATGTACCTGGCCATGAG tttgtacatcttccatccttacagttggcactttcaaaaatcatttctagGCTTTATCAAGGTGCTGCTATATATGGCCTTCATGACCCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATAAG---CCCATGTACCTGGCTATGAGgtcagttaggcctcacatctgctattttatcaccttgatttttgtcttcc Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACC-ATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATT--AGGCCCATGTACCTGGCCATGAG tttgtacatcttccatccttacagttggcactttcaaaaatcatttctagGCTTTATCAAGGTGCTGCTATATATGGCCTTCATGACCCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATAAG---CCCATGTACCTGGCTATGAGgtcagttaggcctcacatctgctattttatcaccttgatttttgtcttcc Alignment from GeneWise GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tttgtacatcttccatccttacagttggcactttcaaaaatcatttctagGCTTTATCAAGGTGCTGCTATATATGGCCTTCATGACCCATCATGATCAAGGTGCACACTTTTCCACTGTTTGCCATAAGCCCATGTACCTGGCTATGAGgtcagttaggcctcacatctgctattttatcaccttgatttttgtcttcc #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCA-CCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gccaggaaaataactcacttccaatttgccctccctttttttccatgaagctGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCCTGGATCTGTACCAAGTGCAGAGTCTGGTC-TGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACTGTTTggtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCA-CCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg gccaggaaaataactcacttccaatttgccctccctttttttccatgaagctGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCCTGGATCTGTACCAAGTGCAGAGTCTGGTCTGG-CCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACTGTTTggtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCCTGGATCTGTACCAAGTGCAGAGTCTGGTCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Spaln_nt2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACC-TGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCCTGGATCTGTACCAAGTGCAGAGTCTGGT-CTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Pairagon CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCA-CCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCCTGGATCTGTACCAAGTGCAGAGTCTGGT-CTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCCTGGATCTGTACCAAGTGCAGAGTCTGGTCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCCTGGATCTGTACCAAGTGCAGAGTCTGGTCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact Alignment from GeneWise CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG gccaggaaaataactcacttccaatttgccctccctttttttccatgaagCTGTCTCTCAGTATAGTGGAGCAGCAATGACTCCAGCTTCGAGCACAGGTCCCTCTGCCCCAGCACCCTGGATCTGTACCAAGTGCAGAGTCTGGTCTGGCCCTGATTCCCCTTTCCCCCCTCCCTGGATGGGGATGCCTCTACCTCCACTGTTTGgtactctacctgtcactcaactctcagatgtacaattctaaatggtaact #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTT-GCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg tacaattctaaatggtaactgggcctcacctgtgtctctactcctcaaagcaTTCCCCCCAATGCCAGTACCACCTGCTGGATTTCGCCGGTCTAACACCAGAGGAGTTCTGTGCTCTAGAAGGTC-TGAGCGGCAAGACCTGGAGGCTTGCTTGCAGAGTTTGTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAATCAACCAATACCTCACTGTGTTGGCCTCTTTGgggtgagtatgcattcagctgaacaatatattttagtcttttttctttcgga Alignment from CESAR ccTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTT-GCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg tacaattctaaatggtaactgggcctcacctgtgtctctactcctcaaagcaTTCCCCCCAATGCCAGTACCACCTGCTGGATTTCGCCGGTCTAACACCAGAGGAGTTCTGTGCTCTAGAAGGT-CTGAGCGGCAAGACCTGGAGGCTTGCTTGCAGAGTTTGTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAATCAACCAATACCTCACTGTGTTGGCCTCTTTGgggtgagtatgcattcagctgaacaatatattttagtcttttttctttcgga Alignment from Spaln_aa2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tacaattctaaatggtaactgggcctcacctgtgtctctactcctcaaagCATTCCCCCCAATGCCAGTACCACCTGCTGGATTTCGCCGGTCTAACACCAGAGGAGTTCTGTGCTCTAGAAGGTCTGAGCGGCAAGACCTGGAGGCTTGCTTGCAGAGTTTGTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAATCAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcattcagctgaacaatatattttagtcttttttctttcgga Alignment from Spaln_nt2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTT-GCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tacaattctaaatggtaactgggcctcacctgtgtctctactcctcaaagCATTCCCCCCAATGCCAGTACCACCTGCTGGATTTCGCCGGTCTAACACCAGAGGAGTTCTGTGCTCTAGAAGGTC-TGAGCGGCAAGACCTGGAGGCTTGCTTGCAGAGTTTGTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAATCAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcattcagctgaacaatatattttagtcttttttctttcgga Alignment from Pairagon CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTT-GCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tacaattctaaatggtaactgggcctcacctgtgtctctactcctcaaagCATTCCCCCCAATGCCAGTACCACCTGCTGGATTTCGCCGGTCTAACACCAGAGGAGTTCTGTGCTCTAGAAGGTC-TGAGCGGCAAGACCTGGAGGCTTGCTTGCAGAGTTTGTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAATCAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcattcagctgaacaatatattttagtcttttttctttcgga Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tacaattctaaatggtaactgggcctcacctgtgtctctactcctcaaagCATTCCCCCCAATGCCAGTACCACCTGCTGGATTTCGCCGGTCTAACACCAGAGGAGTTCTGTGCTCTAGAAGGTCTGAGCGGCAAGACCTGGAGGCTTGCTTGCAGAGTTTGTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAATCAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcattcagctgaacaatatattttagtcttttttctttcgga Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tacaattctaaatggtaactgggcctcacctgtgtctctactcctcaaagCATTCCCCCCAATGCCAGTACCACCTGCTGGATTTCGCCGGTCTAACACCAGAGGAGTTCTGTGCTCTAGAAGGTCTGAGCGGCAAGACCTGGAGGCTTGCTTGCAGAGTTTGTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAATCAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcattcagctgaacaatatattttagtcttttttctttcgga Alignment from GeneWise CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG tacaattctaaatggtaactgggcctcacctgtgtctctactcctcaaagCATTCCCCCCAATGCCAGTACCACCTGCTGGATTTCGCCGGTCTAACACCAGAGGAGTTCTGTGCTCTAGAAGGTCTGAGCGGCAAGACCTGGAGGCTTGCTTGCAGAGTTTGTGCAACATACACACACTACTGGATGCTGCAATGCTTCAAATCAACCAATACCTCACTGTGTTGGCCTCTTTGGGgtgagtatgcattcagctgaacaatatattttagtcttttttctttcgga #### Taf5_ID10097_5 --> 1 - 0 Original Alignment aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGG-CCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagaAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTTGGGCCCAGACTGTTTACCTTCAATTTGTTATTACACCT-TGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from CESAR aATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGG-CCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagaAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTTGGGCCCAGACTGTTTACCTTCAATTTGTTATTACACCTTGT-TAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Spaln_aa2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCA-GACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTTGGGCCCaGACTGTTTACCTTCAATTTGTTATTACACCTTGTTAAT-GCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Spaln_nt2Genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGC-CAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTTGGGCCCAGACTGTTTACCTTCAATTTGTTATTACACCTT-GTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Pairagon AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGG-CCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTTGGGCCCAGACTGTTTACCTTCAATTTGTTATTACACCTT-GTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Exonerate_protein2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTTGGGCCCAGACTGTTTACCTTCAATTTGTTATTACACCTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from Exonerate_coding2genome AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTTGGGCCCAGACTGTTTACCTTCAATTTGTTATTACACCTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca Alignment from GeneWise AATTCCTCTTCCTGAGTTAAAAGATTCAGACAAACTGGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTCGGGCCAGACTGTTTACCCTCCATTTGTTTCTATACATTCCTTAATGCTTACCAG acacgtgatttggctcaacaagctgtttcttctctttctgttcactgaagAAGTCCTCTCCCAGAACTAAAGGATTCTGACAAATTAGACAAAATAATGAATATGAAAGAAACTACCAAACGAGTGCGCCTTGGGCCCAGACTGTTTACCTTCAATTTGTTATTACACCTTGTTAATGCTTACCAGgtgagtaaaaaaatagatactgctatgtcacacagatagccacagttgca #### Taf5_ID10102_10 --> 0 - 1 Original Alignment GGACCAATTCATTCCTTGACATTTTCT-CCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg atccgcataccaatacactacaaatcatcaaccaagcccctgtgttgcagGGCCCAATTCATTCTTTGACATTTTCTCCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATG-CAGAGTACTTCTTTGGGATATTGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAggtaaacccagcagtgaccccgtaacagggcctactatgtgctatgtcccc Alignment from CESAR GGACCAATTCATTCCTTGACATTTTCTCCC-AATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAg atccgcataccaatacactacaaatcatcaaccaagcccctgtgttgcagGGCCCAATTCATTCTTTGACATTTTCTCCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGAT-GCAGAGTACTTCTTTGGGATATTGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAggtaaacccagcagtgaccccgtaacagggcctaccacgtcccacgtctct Alignment from Spaln_aa2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcataccaatacactacaaatcatcaaccaagcccctgtgttgcagGGCCCAATTCATTCTTTGACATTTTCTCCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGCAGAGTACTTCTTTGGGATATTGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtaaacccagcagtgaccccgtaacagggcctactatgtgctatgtcccc Alignment from Spaln_nt2Genome GGACCAATTCATTCCTTGACATTTTCTCCCA-ATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcataccaatacactacaaatcatcaaccaagcccctgtgttgcagGGCCCAATTCATTCTTTGACATTTTCTCCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGAT-GCAGAGTACTTCTTTGGGATATTGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtaaacccagcagtgaccccgtaacagggcctactatgtgctatgtcccc Alignment from Pairagon GGACCAATTCATTCCTTGACATTTTCT-CCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGGT------------------------------------------------ atccgcataccaatacactacaaatcatcaaccaagcccctgtgttgcagGGCCCAATTCATTCTTTGACATTTTCTCCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGAT-GCAGAGTACTTCTTTGGGATATTGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGGTAAACCCAGCAGTGACCCCGTAACAGGGCCTACTATGTGCTATGTCCCC Alignment from Exonerate_protein2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcataccaatacactacaaatcatcaaccaagcccctgtgttgcagGGCCCAATTCATTCTTTGACATTTTCTCCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGCAGAGTACTTCTTTGGGATATTGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtaaacccagcagtgaccccgtaacagggcctactatgtgctatgtcccc Alignment from Exonerate_coding2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcataccaatacactacaaatcatcaaccaagcccctgtgttgcagGGCCCAATTCATTCTTTGACATTTTCTCCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGCAGAGTACTTCTTTGGGATATTGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtaaacccagcagtgaccccgtaacagggcctactatgtgctatgtcccc Alignment from GeneWise GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG atccgcataccaatacactacaaatcatcaaccaagcccctgtgttgcagGGCCCAATTCATTCTTTGACATTTTCTCCCCAATGGGAGGTTCCTAGCTACAGGAGCAACAGATGCAGAGTACTTCTTTGGGATATTGGACATGGCCTAATGGTTGGAGAATTAAAAGGCCACACAGATACAGTGTGTTCACTTAGATTTAGTAGAGATGGTGGAATTTTGGCGTCAGgtaaacccagcagtgaccccgtaacagggcctactatgtgctatgtcccc #### Tbc1d10c_ID399_5 --> 1 - 0 Original Alignment gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAG-CAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagaCAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAACCTTCACCACCCGGAACCAAGGATATTGTCACTGTCAAGCACAGGGAC-TGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from CESAR gCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAG-CAGGGATAC------TGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagaCAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAACCTTCACCACCCGGAACCAAGGATATTGTCACTGTCAAGCACAGGGA-CTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Spaln_aa2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGA------TACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAACCTTCACCACCCGGAACCAAGGATATTGTCACTGTCAAGCACAGGGACTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Spaln_nt2Genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGC-AGGGATA------CTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAACCTTCACCACCCGGAACCAAGGATATTGTCACTGTCAAGCACAGGGA-CTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Pairagon GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTA----------CACCCTGTACCGGCCAGAGCAGGGAT------ACTGCCAGGCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAACCTTCACCACCCGGAAC---------CAAGGATATTGTCACTGTCAAGCACAGGGA-CTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Exonerate_protein2genome GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAG-CAGGGATACTGCCAGGCTCAG-----GGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAACCTTCACCACCCGGAACCAAGGATATTGTCACTGTCAAGCACAGGGACTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GCAGCAGGGGCTGCTGCAGGTTCTCAAGGCCTACACCCTGTACCGGCCAGAGCAGGGATACTGCCAG------GCTCAGGGACCTGTAGCTGCTGTGCTGCTCATGCATCTACCCCCAGAG ttccaagggcctttatagactgtgcaatcacttcttttctgccctgccagACAGCAAGGGTTTCTGCAGGTTATGAAAGCCTATAACCTTCACCACCCGGAACCAAGGATATTGTCACTGTCAAGCACAGGGACTGTAGCTGCAGTTCTTCTCATGCATCTTCCTCCAGAGgtaacatccatttccctagatagaaacagtaatgtatatttactatgatg #### Tbc1d10c_ID400_4 --> 0 - 2 Original Alignment CTACCAG GAGCTGGCAGCA-GCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg ATATCAGgtatgaaggccaggaatgcccatgaatgcaatgtcattcccagGAGCTGGCATCACGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCA-AGACTTACACCAACAATTTCCTTTGCATGAGATCCTTGTCCTACCTCAGGGACATgggtaagggttgaggaaatagggccatttgtccacagggagaggagggggat Alignment from CESAR CTACCAG GAGCTGGCAGCA-GCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACgg ATATCAGgtaagaaggccaggaatgcccatgaatgcaatgtcattcccagGAGCTGGCATCACGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCA-AGACTTACACCAACAATTTCCTTTGCATGAGATCCTTGTCCTACCTCAGGGACATgggtaagggttgaggaaatagggccatttgtccacagggagaggagggggat Alignment from Spaln_aa2Genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatgaaggccaggaatgcccatgaatgcaatgtcattcccagGAGCTGGCATCACGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAAGACTTACACCAACAATTTCCTTTGCATGAGATCCTTGTCCTACCTCAGGGACATGGgtaagggttgaggaaatagggccatttgtccacagggagaggagggggat Alignment from Spaln_nt2Genome CTACCAG GAGCTGGCAGCA-GCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatgaaggccaggaatgcccatgaatgcaatgtcattcccagGAGCTGGCATCACGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCA-AGACTTACACCAACAATTTCCTTTGCATGAGATCCTTGTCCTACCTCAGGGACATGGgtaagggttgaggaaatagggccatttgtccacagggagaggagggggat Alignment from Pairagon CTACCAG GAGCTGGCAGCA-GCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatgaaggccaggaatgcccatgaatgcaatgtcattcccagGAGCTGGCATCACGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCA-AGACTTACACCAACAATTTCCTTTGCATGAGATCCTTGTCCTACCTCAGGGACATGGgtaagggttgaggaaatagggccatttgtccacagggagaggagggggat Alignment from Exonerate_protein2genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatgaaggccaggaatgcccatgaatgcaatgtcattcccagGAGCTGGCATCACGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAAGACTTACACCAACAATTTCCTTTGCATGAGATCCTTGTCCTACCTCAGGGACATGGgtaagggttgaggaaatagggccatttgtccacagggagaggagggggat Alignment from Exonerate_coding2genome CTACCAG GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG ATATCAGgtatgaaggccaggaatgcccatgaatgcaatgtcattcccagGAGCTGGCATCACGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAAGACTTACACCAACAATTTCCTTTGCATGAGATCCTTGTCCTACCTCAGGGACATGGgtaagggttgaggaaatagggccatttgtccacagggagaggagggggat Alignment from GeneWise TACCAGGAGCTGGCAGCA---------------------------------------------GCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG TATCAGGT-ATGAAGGCCAGGAATGCCCATGAATGCAATGTCATTCCCAGGAGCTGGCATCACGCACCCGGAGACCCCCAGTGGATGGAAGCCACCGGCAA-GACTTACACCAACAATTTCCTTTGCATGAGATCCTTGTCCTACCTCAGGGACATGGgtaagggttgaggaaatagggccatttgtccacagggagaggagggggat #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATG-GGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg tagaatgacatatgtctacaatgctgttccaatgcctctgcccctctcagaaCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGCGGCCAAGAGATTGGAGTTGCAGCTGTAGTAC-GGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGGCTTTTAGCATTCTTACATGCTTTGCGGTTGCATtggtaagtgttaccaacatgacaggatgagacagagaccacaggttgatttg Alignment from CESAR agCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATG-GGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg tagaatgacatatgtctacaatgctgttccaatgcctctgcccctctcagaaCTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGCGGCCAAGAGATTGGAGTTGCAGCTGTAGTA-CGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGGCTTTTAGCATTCTTACATGCTTTGCGGTTGCATtggtaagtgttaccaacatgacaggatgagacagagaccacaggttgatttg Alignment from Spaln_aa2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacatatgtctacaatgctgttccaatgcctctgcccctctcagAACTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGCGGCCAAGAGATTGGAGTTGCAGCTGTAGTACGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGGCTTTTAGCATTCTTACATGCTTTGCGGTTGCATTGgtaagtgttaccaacatgacaggatgagacagagaccacaggttgatttg Alignment from Spaln_nt2Genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATG-GGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacatatgtctacaatgctgttccaatgcctctgcccctctcagAACTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGCGGCCAAGAGATTGGAGTTGCAGCTGTAGTAC-GGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGGCTTTTAGCATTCTTACATGCTTTGCGGTTGCATTGgtaagtgttaccaacatgacaggatgagacagagaccacaggttgatttg Alignment from Pairagon AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATG-GGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacatatgtctacaatgctgttccaatgcctctgcccctctcagAACTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGCGGCCAAGAGATTGGAGTTGCAGCTGTAGTAC-GGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGGCTTTTAGCATTCTTACATGCTTTGCGGTTGCATTGgtaagtgttaccaacatgacaggatgagacagagaccacaggttgatttg Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG tagaatgacatatgtctacaatgctgttccaatgcctctgcccctctcagAACTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGCGGCCAAGAGATTGGAGTTGCAGCTGTAGTACGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGGCTTTTAGCATTCTTACATGCTTTGCGGTTGCATTGgtaagtgttaccaacatgacaggatgagacagagaccacaggttgatttg Alignment from Exonerate_coding2genome tagaatgacatatgtctacaatgctgttccaatgcctctgcccctctcagaactgtcagaggtcctttgggcaatggtgatgcacataggccttggcatgcggccaagagattggagttgcagctgtagtacggtccctgtgtttgctgcctttgctgtattaagtgtcgcaattctgttggtaatggaggggcttttagcattcttacatgctttgcggttgcattggtaagtgttaccaacatgacaggatgagacagagaccacaggttgatttg Alignment from GeneWise AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTGG tagaatgacatatgtctacaatgctgttccaatgcctctgcccctctcagAACTGTCAGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTTGGCATGCGGCCAAGAGATTGGAGTTGCAGCTGTAGTACGGTCCCTGTGTTTGCTGCCTTTGCTGTATTAAGTGTCGCAATTCTGTTGGTAATGGAGGGGCTTTTAGCATTCTTACATGCTTTGCGGTTGCATTGGtaagtgttaccaacatgacaggatgagacagagaccacaggttgatttg #### Tcirg1_ID170_17 --> 0 - 1 Original Alignment TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGC-CTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc tggtgggcagatgttcaacttgtgagcttcttggttcctacttcttctagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTTTGCCCTTGGTTGCATTTCAAACACAGCATCCT-CCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCAcgtacgtaacataaatagggtaacaacataacaatctccagttgataacag Alignment from CESAR TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGC-CTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCc tggtgggcagatgttcaacttgtgagcttcttggttcctacttcttctagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTTTGCCCTTGGTTGCATTTCAAACACAGCATCC-TCCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCAcgtacgtaacataaatagggtaacaacataacaatctccagttgataacag Alignment from Spaln_aa2Genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtgggcagatgttcaacttgtgagcttcttggttcctacttcttctagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTTTGCCCTTGGTTGCATTTCAAACACAGCATCCTCCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtacgtaacataaatagggtaacaacataacaatctccagttgataacag Alignment from Spaln_nt2Genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCC-TGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtgggcagatgttcaacttgtgagcttcttggttcctacttcttctagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTTTGCCCTTGGTTGCATTTCAAACACAGCATCCT-CCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtacgtaacataaatagggtaacaacataacaatctccagttgataacag Alignment from Pairagon TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTG-CCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtgggcagatgttcaacttgtgagcttcttggttcctacttcttctagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTTTGCCCTTGGTTGCATTTCAAACACAGCATCCT-CCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtacgtaacataaatagggtaacaacataacaatctccagttgataacag Alignment from Exonerate_protein2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtgggcagatgttcaacttgtgagcttcttggttcctacttcttctagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTTTGCCCTTGGTTGCATTTCAAACACAGCATCCTCCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtacgtaacataaatagggtaacaacataacaatctccagttgataacag Alignment from Exonerate_coding2genome tggtgggcagatgttcaacttgtgagcttcttggttcctacttcttctagtttgtcccctctgagatcttcatgcaccgagcaatccacatcattgagttttgcccttggttgcatttcaaacacagcatcctcctgcgtctttgggccttgagcctggcccatgcacgtacgtaacataaatagggtaacaacataacaatctccagttgataacag Alignment from GeneWise TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCC tggtgggcagatgttcaacttgtgagcttcttggttcctacttcttctagTTTGTCCCCTCTGAGATCTTCATGCACCGAGCAATCCACATCATTGAGTTTTGCCCTTGGTTGCATTTCAAACACAGCATCCTCCTGCGTCTTTGGGCCTTGAGCCTGGCCCATGCACgtacgtaacataaatagggtaacaacataacaatctccagttgataacag #### Tcirg1_ID171_16 --> 0 - 0 Original Alignment GGCCAGCAG GATGAGGACACG-GACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG GGCCAACAAgtagccacatagtgttgaggatggtttttattctatttcagGATGAGGACACACGAGAAACTACTCTCTTCCCCAGATGCAACAACAT-GGAGAATAGCTGGACCCCTGATAAGGAAGTAGCCGGAAGTCCTGGGGAAGAGGAGACTGATgtgagcgaccaaggatgcaaagactcacctgccagtgagattagttgctg Alignment from CESAR GGCCAGCAG GATGAGGACACG-GACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG GGCCAACAAgttgagacatagtgttgaggatggtttttattctatttcagGATGAGGACACACGAGAAACTACTCTCTTCCCCAGATGCAACAA-CATGGAGAATAGCTGGACCCCTGATAAGGAAGTAGCCGGAAGTCCTGGGGAAGAGGAGACTGATgtgagcgaccaaggatgcaaagactcacctgccagtgagattagttgctg Alignment from Spaln_aa2Genome GGCCAGCAG GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG GGCCAACAAgtagccacatagtgttgaggatggtttttattctatttcagGATGAGGACACACGAGAAACTACTCTCTTCCCCAGATGCAACAACATGGAGAATAGCTGGACCCCTGATAAGGAAGTAGCCGGAAGTCCTGGGGAAGAGGAGACTGATgtgagcgaccaaggatgcaaagactcacctgccagtgagattagttgctg Alignment from Spaln_nt2Genome GGCCAGCAG GATGAGGACACG-GACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG GGCCAACAAgtagccacatagtgttgaggatggtttttattctatttcagGATGAGGACACACGAGAAACTACTCTCTTCCCCAGATGCA-ACAACATGGAGAATAGCTGGACCCCTGATAAGGAAGTAGCCGGAAGTCCTGGGGAAGAGGAGACTGATgtgagcgaccaaggatgcaaagactcacctgccagtgagattagttgctg Alignment from Pairagon GGCCAG-----------------------------------------CAGGATGAGGACACG-GACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG GGCCAACAAGTAGCCACATAGTGTTGAGGATGGTTTTTATTCTATTTCAGGATGAGGACACACGAGAAACTACTCTCTTCCCCAGATGCA-ACAACATGGAGAATAGCTGGACCCCTGATAAGGAAGTAGCCGGAAGTCCTGGGGAAGAGGAGACTGATgtgagcgaccaaggatgcaaagactcacctgccagtgagattagttgctg Alignment from Exonerate_protein2genome GGCCAGCAG GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG GGCCAACAAgtagccacatagtgttgaggatggtttttattctatttcagGATGAGGACACACGAGAAACTACTCTCTTCCCCAGATGCAACAACATGGAGAATAGCTGGACCCCTGATAAGGAAGTAGCCGGAAGTCCTGGGGAAGAGGAGACTGATgtgagcgaccaaggatgcaaagactcacctgccagtgagattagttgctg Alignment from Exonerate_coding2genome ggccaacaagtagccacatagtgttgaggatggtttttattctatttcaggatgaggacacacgagaaactactctcttccccagatgcaacaacatggagaatagctggacccctgataaggaagtagccggaagtcctggggaagaggagactgatgtgagcgaccaaggatgcaaagactcacctgccagtgagattagttgctg Alignment from GeneWise GGCCAGCAG GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG GGCCAACAAgtagccacatagtgttgaggatggtttttattctatttcagGATGAGGACACACGAGAAACTACTCTCTTCCCCAGATGCAACAACATGGAGAATAGCTGGACCCCTGATAAGGAAGTAGCCGGAAGTCCTGGGGAAGAGGAGACTGATgtgagcgaccaaggatgcaaagactcacctgccagtgagattagttgctg #### Tcirg1_ID173_14 --> 1 - 0 Original Alignment gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCAC-TTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgattagaatacgcttcatctccatgcccccaggCACTTCGGTGAGGCCCACAGGCTGCTACTT------GTGTCAGAGCTTATTTTCCTCCTGGGCCTC------TATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCTGCAACTAGTTCTGCCTCAGCCCCC------ATTATTCACCTTCATCAAT---TCCCTCTTCTCCCAGA-CCCA---AATCATCTGCTGTTCCATGGGCAGgtaccaagtgggtgacaggtgattttaatgtcatatagcataatccgacc Alignment from CESAR gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCAC-TTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgattagaatacgcttcatctccatgcccccaggCACTTCGGTGAGGCCCACAGGCTGCTACTT------GTGTCAGAGCTTATTTTCCTCCTGGGCCTC------TATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCTGCAACTAGTTCTGCCTCAGCCCCC------ATTATTCACCTTCATCAAT---TCCCTCTTCTCCC-AGACCCA---AATCATCTGCTGTTCCATGGGCAGgtaccaagtgggtgacaggtgattttaatgtcatatagcataatccgacc Alignment from Spaln_aa2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgattagaatacgcttcatctccatgcccccagGCACTTCGGTGAGGCCCACAGGCTGCTACTTGTGTCA------GAGCTTATTTTCCTCCTGGGCCTCTATCTGGTG------CTCCTAATTCTCTATAAATGGGTAAACATCTCTGCAACTAGTTCTGCCTCAGCCCCCATTATTCACCTTCAT---------CAATTCCCTCTTCTCCCAGACCCA---AATCATCTGCTGTTCCATGGGCAGgtaccaagtgggtgacaggtgattttaatgtcatatagcataatccgacc Alignment from Spaln_nt2Genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgattagaatacgcttcatctccatgcccccagGCACTTCGGTGAGGCCCACAGGCTGCTACTTG------TGTCAGAGCTTATTTTCCTCCTGGGCCT------CTATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCTGCAACTAGTTCTGCCTCAGCCCCCATTATTCAC-----CTTCATCAAT---TCCCTCTTCTCCCAGA--CCCA--AATCATCTGCTGTTCCATGGGCAGgtaccaagtgggtgacaggtgattttaatgtcatatagcataatccgacc Alignment from Pairagon GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgattagaatacgcttcatctccatgcccccagGCACTTCGGTGAGGCCCACAGGCTGCTACTTG------TGTCAGAGCTTATTTTCCTCCTGGGCCT------CTATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCTGCAACTAGTTCTGCCTCAGCCCCCATTATTCAC-----CTTCATCAAT---TCCCTCTTCTCCCAGA----CCCAAATCATCTGCTGTTCCATGGGCAGgtaccaagtgggtgacaggtgattttaatgtcatatagcataatccgacc Alignment from Exonerate_protein2genome GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgattagaatacgcttcatctccatgcccccagGCACTTCGGTGAGGCCCACAGGCTGCTACTT------GTGTCAGAGCTTATTTTCCTCCTGGGCCTC------TATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCTGCAACTAGTTCTGCCTCAGCCCCCATTATTCACCTTCAT---------CAATTCCCTCTTCTCCCAGACCCA---AATCATCTGCTGTTCCATGGGCAGgtaccaagtgggtgacaggtgattttaatgtcatatagcataatccgacc Alignment from Exonerate_coding2genome tgagtcttgcctcatcctgattagaatacgcttcatctccatgcccccaggcacttcggtgaggcccacaggctgctacttgtgtcagagcttattttcctcctgggcctctatctggtgctcctaattctctataaatgggtaaacatctctgcaactagttctgcctcagcccccattattcaccttcatcaattccctcttctcccagacccaaatcatctgctgttccatgggcaggtaccaagtgggtgacaggtgattttaatgtcatatagcataatccgacc Alignment from GeneWise GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG tgagtcttgcctcatcctgattagaatacgcttcatctccatgcccccagGCACTTCGGTGAGGCCCACAGGCTGCTACTT------GTGTCAGAGCTTATTTTCCTCCTGGGCCTC------TATCTGGTGCTCCTAATTCTCTATAAATGGGTAAACATCTCTGCAACTAGTTCTGCCTCAGCCCCCATTATTCACCTTCAT---------CAATTCCCTCTTCTCCCAGACCCA---AATCATCTGCTGTTCCATGGGCAGgtaccaagtgggtgacaggtgattttaatgtcatatagcataatccgacc #### Tcirg1_ID175_12 --> 1 - 0 Original Alignment tGACGAGTATCTGTCCCAGCACTCCATG-CTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG gagcacttctggctcaaaatattggttatttccttctttgtttttaacagtGAGGAATATTTATCTTGGCATTCCATGCTTCACCTTGAACCCCAACATAACTGGAGTCTTTCTTG-CCCATACCCATTTGGCATTGAGCCTgtaagggcctctgagcataggatagatagatacatgaagaaggtagtcta Alignment from CESAR tGACGAGTATCTGTCCCAGCACTCCATGCTC-ACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG gagcacttctggctcaaaatattggttatttccttctttgtttttaacagtGAGGAATATTTATCTTGGCATTCCATGCTTCACCTTGAACCCCAACATAACTGGAGTCTTTCTT-GCCCATACCCATTTGGCATTGAGCCTgtaagggcctctgagcataggatagatagatacatgaagaaggtagtcta Alignment from Spaln_aa2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTC-ACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG gagcacttctggctcaaaatattggttatttccttctttgtttttaacagTGAGGAATATTTATCTTGGCATTCCATGCTTcACCTTGAACCCCAACATAACTGGAGTCTTTCTTGC-CCATACCCATTTGGCATTGAGCCTgtaagggcctctgagcataggatagatagatacatgaagaaggtagtcta Alignment from Spaln_nt2Genome TGACGAGTATCTGTCCCAGCACTCCATGCT-CACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG gagcacttctggctcaaaatattggttatttccttctttgtttttaacagTGAGGAATATTTATCTTGGCATTCCATGCTTCACCTTGAACCCCAACATAACTGGAGTCTTTCTT-GCCCATACCCATTTGGCATTGAGCCTgtaagggcctctgagcataggatagatagatacatgaagaaggtagtcta Alignment from Pairagon ------------------------------------------------AGTGACGAGTATCTGTCCCAGCACTCCATGC-TCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG GAGCACTTCTGGCTCAAAATATTGGTTATTTCCTTCTTTGTTTTTAACAGTGAGGAATATTTATCTTGGCATTCCATGCTTCACCTTGAACCCCAACATAACTGGAGTCTTTCTT-GCCCATACCCATTTGGCATTGAGCCTgtaagggcctctgagcataggatagatagatacatgaagaaggtagtcta Alignment from Exonerate_protein2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG gagcacttctggctcaaaatattggttatttccttctttgtttttaacagTGAGGAATATTTATCTTGGCATTCCATGCTTCACCTTGAACCCCAACATAACTGGAGTCTTTCTTGCCCATACCCATTTGGCATTGAGCCTgtaagggcctctgagcataggatagatagatacatgaagaaggtagtcta Alignment from Exonerate_coding2genome gagcacttctggctcaaaatattggttatttccttctttgtttttaacagtgaggaatatttatcttggcattccatgcttcaccttgaaccccaacataactggagtctttcttgcccatacccatttggcattgagcctgtaagggcctctgagcataggatagatagatacatgaagaaggtagtcta Alignment from GeneWise ------------------------------------------------AGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG GAGCACTTCTGGCTCAAAATATTGGTTATTTCCTTCTTTGTTTTTAACAGTGAGGAATATTTATCTTGGCATTCCATGCTTCACCTTGAACCCCAACATAACTGGAGTCTTTCTTGCCCATACCCATTTGGCATTGAGCCTgtaagggcctctgagcataggatagatagatacatgaagaaggtagtcta #### Tcirg1_ID176_11 --> 0 - 2 Original Alignment ATCTGGCAGACCTTCTTTGGGGGT-CGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag cgcagctgaagaacagggaacctttttctttccctgttactctctcctagATCTGGCAGACATTCTTTGGAGGTCCAATACCTACTTCTCCTAACAGGTCTGT-CTCTGTCTATACTGGCTTTATTTCTACTACTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAATCAATCGGGCTGGctgtgagtctatgtggagcacttctggctcaaaatattggttaaacatcgtg Alignment from CESAR ATCTGGCAGACCTTCTTTGGGGGT-CGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAAT---GAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGag cgcagctgaagaacagggaacctttttctttccctgttactctctcctagATCTGGCAGACATTCTTTGGAGGTCCAATACCTACTTCTCCTAACAGGTCTG-TCTCTGTCTATACTGGCTTTATTTCTACTACTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAATCAATCGGGCTGGctgtgagtctatgtggagcacttctggctcaaaatattggttatttccttct Alignment from Spaln_aa2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTAC---AATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cgcagctgaagaacagggaacctttttctttccctgttactctctcctagATCTGGCAGACATTCTTTGGAGGTCCAATACCTACTTCTCCTAACAGGTCTGTCTCTGTCTATACTGGCTTTATTTCTACTACTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAATCAATCGGGCTGGCTgtgagtctatgtggagcacttctggctcaaaatattggttaaacatcgtg Alignment from Spaln_nt2Genome ATCTGGCAGACCTTCTTTGGGGGTCGA-TACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT--CTACAA-TGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cgcagctgaagaacagggaacctttttctttccctgttactctctcctagATCTGGCAGACATTCTTTGGAGGTCCAATACCTACTTCTCCTAACAGGTCTG-TCTCTGTCTATACTGGCTTTATTTCTACTACTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAATCAATCGGGCTGGCTgtgagtctatgtggagcacttctggctcaaaatattggttaaacatcgtg Alignment from Pairagon ATCTGGCAGACCTTCTTTGGGGGT-CGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCAT-----------------------------CTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG---------------------------------------------------- cgcagctgaagaacagggaacctttttctttccctgttactctctcctagATCTGGCAGACATTCTTTGGAGGTCCAATACCTACTTCTCCTAACAGGTCTG-TCTCTGTCTATACTGGCTTTATTTCTACTACTGAATGTTATAGTCAGGCAGCT--------------------------ACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAATCAATCGGGCTGGCTGTGAGTCTATGTGGAGCACTTCTGGCTCAAAATATTGGTTAAACATCGTG Alignment from Exonerate_protein2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATC---TACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cgcagctgaagaacagggaacctttttctttccctgttactctctcctagATCTGGCAGACATTCTTTGGAGGTCCAATACCTACTTCTCCTAACAGGTCTGTCTCTGTCTATACTGGCTTTATTTCTACTACTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAATCAATCGGGCTGGCTgtgagtctatgtggagcacttctggctcaaaatattggttaaacatcgtg Alignment from Exonerate_coding2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATC---TACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG cgcagctgaagaacagggaacctttttctttccctgttactctctcctagATCTGGCAGACATTCTTTGGAGGTCCAATACCTACTTCTCCTAACAGGTCTGTCTCTGTCTATACTGGCTTTATTTCTACTACTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAATCAATCGGGCTGGctgtgagtctatgtggagcacttctggctcaaaatattggttaaacatcgtg Alignment from GeneWise ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATC---TACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG cgcagctgaagaacagggaacctttttctttccctgttactctctcctagATCTGGCAGACATTCTTTGGAGGTCCAATACCTACTTCTCCTAACAGGTCTGTCTCTGTCTATACTGGCTTTATTTCTACTACTGAATGTTATAGTCAGGCAGCTACTATCTTTCCATCTGGTTGGAGTGTGGCAGCTATGGCCAATCAATCGGGCTGGCTgtgagtctatgtggagcacttctggctcaaaatattggttaaacatcgtg #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTG-CTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagcTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAA-TTTTCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacattcactcagctctatgttgtagGGTGAACC Alignment from CESAR tTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTG-CTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagcTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCCTGTGGAGAGCATGCCGTGGCTTTCTTATTG-CAATTTTCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacatgctcatggtgctttccactagGGTGAACC Alignment from Spaln_aa2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAATTTTCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacattcactcagctctatgttgtagGGTGAACC Alignment from Spaln_nt2Genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTG-CTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCCTGTGGAGAGCATGCCGTGGCTTTCTTATTG-CAATTTTCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacattcactcagctctatgttgtagGGTGAACC Alignment from Pairagon TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTG-CTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGAC------------------------------------------GGGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCCTGTGGAGAGCATGCCGTGGCTTTCTTATTG-CAATTTTCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAGTACTCTTAGTGGCAGGACATTCACTCAGCTCTATGTTGTAGGGTGAACC Alignment from Exonerate_protein2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAATTTTCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacattcactcagctctatgttgtagGGTGAACC Alignment from Exonerate_coding2genome TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAATTTTCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacattcactcagctctatgttgtagGGTGAACC Alignment from GeneWise TTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCC aaggagggggagtggagagaagtctacaaacccaccttcctttttttcagCTTTGTGGCAGGTGCAGTGGAACCCTACAAGGCTACAGCCTTGGAGCGTCTGCCTGTGGAGAGCATGCCGTGGCTTTCTTATTGCAATTTTCGTGAGACTGAAGGGCAGTTGAAGGATCCAGTGGCAgtactcttagtggcaggacattcactcagctctatgttgtagGGTGAACC #### Tcirg1_ID183_4 --> 0 - 2 Original Alignment GTGGCAGCTGACCATACTGAAGGACCCTTC-TCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa cacagctacaacctcacagtgtatgtgctgatttttctcaccatctgcagGTGGCAGCTGACCATACAGAAGGTCCTCTCCTCAGAAACAACACCCCTTCTTCCAGGCACACGGG-TCCGCATTCTGACCTGAAAGTTaagtaaggtgaagcatccaagcttttttgtctcatcatattcacaccagaag Alignment from CESAR GTGGCAGCTGACCATACTGAAGGACCCTTC-TCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa cacagctacaacctcacagtgtatgtgctgatttttctcaccatctgcagGTGGCAGCTGACCATACAGAAGGTCCTCTCCTCAGAAACAACACCCCTTCTTCCAGGCACAC-GGGTCCGCATTCTGACCTGAAAGTTaagtaaggtgaagcatccaagcttttttgtctcatcatattcacaccagaag Alignment from Spaln_aa2Genome GTGGCAGCTGACCATACTGAAGGACCCTTC-TCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagctacaacctcacagtgtatgtgctgatttttctcaccatctgcagGTGGCAGCTGACCATACAGAAGGTCCTCTCcTCAGAAACAACACCCCTTCTTCCAGGCACACG-GGTCCGCATTCTGACCTGAAAGTTAAgtaaggtgaagcatccaagcttttttgtctcatcatattcacaccagaag Alignment from Spaln_nt2Genome GTGGCAGCTGACCATACTGAAGGACC-CTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagctacaacctcacagtgtatgtgctgatttttctcaccatctgcagGTGGCAGCTGACCATACAGAAGGTCCTCTCCTCAGAAACAACACCCCTTCTTCCAGGCACAC-GGGTCCGCATTCTGACCTGAAAGTTAAgtaaggtgaagcatccaagcttttttgtctcatcatattcacaccagaag Alignment from Pairagon GTGGCAGCTGACCATACTGAAGGACC-CTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagctacaacctcacagtgtatgtgctgatttttctcaccatctgcagGTGGCAGCTGACCATACAGAAGGTCCTCTCCTCAGAAACAACACCCCTTCTTCCAGGCACAC-GGGTCCGCATTCTGACCTGAAAGTTAAgtaaggtgaagcatccaagcttttttgtctcatcatattcacaccagaag Alignment from Exonerate_protein2genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagctacaacctcacagtgtatgtgctgatttttctcaccatctgcagGTGGCAGCTGACCATACAGAAGGTCCTCTCCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGTCCGCATTCTGACCTGAAAGTTAAgtaaggtgaagcatccaagcttttttgtctcatcatattcacaccagaag Alignment from Exonerate_coding2genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagctacaacctcacagtgtatgtgctgatttttctcaccatctgcagGTGGCAGCTGACCATACAGAAGGTCCTCTCCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGTCCGCATTCTGACCTGAAAGTTAAgtaaggtgaagcatccaagcttttttgtctcatcatattcacaccagaag Alignment from GeneWise GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA cacagctacaacctcacagtgtatgtgctgatttttctcaccatctgcagGTGGCAGCTGACCATACAGAAGGTCCTCTCCTCAGAAACAACACCCCTTCTTCCAGGCACACGGGTCCGCATTCTGACCTGAAAGTTAAgtaaggtgaagcatccaagcttttttgtctcatcatattcacaccagaag #### Tctn3_ID7992_9 --> 0 - 0 Original Alignment GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTC-CGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG tcaggtgcagataccctatttactaagggaaactactaatatctttaaagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCCGACAGACAAACTTGACAGTCAAGCCAGGGG-CTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtatgcctccatccttctgggatggaattgagcctaaacatcaaaattac Alignment from CESAR GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTC-CGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG tcaggtgcagataccctatttactaagggaaactactaatatctttaaagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCCGACAGACAAACTTGACAGTCAAGCCAGGG-GCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtatgcctccatccttctgggatggaattgagcctaaacatcaaaattac Alignment from Spaln_aa2Genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG tcaggtgcagataccctatttactaagggaaactactaatatctttaaagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCCGACAGACAAACTTGACAGTCAAGCCAGGGGCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtatgcctccatccttctgggatggaattgagcctaaacatcaaaattac Alignment from Spaln_nt2Genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCC-GACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG tcaggtgcagataccctatttactaagggaaactactaatatctttaaagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCCGACAGACAAACTTGACAGTCAAGCCAGGGG-CTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtatgcctccatccttctgggatggaattgagcctaaacatcaaaattac Alignment from Pairagon GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTC-CGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG tcaggtgcagataccctatttactaagggaaactactaatatctttaaagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCCGACAGACAAACTTGACAGTCAAGCCAGGGG-CTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtatgcctccatccttctgggatggaattgagcctaaacatcaaaattac Alignment from Exonerate_protein2genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG tcaggtgcagataccctatttactaagggaaactactaatatctttaaagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCCGACAGACAAACTTGACAGTCAAGCCAGGGGCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtatgcctccatccttctgggatggaattgagcctaaacatcaaaattac Alignment from Exonerate_coding2genome GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG tcaggtgcagataccctatttactaagggaaactactaatatctttaaagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCCGACAGACAAACTTGACAGTCAAGCCAGGGGCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtatgcctccatccttctgggatggaattgagcctaaacatcaaaattac Alignment from GeneWise GTCGTCTACGAGATAGAGACCAATGGGACCTTTGGGATCCAGAAAGTCTCTGTCAGCTTCCGACAGACCAACCTGACTGTCAAGCCAGGGGTCTCCTTACAGCAAGACTTCATCGTTCACTTCAGG tcaggtgcagataccctatttactaagggaaactactaatatctttaaagGTCGTCTATGAGATAGAGACCAATGGGACCTTTGGGATACAGAAAGTCTCTGTCAGCTTCCCGACAGACAAACTTGACAGTCAAGCCAGGGGCTCCTTACAGCAAGACTTCATTGTTCACTTCAGAgtatgcctccatccttctgggatggaattgagcctaaacatcaaaattac #### Tctn3_ID7995_6 --> 2 - 0 Original Alignment GTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCACA-ACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAggtaagttagttttctcttggggaatgtaggaTTTCTAGAGACTAAGAGCATGCACCTCTTCCCGTTTCCTAAAGGACCTATCTG-TAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from CESAR GTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCACA-ACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAggttgtgtagttttctcttggggaatgtaggaTTTCTAGAGACTAAGAGCATGCACCTCTTCCCGTTTCCTAAAGGACCTATCT-GTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Spaln_aa2Genome GTTCTCATCCTGTGTGTCTTACTACTTGGACTTCTCAACTCACAGACCAAG ctgagatctccttgacacacccttttcttgttttatccctcgtttttatag Alignment from Spaln_nt2Genome GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACA-ACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtaagttagttttctcttggggaatgtaggatttctag---------AGACTAAGAGCATGCACCTCTTCCCGTTTCCTAAAGGACCT-ATCTGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Pairagon GTGCCGAGAGCAACCCTGCAGGT-----------------------------TTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCAC--------------------------------------CTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGGTAAGTTAGTTTTCTCTTGGGGAATGTAGGATTTCTAGAGACTAAGAGCA--------------------------------------TGCACCTCTTCCCGTTTCCTAAAGGACCTATCTGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Exonerate_protein2genome GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGT--AGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtaagttagttttctcttggggaatgtaggATTTCTAGAGACTAAGAGCATGCACCTCTTCCCGTTTCCTAAAGGACCTA---TCTGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from Exonerate_coding2genome GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGT--AGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtaagttagttttctcttggggaatgtaggATTTCTAGAGACTAAGAGCATGCACCTCTTCCCGTTTCCTAAAGGACCTA---TCTGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac Alignment from GeneWise GTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG GTGCAGAGAGCAACCCAGCAGgtaagttagttttctcttggggaatgtagGATTTCTAGAGACTAAGAGCATGCACCTCTTCCCGTTTCCTAAAGGACCTATCTGTAGCTATAGCTCTGAGCCAGCTCTGGATGCAGTTTCGGACTACAACTTTAGAGTCTTGAGGgtccgtaatagccgggtttctgcagcttctgatttctaaatggtaggcac #### Tctn3_ID7996_5 --> 0 - 1 Original Alignment GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGG-TCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCA accatttaaaactattattttttcagtttcctttttaatctgttccacagGCCGGGGATCCCATCCTGACATACTACCCAAGCTGGCTCTGTGGTAAGCTTATTAAGACAACCCGCAGCTGTAGGAGCTA-CGGACTTTGTGCAGAGAGCAACCCAGCAggttggctctcatagcttcatgtgtctcaggaTTTCTAGAGACTAAGAGCA Alignment from CESAR GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGG-TCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAg gtTTCCTAGAGAGTAAAAGCA accatttaaaactattattttttcagtttcctttttaatctgttccacagGCCGGGGATCCCATCCTGACATACTACCCAAGCTGGCTCTGTGGTAAGCTTATTAAGACAACCCGCAGCTGTAGGAGCT-ACGGACTTTGTGCAGAGAGCAACCCAGCAggttgtgtagttttctcttggggaatgtaggaTTTCTAGAGACTAAGAGCA Alignment from Spaln_aa2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGG-TCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCA-----------------------------GGTTTCCTAGAGAGTAAAAGCA accatttaaaactattattttttcagtttcctttttaatctgttccacagGCCGGGGATCCCATCCTGACATACTACCCAAGCTGGcTCTGTGGTAAGCTTATTAAGACAACCCGCAGCTGTAGGAGCTAC-GGACTTTGTGCAGAGAGCAACCCAGCAGGTTGGCTCTCATAGCTTCATGTGTCTcaGGATTTCTAGAGACTAAGAGCA Alignment from Spaln_nt2Genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGG-TCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTG-----------------------------CAGGTTTCCTAGAGAGTAAAAGCA accatttaaaactattattttttcagtttcctttttaatctgttccacagGCCGGGGATCCCATCCTGACATACTACCCAAGCTGGCTCTGTGGTAAGCTTATTAAGACAACCCGCAGCTGTAGGAGCT-ACGGACTTTGTGCAGAGAGCAACCCAGCAGGTTGGCTCTCATAGCTTCATGTGTCTCAGGATTTCTAGAGACTAAGAGCA Alignment from Pairagon GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGG-TCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAGGT-----------------------------TTCCTAGAGAGTAAAAGCA accatttaaaactattattttttcagtttcctttttaatctgttccacagGCCGGGGATCCCATCCTGACATACTACCCAAGCTGGCTCTGTGGTAAGCTTATTAAGACAACCCGCAGCTGTAGGAGCT-ACGGACTTTGTGCAGAGAGCAACCCAGCAGGTTGGCTCTCATAGCTTCATGTGTCTCAGGATTTCTAGAGACTAAGAGCA Alignment from Exonerate_protein2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTG CAGGTTTCCTAGAGAGTAAAA accatttaaaactattattttttcagtttcctttttaatctgttccacagGCCGGGGATCCCATCCTGACATACTACCCAAGCTGGCTCTGTGGTAAGCTTATTAAGACAACCCGCAGCTGTAGGAGCTACGGACTTTGTGCAGAGAGCAACCCAGcaggttggctctcatagcttcatgtgtctcagGA---TTTCTAGAGACTAAGA Alignment from Exonerate_coding2genome GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTG CAGGTTTCCTAGAGAGTAAAA accatttaaaactattattttttcagtttcctttttaatctgttccacagGCCGGGGATCCCATCCTGACATACTACCCAAGCTGGCTCTGTGGTAAGCTTATTAAGACAACCCGCAGCTGTAGGAGCTACGGACTTTGTGCAGAGAGCAACCCAGcaggttggctctcatagcttcatgtgtctcagGA---TTTCTAGAGACTAAGA Alignment from GeneWise GCTGGGGATCCCATCCTGACCTACTACCCGAGCTGGTCTGTGGTGAGCTTACTGAGGCAGCCTGCAGCGGTGGGAGCTGGGGGACTTTGTGCCGAGAGCAACCCTGCAG GTTTCCTAGAGAGTAAAAGCA accatttaaaactattattttttcagtttcctttttaatctgttccacagGCCGGGGATCCCATCCTGACATACTACCCAAGCTGGCTCTGTGGTAAGCTTATTAAGACAACCCGCAGCTGTAGGAGCTACGGACTTTGTGCAGAGAGCAACCCAGCAGgttggctctcatagcttcatgtgtctcagGATTTCTAGAGACTAAGAGCA #### Tjp2_ID5272_15 --> 2 - 1 Original Alignment ctGGCTTCAAGAGACCCGTGGTTCTGTTT-GGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCAGACCTGTTTCAAACTGCAa tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagctGGCTTTAAAGTAGCTGTGGATCTAGTTCGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTA-TGAATTGCCAGATCTATTCCAAATGGCAagtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from CESAR ctGGCTTCAAGAGACCCGTGGTTCTG-TTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCAGACCTGTTTCAAACTGCAa tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagctGGCTTTAAAGTAGCTGTGGATCTAGTTCGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCT-ATGAATTGCCAGATCTATTCCAAATGGCAagtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Spaln_aa2Genome CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCAGACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTCGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTATGAATTGCCAGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Spaln_nt2Genome CTGGCTTCAAGAGACCCGTGGTTCT-GTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCAGACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTCGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTA-TGAATTGCCAGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Pairagon CTGGCTTCAAGAGACCCGTGGTTCT-GTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCAGACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTCGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTA-TGAATTGCCAGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Exonerate_protein2genome CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCAGACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTCGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTATGAATTGCCAGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from Exonerate_coding2genome CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCAGACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTCGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTATGAATTGCCAGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta Alignment from GeneWise CTGGCTTCAAGAGACCCGTGGTTCTGTTTGGCCCCATAGCAGATATAGCAATGGAAAGGTTGGCAACTGAGTTACCAGACCTGTTTCAAACTGCAA tagatgtggcgtttatagtgaacgactcctctcaatctctccttgagcagCTGGCTTTAAAGTAGCTGTGGATCTAGTTCGGCCCCATAGTGGACATTGCTATGGACAGGTTGGCTATGAATTGCCAGATCTATTCCAAATGGCAAgtaaaggtgtcacctctttacctatcaccatgaagctatgtacggtgcta #### Tjp2_ID5278_9 --> 1 - 1 Original Alignment cTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATG----GGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg ttgttgttcaatgaagcattgaccactgcttctcacgtttgtgattgcagcACTAAAGAAGAAATATCCGGCAAACTGTCAAGGATGGGGCGGAGCCATGCCCACATCCTTCAAGGACACAGGTA-CCCCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCA---AATCAACAAAAAGGCCCAggtaggttgttatgctaatcttttttctaacctaaaatgtagacagggtgg Alignment from CESAR cTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATG----GGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAg ttgttgttcaatgaagcattgaccactgcttctcacgtttgtgattgcagcACTAAAGAAGAAATATCCGGCAAACTGTCAAGGATGGGGCGGAGCCATGCCCACATCCTTCAAGGACACAGGTACC-CCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAACAAAAAGGCCCAggtaggttgttatgctaatcttttttctaacctaaaatgtagacagggtgg Alignment from Spaln_aa2Genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCG---TTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttgttcaatgaagcattgaccactgcttctcacgtttgtgattgcagCACTAAAGAAGAAATATCCGGCAAACTGTCAAGGATGGGGCGGAGCCATGCCCACATCCTTCAAGGACACAGGTACCCCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAACAAAAAGGCCCAGgtaggttgttatgctaatcttttttctaacctaaaatgtagacagggtgg Alignment from Spaln_nt2Genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGT----GCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttgttcaatgaagcattgaccactgcttctcacgtttgtgattgcagCACTAAAGAAGAAATATCCGGCAAACTGTCAAGGATGGGGCGGAGCCATGCCCACATCCTTCAAGGACAC-AGGTACCCCACAGCTGCAGGAGTTA---TGGCCAGTAAGGAGCCAA---ATCAACAAAAAGGCCCAGgtaggttgttatgctaatcttttttctaacctaaaatgtagacagggtgg Alignment from Pairagon CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGT----GCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttgttcaatgaagcattgaccactgcttctcacgtttgtgattgcagCACTAAAGAAGAAATATCCGGCAAACTGTCAAGGATGGGGCGGAGCCATGCCCACATCCTTCAAGGACAC-AGGTACCCCACAGCTGCAGGAGTTAT---GGCCAGTAAGGAGCCAA---ATCAACAAAAAGGCCCAGgtaggttgttatgctaatcttttttctaacctaaaatgtagacagggtgg Alignment from Exonerate_protein2genome CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttgttcaatgaagcattgaccactgcttctcacgtttgtgattgcagCACTAAAGAAGAAATATCCGGCAAACTGTCAAGGATGGGGCGGAGCCATGCCCACATCCTTCAAGGACACAGGTACCCCACAGCTGCAGGAGTTATGGCCAGTAAGGAGCCAAAT---CAACAAAAAGGCCCAGgtaggttgttatgctaatcttttttctaacctaaaatgtagacagggtgg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTC---AAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAG ttgttgttcaatgaagcattgaccactgcttctcacgtttgtgattgcagCACTAAAGAAGAAATATCCGGCAAACTGTCAAGGATGGGGCGGAGCCATGCCCACATCCTTCAAGGACACAGGTACCCCACAGCTGCAGGAGTTATG---GCCAGTAAGGAGCCAAAT---CAACAAAAAGGCCCAGgtaggttgttatgctaatcttttttctaacctaaaatgtagacagggtgg #### Tle4_ID3625_13 --> 2 - 0 Original Alignment caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAAC-GGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttcccttaagctagggcaagacaaccttatcttggtctcacttttctcagctTCCAGCCTAAGGACACCAGTCGCAGTGCCTTGTCCATATCCAACACCACTTGGAGTTGTGCCACATGCAGGCACAAATCGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGTG-GCTCCACAATGTATCCCCCCAGATGAGTGCTTCCACTGCTGCAGCCACAGCAGCAGCGGCTTACGGAAGATCACCTGTAgtaggacctgcttatatgttgttctgttaaagtgcaaagctggtacattt Alignment from CESAR caTCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAAC-GGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttcccttaagctagggcaagacaaccttatcttggtctcacttttctcagctTCCAGCCTAAGGACACCAGTCGCAGTGCCTTGTCCATATCCAACACCACTTGGAGTTGTGCCACATGCAGGCACAAATCGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGTG-GCTCCACAATGTATCCCCCCAGATGAGTGCTTCCACTGCTGCAGCCACAGCAGCAGCGGCTTACGGAAGATCACCTGTAgtaggacctgcttatatgttgttctgttaaagtgcaaagctggtacattt Alignment from Spaln_aa2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttcccttaagctagggcaagacaaccttatcttggtctcacttttctcagCTTCCAGCCTAAGGACACCAGTCGCAGTGCCTTGTCCATATCCAACACCACTTGGAGTTGTGCCACATGCAGGCACAAATCGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGTGGCTCCACAATGTATCCCCCCAGATGAGTGCTTCCACTGCTGCAGCCACAGCAGCAGCGGCTTACGGAAGATCACCTGTAgtaggacctgcttatatgttgttctgttaaagtgcaaagctggtacattt Alignment from Spaln_nt2Genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAA-CGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttcccttaagctagggcaagacaaccttatcttggtctcacttttctcagCTTCCAGCCTAAGGACACCAGTCGCAGTGCCTTGTCCATATCCAACACCACTTGGAGTTGTGCCACATGCAGGCACAAATCGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGT-GGCTCCACAATGTATCCCCCCAGATGAGTGCTTCCACTGCTGCAGCCACAGCAGCAGCGGCTTACGGAAGATCACCTGTAgtaggacctgcttatatgttgttctgttaaagtgcaaagctggtacattt Alignment from Pairagon CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAA-CGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttcccttaagctagggcaagacaaccttatcttggtctcacttttctcagCTTCCAGCCTAAGGACACCAGTCGCAGTGCCTTGTCCATATCCAACACCACTTGGAGTTGTGCCACATGCAGGCACAAATCGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGT-GGCTCCACAATGTATCCCCCCAGATGAGTGCTTCCACTGCTGCAGCCACAGCAGCAGCGGCTTACGGAAGATCACCTGTAgtaggacctgcttatatgttgttctgttaaagtgcaaagctggtacattt Alignment from Exonerate_protein2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttcccttaagctagggcaagacaaccttatcttggtctcacttttctcagCTTCCAGCCTAAGGACACCAGTCGCAGTGCCTTGTCCATATCCAACACCACTTGGAGTTGTGCCACATGCAGGCACAAATCGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGTGGCTCCACAATGTATCCCCCCAGATGAGTGCTTCCACTGCTGCAGCCACAGCAGCAGCGGCTTACGGAAGATCACCTGTAgtaggacctgcttatatgttgttctgttaaagtgcaaagctggtacattt Alignment from Exonerate_coding2genome CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttcccttaagctagggcaagacaaccttatcttggtctcacttttctcagCTTCCAGCCTAAGGACACCAGTCGCAGTGCCTTGTCCATATCCAACACCACTTGGAGTTGTGCCACATGCAGGCACAAATCGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGTGGCTCCACAATGTATCCCCCCAGATGAGTGCTTCCACTGCTGCAGCCACAGCAGCAGCGGCTTACGGAAGATCACCTGTAgtaggacctgcttatatgttgttctgttaaagtgcaaagctggtacattt Alignment from GeneWise CATCAAGCCTGAGGACCCCGATGGCTGTACCTTGTCCATATCCAACCCCCTTTGGGATCGTGCCCCATGCTGGGATGAACGGAGAGCTGACCAGCCCCGGAGCCGCCTATGCTGGGCTACACAACATCTCCCCCCAGATGAGTGCAGCTGCTGCTGCAGCTGCGGCAGCAGCAGCCTATGGAAGATCACCTGTG ttcccttaagctagggcaagacaaccttatcttggtctcacttttctcagCTTCCAGCCTAAGGACACCAGTCGCAGTGCCTTGTCCATATCCAACACCACTTGGAGTTGTGCCACATGCAGGCACAAATCGGAGAGCTGACCAGCCCTGGGGCTGCTTATGGTGGCTCCACAATGTATCCCCCCAGATGAGTGCTTCCACTGCTGCAGCCACAGCAGCAGCGGCTTACGGAAGATCACCTGTAgtaggacctgcttatatgttgttctgttaaagtgcaaagctggtacattt #### Tm7sf2_ID1411_9 --> 2 - 1 Original Alignment gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg aagttgggttggctcagtttctgttgacgttgaattgctttattttgaaggcCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTCGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAG-CCTCATCATGGCTCTTGCATGGTCCTTGCCATGTggtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from CESAR gtCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTg tatttgggttggctcagtttctgttgacgttgaattgctttattttgaaggcCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTCGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGA-GCCTCATCATGGCTCTTGCATGGTCCTTGCCATGTggtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Spaln_aa2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aagttgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTCGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGCCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Spaln_nt2Genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aagttgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTCGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAG-CCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Pairagon GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aagttgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTCGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAG-CCTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Exonerate_protein2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGA--GATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aagttgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTCGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGC---CTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from Exonerate_coding2genome GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTGTCT-GGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGA--GATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aagttgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTCGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGC---CTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg Alignment from GeneWise GTCTTGAGACCATCCCGACTGCCACGGGGAGGCAGCTGCTGGTG-TCTGGGTGGTGGGGTATGGTTCGACACCCCAACTACCTGGGAGATCTCATCATGGCTCTGGCATGGTCTTTGCCCTGTG aagttgggttggctcagtttctgttgacgttgaattgctttattttgaagGCCTTGACACCATCCCCATTGCCACTGGGAGAGATCTGCATGTGTCTCGGGTGGTGGGGCATGGTACAGCATCCCAACTACCTGGGAGC-CTCATCATGGCTCTTGCATGGTCCTTGCCATGTGgtaagctgatggctacaatgtctcccaggactgagtgcagtatgtggagg #### Tm7sf2_ID1413_7 --> 0 - 1 Original Alignment GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTG-TACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aacatccagcttgctgttgtcaagggagcctcttctgtttctatttgcagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTAGCTTCATGCTTGTCTTTGGGGATTTAGCTTGGATACCACTGATCTACAGTCTGCAGGCCCAGTTCCTTTTACTACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGggtaagtcccaaaatgctcaaccatgcaccaccaatcatgtagttgggacc Alignment from CESAR GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTG-TACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg aacatccagcttgctgttgtcaagggagcctcttctgtttctatttgcagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTAGCTTCATGCTTGTCTTTGGGGATTTAGCTTGGATACCACTGATCTACAGTCTGCAGGCCCAGTTCCTTTTACTACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGggtaagtcccaaaatgctcaaccatgcaccaccaatcatgtagttgggacc Alignment from Spaln_aa2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTG-TACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatccagcttgctgttgtcaagggagcctcttctgtttctatttgcagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTAGCTTCATGCTTGTCTTTGGGGATTTAGCTTGGATACCACTGATCTACAGTCTGCAGGCCCAGTTCCTTTTAcTACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGGgtaagtcccaaaatgctcaaccatgcaccaccaatcatgtagttgggacc Alignment from Spaln_nt2Genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTG-TACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatccagcttgctgttgtcaagggagcctcttctgtttctatttgcagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTAGCTTCATGCTTGTCTTTGGGGATTTAGCTTGGATACCACTGATCTACAGTCTGCAGGCCCAGTTCCTTTTACTACCACCCCCAACCACTAGGATACCCAATGGCCT---TCATCTGCCTGCTCCAGGgtaagtcccaaaatgctcaaccatgcaccaccaatcatgtagttgggacc Alignment from Pairagon GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTG-TACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatccagcttgctgttgtcaagggagcctcttctgtttctatttgcagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTAGCTTCATGCTTGTCTTTGGGGATTTAGCTTGGATACCACTGATCTACAGTCTGCAGGCCCAGTTCCTTTTACTACCACCCCCAACCACTAGGATACCCAATGGCCT---TCATCTGCCTGCTCCAGGgtaagtcccaaaatgctcaaccatgcaccaccaatcatgtagttgggacc Alignment from Exonerate_protein2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTG-TACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatccagcttgctgttgtcaagggagcctcttctgtttctatttgcagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTAGCTTCATGCTTGTCTTTGGGGATTTAGCTTGGATACCACTGATCTACAGTCTGCAGGCCCAGTTCCTTTTACTACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGGgtaagtcccaaaatgctcaaccatgcaccaccaatcatgtagttgggacc Alignment from Exonerate_coding2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTG-TACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatccagcttgctgttgtcaagggagcctcttctgtttctatttgcagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTAGCTTCATGCTTGTCTTTGGGGATTTAGCTTGGATACCACTGATCTACAGTCTGCAGGCCCAGTTCCTTTTACTACCACCCCCAACCACTAGGATACCCAATGGCC---TTCATCTGCCTGCTCCAGGgtaagtcccaaaatgctcaaccatgcaccaccaatcatgtagttgggacc Alignment from GeneWise GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTG-TTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG aacatccagcttgctgttgtcaagggagcctcttctgtttctatttgcagGAGTCTATCCTCACCACTATGGACATTATACATGATGGGTTTAGCTTCATGCTTGTCTTTGGGGATTTAGCTTGGATACCACTGATCTACAGTCTGCAGGCCCAGTTCCTTTTACTACCACCCCCAACCACTAGGATACCCAATGGCCTTC---ATCTGCCTGCTCCAGGgtaagtcccaaaatgctcaaccatgcaccaccaatcatgtagttgggacc #### Tm7sf2_ID1416_4 --> 2 - 1 Original Alignment gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTG-GCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaaggtTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGCTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCTGCCTACTAC-CTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAggtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from CESAR gcTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTG-GCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAg ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaaggtTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGCTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCTGCCTACTA-CCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAggtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Spaln_aa2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGCTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCTGCCTACTACCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Spaln_nt2Genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGG-CCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGCTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCTGCCTACTAC-CTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Pairagon GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGG-CCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGCTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCTGCCTACTAC-CTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Exonerate_protein2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGCTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCTGCCTACTACCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from Exonerate_coding2genome GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGCTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCTGCCTACTACCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg Alignment from GeneWise GCTTCCAGGCTCTGGTGCTAACAGCCCTGTTGATGGGGCTGGGGGTGTCAGTGGGGCTGCCCCTGGGGGCACTCCCTGGAATGCTCCTGCCCTTGGCCTTTGCGACCACTCTCACCAGCTTTATCTTCAGCCTCCTCCTCTATGCGAAGGCTTTGGTAGCTCCTGCCTCAGCCCTGGCTCCTGGGGGAAACTCAG ctttcctagtgtgtgtactgtccctgagcttctcatccctcctcctcaagGTTACCAGGCTGTTGTTTTGTCAGCACTGTTAATGGGGCTGGGTGTATCTGTGGGGTTCCCCCTTGCAGGATTACCTGGAATGCTTCTGCCACTGCTCCTTGGCGACCACTCTCACCAGGTTTGTCTTCTGCCTACTACCTACACAAAAGCTTTGGTAACCCCTGCCTTAGCTTTGAACTCCGGGGGAAACTCAGgtaagttgggtgcccagtagatctcagaaggtgtggacctagtgaaggtg #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment cTGCTCTGAAGCCCAG-AAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA cctctcttcctcattagtattacacttatctcttgcccctccccccacagcCGCTCTGAAGCACAGCAAGACTGCATGGACACCTTTGGGAACTG-TGTGCAGCTTTACTCCAACCTACACACCGCCGAAgtagtgtgcaagcattgataaggagacaccaatatggctctgtgctccta Alignment from CESAR cTGCTCTGAAGCCCAG-AAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA cctctcttcctcattagtattacacttatctcttgcccctccccccacagcCGCTCTGAAGCACAGCAAGACTGCATGGACACCTTTGGGAACTG-TGTGCAGCTTTACTCCAACCTACACACCGCCGAAgtagtgtgcaagcattgataaggagacaccaatatggctctgtgctccta Alignment from Spaln_aa2Genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA cctctcttcctcattagtattacacttatctcttgcccctccccccacagCCGCTCTGAAGCACAGCAAGACTGCATGGACACCTTTGGGAACTGTGTGCAGCTTTACTCCAACCTACACACCGCCGAAgtagtgtgcaagcattgataaggagacaccaatatggctctgtgctccta Alignment from Spaln_nt2Genome CTGCTCTGAAGCCCAGAAAACCT-CATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA cctctcttcctcattagtattacacttatctcttgcccctccccccacagCCGCTCTGAAGCACAGCAAGACTGCATGGACACCTTTGGGAACTG-TGTGCAGCTTTACTCCAACCTACACACCGCCGAAgtagtgtgcaagcattgataaggagacaccaatatggctctgtgctccta Alignment from Pairagon CTGCTCTGAAGCCCAG-AAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA cctctcttcctcattagtattacacttatctcttgcccctccccccacagCCGCTCTGAAGCACAGCAAGACTGCATGGACACCTTTGGGAACTG-TGTGCAGCTTTACTCCAACCTACACACCGCCGAAgtagtgtgcaagcattgataaggagacaccaatatggctctgtgctccta Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA cctctcttcctcattagtattacacttatctcttgcccctccccccacagCCGCTCTGAAGCACAGCAAGACTGCATGGACACCTTTGGGAACTGTGTGCAGCTTTACTCCAACCTACACACCGCCGAAgtagtgtgcaagcattgataaggagacaccaatatggctctgtgctccta Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA cctctcttcctcattagtattacacttatctcttgcccctccccccacagCCGCTCTGAAGCACAGCAAGACTGCATGGACACCTTTGGGAACTGTGTGCAGCTTTACTCCAACCTACACACCGCCGAAgtagtgtgcaagcattgataaggagacaccaatatggctctgtgctccta Alignment from GeneWise CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA cctctcttcctcattagtattacacttatctcttgcccctccccccacagCCGCTCTGAAGCACAGCAAGACTGCATGGACACCTTTGGGAACTGTGTGCAGCTTTACTCCAACCTACACACCGCCGAAgtagtgtgcaagcattgataaggagacaccaatatggctctgtgctccta #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCA-GCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag ttggtttactttgtggtaggtcattgattaatcaatttgtctttcttaagaGGCTCCATAGGGCTCCGGATTGCTCTGGCCACCTCACGCTACAGCTATCTTCCTGATTTTAGTATCCGCTT-CATAGTCCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAaggtaagatgaagaataggtataggtgtgctgagagttccaaactagattta Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCA-GCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag ttggtttactttgtggtaggtcattgattaatcaatttgtctttcttaagaGGCTCCATAGGGCTCCGGATTGCTCTGGCCACCTCACGCTACAGCTATCTTCCTGATTTTAGTATCCGCT-TCATAGTCCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAaggtaagatgaagaataggtataggtgtgctgagagttccaaactagattta Alignment from Spaln_aa2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ttggtttactttgtggtaggtcattgattaatcaatttgtctttcttaagAGGCTCCATAGGGCTCCGGATTGCTCTGGCCACCTCACGCTACAGCTATCTTCCTGATTTTAGTATCCGCTTCATAGTCCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtaagatgaagaataggtataggtgtgctgagagttccaaactagattta Alignment from Spaln_nt2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCA-GCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ttggtttactttgtggtaggtcattgattaatcaatttgtctttcttaagAGGCTCCATAGGGCTCCGGATTGCTCTGGCCACCTCACGCTACAGCTATCTTCCTGATTTTAGTATCCG-CTTCATAGTCCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtaagatgaagaataggtataggtgtgctgagagttccaaactagattta Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCA-GCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ttggtttactttgtggtaggtcattgattaatcaatttgtctttcttaagAGGCTCCATAGGGCTCCGGATTGCTCTGGCCACCTCACGCTACAGCTATCTTCCTGATTTTAGTATCCGCTT-CATAGTCCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtaagatgaagaataggtataggtgtgctgagagttccaaactagattta Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ttggtttactttgtggtaggtcattgattaatcaatttgtctttcttaagAGGCTCCATAGGGCTCCGGATTGCTCTGGCCACCTCACGCTACAGCTATCTTCCTGATTTTAGTATCCGCTTCATAGTCCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtaagatgaagaataggtataggtgtgctgagagttccaaactagattta Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ttggtttactttgtggtaggtcattgattaatcaatttgtctttcttaagAGGCTCCATAGGGCTCCGGATTGCTCTGGCCACCTCACGCTACAGCTATCTTCCTGATTTTAGTATCCGCTTCATAGTCCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtaagatgaagaataggtataggtgtgctgagagttccaaactagattta Alignment from GeneWise AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG ttggtttactttgtggtaggtcattgattaatcaatttgtctttcttaagAGGCTCCATAGGGCTCCGGATTGCTCTGGCCACCTCACGCTACAGCTATCTTCCTGATTTTAGTATCCGCTTCATAGTCCGATTTGGCACAAATTCTTTCTGTAACTCCATTATCTCTCTGAATCTGACAATAAGgtaagatgaagaataggtataggtgtgctgagagttccaaactagattta #### Tmem179b_ID2371_2 --> 0 - 2 Original Alignment GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAATGGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCT-TCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACag ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTCTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTC-CTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACaggtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from CESAR GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAATGGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCT-TCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACag ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTCTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTT-CCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACaggtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Spaln_aa2Genome GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAATGGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTCTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Spaln_nt2Genome GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAATGGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCT-TCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTCTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTC-CTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCAT---AGATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Pairagon GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAATGGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCT-TCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTCTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTC-CTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCAT---AGATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Exonerate_protein2genome GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAATGGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTCTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from Exonerate_coding2genome GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAATGGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTCTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt Alignment from GeneWise GGCTCCTTTGGTGGTAACTGTCCCTTGTATGGTGTGGCTGCACTCAATGGCTCCTCTCTGGCCTTGTTAGGTCCCTCAGCCCCTTCCCTCTGCTACTTCGTGGCTGGGGCTTCAGGCATCTTGGCACTCTACTGCCTTCTGCTTCTCTTCTTCTGGGTCTACAGCAGCTGCATCGAAGACTCCCACAG ttaccataagacagacacttcatctaccactcctttgatttgtctttcagGGCTCTTATGGTGGCAACTGTCCATTGTATGGTGCTGTTGCTCTCAATGGCCCCTCACTAGCTTTGCTCAGTCCAGCAGCTCCTCTCCCTATGCTATTTTGTTGCTGGGGGTTCAGGAATCTTGGTTCCTACTGTCTCCTATTTCTGTTTTTCTGGGTCTACAGTAGTTGCATA---GATTCCCACAGgtgagtcctcctcctggaatgaggggtaactgggggggattatcaatatt #### Tmem180_ID9861_3 --> 1 - 2 Original Alignment gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTG-TCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcataggAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGCGCATTCCTTGCGTATTGGGTATCTTGGGCAC-TGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTgggtaagacactacttcagctcaagctcccatggccaatacaactatgatag Alignment from CESAR gTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTG-TCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTgg ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcataggAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGCGCATTCCTTGCGTATTGGGTATCTTGGGCA-CTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTgggtaagacactacttcagctcaagctcccatggccaatacaactatgatcc Alignment from Spaln_aa2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGCGCATTCCTTGCGTATTGGGTATCTTGGGCACTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatag Alignment from Spaln_nt2Genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCC-TTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGCGCATTCCTTGCGTATTGGGTATCTTGGG-CACTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatag Alignment from Pairagon GGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCC-TTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcataggaagGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGCGCATTCCTTGCGTATTGGGTATCTTGGG-CACTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatag Alignment from Exonerate_protein2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGCGCATTCCTTGCGTATTGGGTATCTTGGGCACTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatag Alignment from Exonerate_coding2genome GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGCGCATTCCTTGCGTATTGGGTATCTTGGGCACTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatag Alignment from GeneWise GTCAGGAGCAGGGCTCTCCTCCAGAGACGTGGTGCTGACCCGGGTCCGGGCTCTGGGCTGGCATGGGCCGCTGCTGGCACTGTCCTTCCTGGCATTCTGGGTGCCCTGGGCCCCTGCTGGCTTGCAATTCTTACTGTGCCTGTGCCTTTATGATGGCTTCCTGACGCTCGTGGACCTCCACCACCATGCCTTGCTGGCCGACCTGGCGCTCTCATCCCACGACCGCACCCACCTCAACTTTTACTGCTCCCTCTTCAGTGCAGCTGGCTCCTTGTCAGTCTTCGCCTCCTACGCCTTTTGGAACAAGGAGGACTTCTCCTCCTTCCGTGCCTTCTGTGTGGTACTAGCTGCTGGCTCTGGGCTGGGCTTTCTGGGAACCACACAATTATTGAAGCGGCAGATTGAAGCGACCAGAAGGGACAGGGGTTGCCCGGGCCTGGACCTGGATGGTGG ggtatgcctagtgtgtaggagtcccttactctctgttcttggttgcatagGAAGGGAGCAGGGCTCTCCTCTAGGGATGTGGTGCTAACTCGTGTGCGGTCCCTAGGCTGGCATGGTCAACTGTGGGCATTGCGCATTCCTTGCGTATTGGGTATCTTGGGCACTGCTGGACTACAATTCTTCTTGTGCCTTTGCCTCTATGATAGCCTCCTGACCCTGGTGGACCTCCACCATCACACTTTGCTAGCTGACCTGGCACTGTCATCCCGTGATCACACTCACCTCAATTTCGATTGCTCCCTTTTCAGTGCAGCTGGTTCGTTATCTGTCTTTGCCTCTCATGCCTTTTGGAACAAGGAGGATTTCACCTCATTCCTGGCATTTTGTGTAGTGCTTGCCGCTGGATCTGGACTGGGCTTCCTTGGCACCACACAATTATTAAAGTGGCAGATTGAACCATCCAGAAGGGACAGGGGTTGCCCAGGTTTGGATCTAGATGGTGGgtaagacactacttcagctcaagctcccatggccaatacaactatgatag #### Tmem180_ID9862_4 --> 1 - 0 Original Alignment cGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTC-CGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagtGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCAGTACCTCCCACCAACAGGCACACCACCAGATCTTCCTAT-GTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from CESAR cGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTC-CGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagtGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCAGTACCTCCCACCAACAGGCACACCACCAGATCTTCCTA-TGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Spaln_aa2Genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCAGTACCTCCCACCAACAGGCACACCACCAGATCTTCCTATGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Spaln_nt2Genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGC-AACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCAGTACCTCCCACCAACAGGCACACCACCAGATCTTCCTAT-GTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Pairagon CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCT-CCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCAGTACCTCCCACCAACAGGCACACCACCAGATCTTCCTAT-GTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Exonerate_protein2genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCAGTACCTCCCACCAACAGGCACACCACCAGATCTTCCTATGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from Exonerate_coding2genome CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAGGTG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCAGTACCTCCCACCAACAGGCACACCACCAGATCTTCCTATGTTTGTAGGTATGTATTTGGTGCAGGTAtctcagcctatcccttagctccctgtcaggtttgattctggcctagg Alignment from GeneWise CGTGTGTGAAGAGGAGCCGCCAGTGGGTGGTGAGGAAGCAGGCAACATCACCTTGGGCCAGTACCTCCGGCAACTGGCACGCCACCAAAACTTCCTGTGGTTCGTGGGCATGGACCTGGTACAG aagctcccatggccaatacaactatgatccaccctgttgtacctctgcagTGTGTGTGAGGAGGAGCCACCAGTTGGTGGTGAGGAGGCTGGTAATATCACTCTAGGGCAGTACCTCCCACCAACAGGCACACCACCAGATCTTCCTATGTTTGTAGGTATGTATTTGGTGCAGgtatctcagcctatcccttagctccctgtcaggtttgattctggcctagg #### Trmt112_ID1861_2 --> 0 - 0 Original Alignment GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTC-GTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTACGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCAC-TGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from CESAR GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAG-TTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTACGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCAC-TGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Spaln_aa2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAG-TTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGGAATTTAACCCTGAGtTACGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTGTTCGGGCTG------CGGgtactgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Spaln_nt2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTT-CGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTACGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCAC-TGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Pairagon GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTT-CGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTACGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCAC-TGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Exonerate_protein2genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTACGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from Exonerate_coding2genome TTCCCGCTGCGCCTGCAGGCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatTTACCTGTTTGCCCCAAGGCAACTGAGGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTACGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct Alignment from GeneWise GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC cagatggaagtctaacctggacaatttttcatttacctgtttgccccaagGCAACTGAGGTCTGTATTAACCCTGTGGAATTTAACCCTGAGTTACGTGGCACGTATGATCCCCAAAGTAGAGTGGGCAGCACTGTTCGGGCTGCGGGTACTgtaagtgctgctattctacctaggatgccttagtttctggacccctttct #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCA---CAA------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACAC-ATCCAC------TTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCCAATCATCTTGCTCTTGCTTCAGGATTGCCA---GATC-AGGCACCATCAGTggtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from CESAR GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---GCCCTGCCCTTG------ACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACAC-ATCCACTTGGCC------TCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCCAATCATCTTGCTCTTGCTTCAGGATTGCCA---GAT-CAGGCACCATCAGTggtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from Spaln_aa2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCT---GGGGACCCTGGTGTCATCAGCG gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCCAATCATCTTGCTCTTGCTTCAGGATTGCCAGATCAGGCACCATCAGTGgtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from Spaln_nt2Genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---GCCCTGCCCTTGACACTAG------TCCATGGTACATTCTGGA---AGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACAC--ATCCACTTG-----GCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCTCAAGGG---GTCACATCAAGGAAGGACTTGCCAATCATCTTGCTCTTGCTTCAGGATTGCCAG----ATCAGGCACCATCAGTGgtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from Pairagon GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTG-----------------GCCTCAGGATTGCCTG----------------GGGACCCT------------------------------------------- gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCTCAAGGG---GTCACATCAAGGAAGG----------ACTTGCCAATCATCTTGCTCTTGCTTCAGGATTGCCAGATCAGGCACCATCAGTGGTACCCTCTACTTACCCTACCATGCTGCATTGATAGAAGACACCTCACTT Alignment from Exonerate_protein2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAA---------GCCCTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCTCAAGGGGTCACATCAAGGAAGGACTTGCCAATCATCTTGCTCTTGCTTCAGGATTGCCAGATCAGGCACCATCAGTGgtaccctctacttaccctaccatgctgcattgatagaagacacctcactt Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCC---------CTGCCCTTGACACTAGTCCATGGTACATTCTGG---AAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCT---GGGGACCCTGGTGTCATCAGCG gtgtctatgttagagaacgtcttgctgcgttcttgttgtcaataatctagGTCCCTAAGTTGGAGCTTACGCCCCTGGACACCCCACAACAAGCCTTGCCCCTGCCTCTAGCATTAGTTCATGGCACATTCTGGACAAATCACTGGCCGTCCATTTTGCTCAAGGGG---TCACATCAAGGAAGGACTTGCCAATCATCTTGCTCTTGCTTCAGGATTGCCAGATCAGGCACCATCAGTGgtaccctctacttaccctaccatgctgcattgatagaagacacctcactt #### Trpt1_ID1983_6 --> 2 - 1 Original Alignment atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGG-AATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAc gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagatGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGCAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCA-AGAGGCTCTCCAACTACGGCCTATGtgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from CESAR atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGG-AATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAc gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagatGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGCAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCA-AGAGGCTCTCCAACTACGGCCTATGtgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Spaln_aa2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGCAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCAAGAGGCTCTCCAACTACGGCCTATGTgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Spaln_nt2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGG-AATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCC---ATTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGCAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCAA-GAGGCTCTCCAACTACGGCCTATGTgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Pairagon No alignment No alignment Alignment from Exonerate_protein2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCCA---TTCTGCTTTGGCAACGGGGTGATTTTAACACCAGGGCAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCAAGAGGCTCTCCAACTACGGCCTATGTgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC gaaagaaagtgtacaaacacatgatcatgactcgcgcccgctctttgcagATGGAATTCCATTC---TGCTTTGGCAACGGGGTGATTTTAACACCAGGGCAATGTGGAAGGTTTTCTTCTTCCCAACTACTCCAAGAGGCTCTCCAACTACGGCCTATGTgtgaggtcatcacctagctgaatatggcattctctttaagtctgtcaggg #### Tsga10ip_ID978_2 --> 0 - 2 Original Alignment ACCAACGCCAGACTCACTGCAAAT-CGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag aacaagccttatgtcatgtgtcttagtttacttcttttcttctcccctagACTAATGCCTGTCTTACAGGAAATCTGGCAA------CAGGTTTTATCTGGACTAG-TCTAGATGATGATCAGCTATTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACaggtaaggaatgttaggcatggtgtgctaaatcaggttatacatgtcctgtc Alignment from CESAR ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCC-CAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag aacaagccttatgtcatgtgtcttagtttacttcttttcttctcccctagACTAATGCCTGTCTTACAGGAAAT------CTGGCAACAGGTTTTATCTGGACTA-GTCTAGATGATGATCAGCTATTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACaggtaaggaatgttaggcatggtgtgctaaatcaggttatacatgtcctgtc Alignment from Spaln_aa2Genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG aacaagccttatgtcatgtgtcttagtttacttcttttcttctcccctagACTAATGCCTGTCTTACAGGAAATCTGGCAACAGGTTTTATCTGGACTAGTCTA------GATGATGATCAGCTATTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaaggaatgttaggcatggtgtgctaaatcaggttatacatgtcctgtc Alignment from Spaln_nt2Genome ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG aacaagccttatgtcatgtgtcttagtttacttcttttcttctcccctagACTAATGCCTGTCTTACAGGAAATCTG-GC----AACAGGTTTTATCTGGACT-AGTCTAGATGATGATCAGCTATTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaaggaatgttaggcatggtgtgctaaatcaggttatacatgtcctgtc Alignment from Pairagon TAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG aacaagccttatgtcatgtgtcttagtttacttcttttcttctcccctagactaatgcctgtcttacaggaaatctggcaacaggttttatctggactagtcTAGATGATGATCAGCTATTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaaggaatgttaggcatggtgtgctaaatcaggttatacatgtcctgtc Alignment from Exonerate_protein2genome GGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG aacaagccttatgtcatgtgtcttagtttacttcttttcttctcccctagactaatgcctgtcttacaggaaatctggcaacaggttttatctggactAGTCTAGATGATGATCAGCTATTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaaggaatgttaggcatggtgtgctaaatcaggttatacatgtcctgtc Alignment from Exonerate_coding2genome aacaagccttatgtcatgtgtcttagtttacttcttttcttctcccctagactaatgcctgtcttacaggaaatctggcaacaggttttatctggactagtctagatgatgatcagctattagctgaggcaggtattgctgaaagcactccccagaagcacaggtaaggaatgttaggcatggtgtgctaaatcaggttatacatgtcctgtc Alignment from GeneWise CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG aacaagccttatgtcatgtgtcttagtttacttcttttcttctcccctag---ACTAATGCCTGTCTTACAGGAAATCTGGCAACAGGTTTTATCTGGACTAGTCTA------GATGATGATCAGCTATTAGCTGAGGCAGGTATTGCTGAAAGCACTCCCCAGAAGCACAGgtaaggaatgttaggcatggtgtgctaaatcaggttatacatgtcctgtc #### Tut1_ID2554_7 --> 2 - 1 Original Alignment gaGGTGGCCCCCTTCTCAATAAC-TACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccaggaGGTGGCCCACTATTCAATAATCTAT---GTAACCTTGTTGGTGATCTACCTGC-TCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTAACCCAGAGGGCAggtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from CESAR gaGGTGGCCCCCTTCTCAATAAC-TACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAg ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccaggaGGTGGCCCACTATTCAATAATCTAT---GTAACCTTGTTGGTGATCTACCTGC-TCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTAACCCAGAGGGCAggtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Spaln_aa2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATCTATGT---AACCTTGTTGGTGATCTACCTGCTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Spaln_nt2Genome GAGGTGGCCCCCTTCTCAATAA-CTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATCTATG---TAACCTTGTTGGTGATCTACCTGC-TCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Pairagon GAGGTGGCCCCCTTCTCAATAA-CTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATCTATG---TAACCTTGTTGGTGATCTACCTGC-TCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Exonerate_protein2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATCTATGT---AACCTTGTTGGTGATCTACCTGCTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from Exonerate_coding2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATCTATGT---AACCTTGTTGGTGATCTACCTGCTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag Alignment from GeneWise GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ttgacatgcagacctgttatcgcaattatctcctgttctctcttgaccagGAGGTGGCCCACTATTCAATAATCTATGT---AACCTTGTTGGTGATCTACCTGCTCAAACAAGAGACCCACCAGTACTACCTAGTGTGGCCGAGCTAACCCAGAGGGCAGgtgagtataatgtctgcgctctgtaacccaggcattctggcaggtataag #### Ubxn1_ID2443_7 --> 0 - 0 Original Alignment TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCA-ACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG acgttcaagcacacacctcaatatggtactgtttttcttgttctccctagTGTGGTGGCAGTGTGGGTTCTCGAACGTCTCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCC-AGAGCCCCCTACTAAGCGGGAGTATGATCAGTGTCGTACACAAgtaacctctccaagtgaccatcctcctcaggactttcatgtaactctcta Alignment from CESAR TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCA-ACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG acgttcaagcacacacctcaatatggtactgtttttcttgttctccctagTGTGGTGGCAGTGTGGGTTCTCGAACGTCTCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCC-AGAGCCCCCTACTAAGCGGGAGTATGATCAGTGTCGTACACAAgtaacctctccaagtgaccatcctcctcaggactttcatgtaactctcta Alignment from Spaln_aa2Genome TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCAACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG acgttcaagcacacacctcaatatggtactgtttttcttgttctccctagTGTGGTGGCAGTGTGGGTTCTCGAACGTCTCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAGAGCCCCCTACTAAGCGGGAGTATGATCAGTGTCGTACACAAgtaacctctccaagtgaccatcctcctcaggactttcatgtaactctcta Alignment from Spaln_nt2Genome TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCA-ACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG acgttcaagcacacacctcaatatggtactgtttttcttgttctccctagTGTGGTGGCAGTGTGGGTTCTCGAACGTCTCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCA-GAGCCCCCTACTAAGCGGGAGTATGATCAGTGTCGTACACAAgtaacctctccaagtgaccatcctcctcaggactttcatgtaactctcta Alignment from Pairagon TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCA-ACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG acgttcaagcacacacctcaatatggtactgtttttcttgttctccctagTGTGGTGGCAGTGTGGGTTCTCGAACGTCTCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCA-GAGCCCCCTACTAAGCGGGAGTATGATCAGTGTCGTACACAAgtaacctctccaagtgaccatcctcctcaggactttcatgtaactctcta Alignment from Exonerate_protein2genome TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCAACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG acgttcaagcacacacctcaatatggtactgtttttcttgttctccctagTGTGGTGGCAGTGTGGGTTCTCGAACGTCTCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAGAGCCCCCTACTAAGCGGGAGTATGATCAGTGTCGTACACAAgtaacctctccaagtgaccatcctcctcaggactttcatgtaactctcta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise TATGGTGGTAGTGTGGGTTCTCGGTCATCCCCACCAGCAACAGACCCAGGTCCTGTTCCTTCTTCTCCCAGCCAGGAGCCCCCTACTAAGCGGGAGTATGACCAGTGTCGTATACAG acgttcaagcacacacctcaatatggtactgtttttcttgttctccctagTGTGGTGGCAGTGTGGGTTCTCGAACGTCTCCACCAGCACATGGACCCCGGTCCTGTACCATCTCCTCCAAGCCAGAGCCCCCTACTAAGCGGGAGTATGATCAGTGTCGTACACAAgtaacctctccaagtgaccatcctcctcaggactttcatgtaactctcta #### Ubxn1_ID2444_8 --> 0 - 1 Original Alignment GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCT-GTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGg acactacagaaaatgccactcactggtgcgtttcttttcctcttctccagGTTAGGCTGCCTGATGTCACTTCACTTACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCTGGACAGGATCAGGACCCTCGTACAATTGCTCAGCGGATTCCCCAGACGGGCTTTCT-TGAAGCTGACATGGAGCGGCCTTTACAGAGACTGggtaaaatttgtattcttacatttatgcacattgtcttgaggcacatgctg Alignment from CESAR GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCT-GTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGg acactacagaaaatgccactcactggtgcgtttcttttcctcttctccagGTTAGGCTGCCTGATGTCACTTCACTTACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCTGGACAGGATCAGGACCCTCGTACAATTGCTCAGCGGATTCCCCAGACGGGCTTTC-TTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGggtaaaatttgtattcttacatttatgcacattgtcttgaggcacatgctg Alignment from Spaln_aa2Genome GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCTGTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG acactacagaaaatgccactcactggtgcgtttcttttcctcttctccagGTTAGGCTGCCTGATGTCACTTCACTTACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCTGGACAGGATCAGGACCCTCGTACAATTGCTCAGCGGATTCCCCAGACGGGCTTTCTTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaaaatttgtattcttacatttatgcacattgtcttgaggcacatgctg Alignment from Spaln_nt2Genome GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCT-GTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG acactacagaaaatgccactcactggtgcgtttcttttcctcttctccagGTTAGGCTGCCTGATGTCACTTCACTTACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCTGGACAGGATCAGGACCCTCGTACAATTGCTCAGCGGATTCCCCAGACGGGCTTTCT-TGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaaaatttgtattcttacatttatgcacattgtcttgaggcacatgctg Alignment from Pairagon GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCT-GTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG acactacagaaaatgccactcactggtgcgtttcttttcctcttctccagGTTAGGCTGCCTGATGTCACTTCACTTACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCTGGACAGGATCAGGACCCTCGTACAATTGCTCAGCGGATTCCCCAGACGGGCTTTCTT-GAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaaaatttgtattcttacatttatgcacattgtcttgaggcacatgctg Alignment from Exonerate_protein2genome GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCTGTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG acactacagaaaatgccactcactggtgcgtttcttttcctcttctccagGTTAGGCTGCCTGATGTCACTTCACTTACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCTGGACAGGATCAGGACCCTCGTACAATTGCTCAGCGGATTCCCCAGACGGGCTTTCTTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaaaatttgtattcttacatttatgcacattgtcttgaggcacatgctg Alignment from Exonerate_coding2genome GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCTGTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG acactacagaaaatgccactcactggtgcgtttcttttcctcttctccagGTTAGGCTGCCTGATGTCACTTCACTTACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCTGGACAGGATCAGGACCCTCGTACAATTGCTCAGCGGATTCCCCAGACGGGCTTTCTTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaaaatttgtattcttacatttatgcacattgtcttgaggcacatgctg Alignment from GeneWise GTTAGGCTGCCTGATGGGACTTCACTGACCCAGACTTTCCGGGCCCGGGAACAGCTGGCAGCTGTGAGGCTCTACGTGGAGCTTCACCGTGGGGAGGAGCCTGGACAGGACCAGGACCCTGTGCAGTTGCTCAGTGGCTTCCCCAGACGGGCTTTCTCAGAGGCTGATATGGAACGGCCTCTGCAGGAACTGG acactacagaaaatgccactcactggtgcgtttcttttcctcttctccagGTTAGGCTGCCTGATGTCACTTCACTTACCCAGACTTTCCGGATCCAGGAAGAGTTGGCAGCTGTGAGGCTTTATGTAGAGCTCCATCACGGTGAGGAACCTGGACAGGATCAGGACCCTCGTACAATTGCTCAGCGGATTCCCCAGACGGGCTTTCTTGAAGCTGACATGGAGCGGCCTTTACAGAGACTGGgtaaaatttgtattcttacatttatgcacattgtcttgaggcacatgctg #### Unc93b1_ID214_5 --> 1 - 0 Original Alignment gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAG-CAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aatggcagtaactgccacagtgtgcactattcactcgttgcatttctcaggATGTCTCAAAAGTACTACGAATATTCACATTACAAGGAACAGGATGAACAGGGACCTCAACCAACACCCACCCCATGGACTACACACACCTTTTCTGCTGGTCT-CCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgcatagaccgaagtgtacaag Alignment from CESAR gATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAG-CAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aatggcagtaactgccacagtgtgcactattcactcgttgcatttctcaggATGTCTCAAAAGTACTACGAATATTCACATTACAAGGAACAGGATGAACAGGGACCTCAACCAACACCCACCCCATGGACTACACACACCTTTTCTGCTGG-TCTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgcatagaccgaagtgtacaag Alignment from Spaln_aa2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC aatggcagtaactgccacagtgtgcactattcactcgttgcatttctcagGATGTCTCAAAAGTACTACGAATATTCACATTACAAGGAACAGGATGAACAGGGACCTCAACCAACACCCACCCCATGGACTACACACACCTTTTCTGCTGGTCTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgcatagaccgaagtgtacaag Alignment from Spaln_nt2Genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGC-AGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aatggcagtaactgccacagtgtgcactattcactcgttgcatttctcagGATGTCTCAAAAGTACTACGAATATTCACATTACAAGGAACAGGATGAACAGGGACCTCAACCAACACCCACCCCATGGACTACACACACCTTTTCTGCTGG-TCTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgcatagaccgaagtgtacaag Alignment from Pairagon GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAG-CAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCAC aatggcagtaactgccacagtgtgcactattcactcgttgcatttctcagGATGTCTCAAAAGTACTACGAATATTCACATTACAAGGAACAGGATGAACAGGGACCTCAACCAACACCCACCCCATGGACTACACACACCTTTTCTGCTGG-TCTCCATACTAACTTTTACAGTTTCTTGCATgtaagagtgcttcaggaagcccttgtagtgcatagaccgaagtgtacaag Alignment from Exonerate_protein2genome GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC aatggcagtaactgccacagtgtgcactattcactcgttgcatttctcagGATGTCTCAAAAGTACTACGAATATTCACATTACAAGGAACAGGATGAACAGGGACCTCAACCAACACCCACCCCATGGACTACACACACCTTTTCTGCTGGTCTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgcatagaccgaagtgtacaag Alignment from Exonerate_coding2genome aatggcagtaactgccacagtgtgcactattcactcgttgcatttctcaggatgtctcaaaagtactacgaatattcacattacaaggaacaggatgaacagggacctcaaccaacacccaccccatggactacacacaccttttctgctggtctccatactaacttttacagtttcttgcatgtaagagtgcttcaggaagcccttgtagtgcatagaccgaagtgtacaag Alignment from GeneWise GATGTCCCAGAAGTACTATGAATACTCCCACTACAAGGAGCAAGATGAGCAGGGACCTCAGCAGCGCCCACCACGAGGTTCCCACGCACCCTATCTCCTGGTTTTCCAGGCCATCTTCTATAGCTTCTTCCACTTGAGCTTCGCGTGTGCCCAGCTGCCC aatggcagtaactgccacagtgtgcactattcactcgttgcatttctcagGATGTCTCAAAAGTACTACGAATATTCACATTACAAGGAACAGGATGAACAGGGACCTCAACCAACACCCACCCCATGGACTACACACACCTTTTCTGCTGGTCTCCATACTAACTTTTACAGTTTCTTGCATGTAAGAGTGCTTCAGGAAGCCCTTGTAgtgcatagaccgaagtgtacaag #### Vegfb_ID1956_4 --> 0 - 2 Original Alignment ATCCTCATGATC-CAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttacctcttagcttcttgggaacactaaggtttttatctactgcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAG-ACACAGCCAATGTGAATGCaggtgagtgacaattccaggacccatgctctggcatgtgttaagactgcatg Alignment from CESAR ATCCTCATGATC-CAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCag aagtttacctcttagcttcttgggaacactaaggtttttatctactgcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAG-ACACAGCCAATGTGAATGCaggtgagtgacaattccaggacccatgctctggcatgtgttaagactgcatg Alignment from Spaln_aa2Genome ATCCTCATGATC-CAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacactaaggtttttatctactgcagATCCTCATGATCcCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGA-CACAGCCAATGTGAATGCAGgtgagtgacaattccaggacccatgctctggcatgtgttaagactgcatg Alignment from Spaln_nt2Genome ATCCTCATGAT-CCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacactaaggtttttatctactgcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGA-CACAGCCAATGTGAATGCAGgtgagtgacaattccaggacccatgctctggcatgtgttaagactgcatg Alignment from Pairagon ATCCTCATGAT-CCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacactaaggtttttatctactgcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAG-ACACAGCCAATGTGAATGCAGgtgagtgacaattccaggacccatgctctggcatgtgttaagactgcatg Alignment from Exonerate_protein2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacactaaggtttttatctactgcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGACACAGCCAATGTGAATGCAGgtgagtgacaattccaggacccatgctctggcatgtgttaagactgcatg Alignment from Exonerate_coding2genome ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacactaaggtttttatctactgcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGACACAGCCAATGTGAATGCAGgtgagtgacaattccaggacccatgctctggcatgtgttaagactgcatg Alignment from GeneWise ATCCTCATGATCCAGTACCCGAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAG aagtttacctcttagcttcttgggaacactaaggtttttatctactgcagATCCTCATGATCCCAGTACCCAAGCAGTCAGCTGGGGGAGATGTCCCTGGAAGACACAGCCAATGTGAATGCAGgtgagtgacaattccaggacccatgctctggcatgtgttaagactgcatg #### Vldlr_ID5809_8 --> 2 - 1 Original Alignment atATCAACGAATGCCTGGTCAATAAT-GGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAg gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagatATTAAAGAATGCTTGGTAAATAATCGGTGGTTGTTCCCATATCTGCAAAGACTTAG-TATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAggtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from CESAR atATCAACGAATGCCTGGTCAATAAT-GGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAg gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagatATTAAAGAATGCTTGGTAAATAATCGGTGGTTGTTCCCATATCTGCAAAGACTTAG-TATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAggtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Spaln_aa2Genome ATATCAACGAATGCCTGGTCAATAAT-GGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTAAATAATcGGTGGTTGTTCCCATATCTGCAAAGACTTAGT-ATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Spaln_nt2Genome ATATCAACGAATGCCTGGTCAATAAT-GGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTAAATAATCGGTGGTTGTTCCCATATCTGCAAAGACTTAG-TATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Pairagon ATATCAACGAATGCCTGGTCAATAAT-GGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTAAATAATCGGTGGTTGTTCCCATATCTGCAAAGACTTAG-TATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Exonerate_protein2genome ATATCAACGAATGCCTGGTCAATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTAAATAATCGGTGGTTGTTCCCATATCTGCAAAGACTTAGTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from Exonerate_coding2genome ATATCAACGAATGCCTGGTCAATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTAAATAATCGGTGGTTGTTCCCATATCTGCAAAGACTTAGTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa Alignment from GeneWise ATATCAACGAATGCCTGGTCAATAATGGTGGCTGTTCCCATATCTGCAAAGACCTAGTTATAGGTTATGAGTGTGATTGTGCAGCTGGGTTTGAACTGATAGATAGGAAAACCTGTGGAG gggtcaatgttgactggcaattttatggccagtttggtttccgtgaacagATATTAAAGAATGCTTGGTAAATAATCGGTGGTTGTTCCCATATCTGCAAAGACTTAGTATAGGTTATGAGTGTGACTGTGCAGCTGGGTTTGAGCTCATAGATAGGAAAACCTGTGGAGgtgaggatatatacactatggacatccaaatggttatagaaaacaagcaa #### Vldlr_ID5810_9 --> 2 - 1 Original Alignment atATTGATGAATGCCAAAACCCGGGG-ATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagacATTGATGAATGCCAAAACCCAGGACATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACA-GTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAggtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from CESAR atATTGATGAATGCCAAAACCCGGGG-ATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAg aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagacATTGATGAATGCCAAAACCCAGGACATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTT-ACAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAggtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Spaln_aa2Genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCAGGACATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Spaln_nt2Genome ATATTGATGAATGCCAAAACCCGGGG-ATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCAGGACATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTAC-AGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Pairagon ATATTGATGAATGCCAAAACCCGGGG-ATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCAGGACATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTAC-AGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Exonerate_protein2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCAGGACATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from Exonerate_coding2genome ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCAGGACATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGgtaatgaagtaactgagcaataatacgggtgtggagtgtaacttactgtc Alignment from GeneWise ATATTGATGAATGCCAAAACCCGGGGATCTGCAGTCAAATTTGTATCAACTTAAAAGGCGGTTACAAGTGTGAATGTAGTCGTGGCTATCAAATGGATCTTGCCACTGGCGTGTGCAAGGCAGTAGGCAAAGAG aaatggttatagaaaacaagcaattggggtaatcctgcctggctcttcagACATTGATGAATGCCAAAACCCAGGACATCTGTGGCCAGATCTGTATCAACTTAAAAGACGGTTACAGTGCGAATGTAGTCATGGCTACCAAATGGAACTCGCCACTGGTGTGTGCAAGGCAATAGGTAATGAAgtaactgagcaataatacgggtgtggagtgtaacttactgtc #### Vldlr_ID5811_10 --> 2 - 2 Original Alignment gcAAAGAGCCGAGTCTGATCTTCACT-AATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atggcacttttcaagtaaatagacttttgacttatttctcctccctctaggcAAAGAGCCAAGCCTGATATTCACTCAATCGGAGAGACATCAGAAAGATTGGCTTAG-AAGAAAAGAGTATATCCAACTCGTAGACCAATTGAGAAACACAGTGGCTCTTGATGCAGAGATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTTaggtgggttaaatcagcctgtccagatgtctgggaagcatgcttaacggcat Alignment from CESAR gcAAAGAGCCGAGTCTGATCTTCACT-AATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag atggcacttttcaagtaaatagacttttgacttatttctcctccctctaggcAAAGAGCCAAGCCTGATATTCACTCAATCGGAGAGACATCAGAAAGATTGGCTTAG-AAGAAAAGAGTATATCCAACTCGTAGACCAATTGAGAAACACAGTGGCTCTTGATGCAGAGATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTTaggtgggttaaatcagcctgtccagatgtctgggaagcatgcttaacggcat Alignment from Spaln_aa2Genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaatagacttttgacttatttctcctccctctagGCAAAGAGCCAAGCCTGATATTCACTCAATCGGAGAGACATCAGAAAGATTGGCTTAGAAGAAAAGAGTATATCCAACTCGTAGACCAATTGAGAAACACAGTGGCTCTTGATGCAGAGATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTTAGgtgggttaaatcagcctgtccagatgtctgggaagcatgcttaacggcat Alignment from Spaln_nt2Genome GCAAAGAGCCGAGTCTGATCTTCACT-AATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaatagacttttgacttatttctcctccctctagGCAAAGAGCCAAGCCTGATATTCACTCAATCGGAGAGACATCAGAAAGATTGGCTTAGA-AGAAAAGAGTATATCCAACTCGTAGACCAATTGAGAAACACAGTGGCTCTTGATGCAGAGATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTTAGgtgggttaaatcagcctgtccagatgtctgggaagcatgcttaacggcat Alignment from Pairagon GCAAAGAGCCGAGTCTGATCTTCACT-AATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaatagacttttgacttatttctcctccctctagGCAAAGAGCCAAGCCTGATATTCACTCAATCGGAGAGACATCAGAAAGATTGGCTTAGA-AGAAAAGAGTATATCCAACTCGTAGACCAATTGAGAAACACAGTGGCTCTTGATGCAGAGATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTTAGgtgggttaaatcagcctgtccagatgtctgggaagcatgcttaacggcat Alignment from Exonerate_protein2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaatagacttttgacttatttctcctccctctagGCAAAGAGCCAAGCCTGATATTCACTCAATCGGAGAGACATCAGAAAGATTGGCTTAGAAGAAAAGAGTATATCCAACTCGTAGACCAATTGAGAAACACAGTGGCTCTTGATGCAGAGATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTTAGgtgggttaaatcagcctgtccagatgtctgggaagcatgcttaacggcat Alignment from Exonerate_coding2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaatagacttttgacttatttctcctccctctagGCAAAGAGCCAAGCCTGATATTCACTCAATCGGAGAGACATCAGAAAGATTGGCTTAGAAGAAAAGAGTATATCCAACTCGTAGACCAATTGAGAAACACAGTGGCTCTTGATGCAGAGATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTTAGgtgggttaaatcagcctgtccagatgtctgggaagcatgcttaacggcat Alignment from GeneWise GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG atggcacttttcaagtaaatagacttttgacttatttctcctccctctagGCAAAGAGCCAAGCCTGATATTCACTCAATCGGAGAGACATCAGAAAGATTGGCTTAGAAGAAAAGAGTATATCCAACTCGTAGACCAATTGAGAAACACAGTGGCTCTTGATGCAGAGATTGCAGCTCAAAAGCTATTTTGGGCTGATTTTAGCCAGCAGGCTATTTTTAGgtgggttaaatcagcctgtccagatgtctgggaagcatgcttaacggcat #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTG-CTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gtctatgcagtcaacatgcttgctctctgcctgaactgtcttgatcctagacCTGGTTAAAAGCCGTCTCTACTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAATATCGTAGGATTGTACCTCAAGTCACTAAAGTTTCTTGCTCATCCTCTTG-CCTCTCTATATTTGAGgtgagttataccatatgaccttgtataaatgaactttatagaaaaagtgg Alignment from CESAR acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTG-CTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gtctatgcagtcaacatgcttgctctctgcctgaactgtcttgatcctagacCTGGTTAAAAGCCGTCTCTACTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAATATCGTAGGATTGTACCTCAAGTCACTAAAGTTTCTTGCTCATCCTCTTG-CCTCTCTATATTTGAGgtgagttataccatatgaccttgtataaatgaactttatagaaaaagtgg Alignment from Spaln_aa2Genome CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTG-CTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tatgcagtcaacatgcttgctctctgcctgaactgtcttgatccta gACCTGGTTAAAAGCCGTCTCTACTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAATATCGTAGGATTGTAcCTCAAGTCACTAAAGTTTCTTGCTCATCCTCTTGC-CTCTCTATATTTGAGgtgagttataccatatgaccttgtataaatgaactttatagaaaaagtgg Alignment from Spaln_nt2Genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGC-TCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gtctatgcagtcaacatgcttgctctctgcctgaactgtcttgatcctagACCTGGTTAAAAGCCGTCTCTACTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAATATCGTAGGATTGTACCTCAAGTCACTAAAGTTTCTTGCTCATCCTCTTGC-CTCTCTATATTTGAGgtgagttataccatatgaccttgtataaatgaactttatagaaaaagtgg Alignment from Pairagon ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTG-CTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gtctatgcagtcaacatgcttgctctctgcctgaactgtcttgatcctagACCTGGTTAAAAGCCGTCTCTACTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAATATCGTAGGATTGTACCTCAAGTCACTAAAGTTTCTTGCTCATCCTCTTGC-CTCTCTATATTTGAGgtgagttataccatatgaccttgtataaatgaactttatagaaaaagtgg Alignment from Exonerate_protein2genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gtctatgcagtcaacatgcttgctctctgcctgaactgtcttgatcctagACCTGGTTAAAAGCCGTCTCTACTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAATATCGTAGGATTGTACCTCAAGTCACTAAAGTTTCTTGCTCATCCTCTTGCCTCTCTATATTTGAGgtgagttataccatatgaccttgtataaatgaactttatagaaaaagtgg Alignment from Exonerate_coding2genome ACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gtctatgcagtcaacatgcttgctctctgcctgaactgtcttgatcctagACCTGGTTAAAAGCCGTCTCTACTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAATATCGTAGGATTGTACCTCAAGTCACTAAAGTTTCTTGCTCATCCTCTTGCCTCTCTATATTTGAGgtgagttataccatatgaccttgtataaatgaactttatagaaaaagtgg Alignment from GeneWise TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gtctatgcagtcaacatgcttgctctctgcctgaactgtcttgatcctagAC---CTGGTTAAAAGCCGTCTCTACTGGTTAGATGCCAAGTTACACATGCTCTCTAGTGTTGACCTTAATGGTCAATATCGTAGGATTGTACCTCAAGTCACTAAAGTTTCTTGCTCATCCTCTTGCCTCTCTATATTTGAGgtgagttataccatatgaccttgtataaatgaactttatagaaaaagtgg #### Vps13a_ID4053_70 --> 1 - 0 Original Alignment tGGCGTGTTGTTCGTA-ACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAGTACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagaggtttgtttattcacaggccccaattatttcttcaattttaacagtGGGGTACTGTTTGTCCATAGAGGGAGCATTCAGACAACTTACATGTG-GTGGCAATATACGTAC---GAATTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtaagcgcacttagttccgtgtctcagttatagcacataaagccttgtgt Alignment from CESAR tGGCGTGTTGTTCGTA-ACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAGTACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagaggtttgtttattcacaggccccaattatttcttcaattttaacagtGGGGTACTGTTTGTCCATAGAGGGAGCATTCAGACAACTTACATGT-GGTGGCAATATACGTAC---GAATTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtaagcgcacttagttccgtgtctcagttatagcacataaagccttgtgt Alignment from Spaln_aa2Genome TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAGTACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagaggtttgtttattcacaggccccaattatttcttcaattttaacagTGGGGTACTGTTTGTCCATAGAGGGAGCATTCAGACAACTTACATGTGGTGGCAATATACGTAC---GAATTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtaagcgcacttagttccgtgtctcagttatagcacataaagccttgtgt Alignment from Spaln_nt2Genome TGGCGTGTTGTTCGTA-ACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAGTACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagaggtttgtttattcacaggccccaattatttcttcaattttaacagTGGGGTACTGTTTGTCCATAGAGGGAGCATTCAGACAACTTACATGTG-GTGGCAATATACGT---ACGAATTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtaagcgcacttagttccgtgtctcagttatagcacataaagccttgtgt Alignment from Pairagon TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAGTACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagaggtttgtttattcacaggccccaattatttcttcaattttaacagtggggtactgtttgtccatag--------------------AGGGAGCATTCAGACAACTTACATGTG-GTGGCAATATACGT---ACGAATTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtaagcgcacttagttccgtgtctcagttatagcacataaagccttgtgt Alignment from Exonerate_protein2genome TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAGTACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagaggtttgtttattcacaggccccaattatttcttcaattttaacagTGGGGTACTGTTTGTCCATAGAGGGAGCATTCAGACAACTTACATGTGGTGGCAATATACGTAC---GAATTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtaagcgcacttagttccgtgtctcagttatagcacataaagccttgtgt Alignment from Exonerate_coding2genome ttagaggtttgtttattcacaggccccaattatttcttcaattttaacagtggggtactgtttgtccatagagggagcattcagacaacttacatgtggtggcaatatacgtacgaatttactaaagagccattcattgtccgtgggagaagactgcgtattgaggctaaagtaagcgcacttagttccgtgtctcagttatagcacataaagccttgtgt Alignment from GeneWise TGGCGTGTTGTTCGTAACAAAGGGAACATTTGGACAGCTTACATGTGAGTGGCAGTACACTTTTGATGAATTCACCAAAGAGCCGTTCATTGTCCATGGGAGAAGACTGCGCATTGAAGCCAAG ttagaggtttgtttattcacaggccccaattatttcttcaattttaacagTGGGGTACTGTTTGTCCATAGAGGGAGCATTCAGACAACTTACATGTGGTGGCAATATACGTAC---GAATTTACTAAAGAGCCATTCATTGTCCGTGGGAGAAGACTGCGTATTGAGGCTAAAgtaagcgcacttagttccgtgtctcagttatagcacataaagccttgtgt #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAG-CCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttataggtGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAG-GAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from CESAR gtGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAG-CCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttataggtGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAG-GAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Spaln_aa2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAA---GGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCCaGCTGGACTAAGAGAGGGCATCACCCGAGGAGGAAAGGTTTGGTCTCTGTATgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Spaln_nt2Genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGG-AAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Pairagon GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCT-GCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGG-AAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Exonerate_protein2genome GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from Exonerate_coding2genome acaccagtgaggaaaaggttttatctgattaattttcttcctttttataggtgggctagctagtgctgcctctaaactgactagcgctatgtcgaaaggagtagcagccatgaccatggatgaagactaccagcaggaaagaaaagaagcaatgaataagcggcccagctggactaagagagggcatcacccgaggaggaaaggtttggtctctgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata Alignment from GeneWise GTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT acaccagtgaggaaaaggttttatctgattaattttcttcctttttatagGTGGGCTAGCTAGTGCTGCCTCTAAACTGACTAGCGCTATGTCGAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGGAAAGAAAAGAAGCAATGAATAAGCGGCCCAGCTGGACTAAGAGAGGGCATCACCCGAGGAGGAAAGGTTTGGTCTCTgtatgtcctcactgtgtcctgaattacatagaaggtctgttgcattcata #### Vps13a_ID4059_64 --> 0 - 1 Original Alignment GGGGCTATCCAGGGTCCTGAA-GAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg tgacagtggtgtcaccccagattttcataactcggtgatcgtctctttagGGGGCTATCCAAGGTCCTGAGCGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCAC-GATTGGTGGAGCTGTTggtaagtataacaggactagtaatgcaaatatcatgtaacaccagtgagga Alignment from CESAR GGGGCTATCCAGGGTCCTGAA-GAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg tgacagtggtgtcaccccagattttcataactcggtgatcgtctctttagGGGGCTATCCAAGGTCCTGAGCGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCA-CGATTGGTGGAGCTGTTggtaagtataacaggactagtaatgcaaatatcatgtaacaccagtgagga Alignment from Spaln_aa2Genome GGGGCTATCCAGGGTCCTGAA-GAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCA---CTAGTTGGTGGAGCCGTTG tgacagtggtgtcaccccagattttcataactcggtgatcgtctctttagGGGGCTATCCAAGGTCCTGAGcGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGATTGGTGGAGCTGTTGGTAAgtataacaggactagtaatgcaaatatcatgtaacaccagtgagga Alignment from Spaln_nt2Genome GGGGCTATCCAGGGTCCTGAA-GAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tgacagtggtgtcaccccagattttcataactcggtgatcgtctctttagGGGGCTATCCAAGGTCCTGAGCGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGA-TTGGTGGAGCTGTTGgtaagtataacaggactagtaatgcaaatatcatgtaacaccagtgagga Alignment from Pairagon GGGGCTATCCAGGGTCCTGAA-GAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tgacagtggtgtcaccccagattttcataactcggtgatcgtctctttagGGGGCTATCCAAGGTCCTGAGCGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGA-TTGGTGGAGCTGTTGgtaagtataacaggactagtaatgcaaatatcatgtaacaccagtgagga Alignment from Exonerate_protein2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tgacagtggtgtcaccccagattttcataactcggtgatcgtctctttagGGGGCTATCCAAGGTCCTGAGCGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGATTGGTGGAGCTGTTGgtaagtataacaggactagtaatgcaaatatcatgtaacaccagtgagga Alignment from Exonerate_coding2genome tgacagtggtgtcaccccagattttcataactcggtgatcgtctctttagggggctatccaaggtcctgagcgaatttgtagcaggaatggcattaggattaaaagcacgattggtggagctgttggtaagtataacaggactagtaatgcaaatatcatgtaacaccagtgagga Alignment from GeneWise GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG tgacagtggtgtcaccccagattttcataactcggtgatcgtctctttagGGGGCTATCCAAGGTCCTGAGCGAATTTGTAGCAGGAATGGCATTAGGATTAAAAGCACGATTGGTGGAGCTGTTGgtaagtataacaggactagtaatgcaaatatcatgtaacaccagtgagga #### Vps13a_ID4068_55 --> 1 - 0 Original Alignment tTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGG-TGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagtACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGCTGGAAACCTATG---ATCAAGCACACAGTCAAGTTAG-GAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from CESAR tTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGG-TGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagtACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGCTGGAAACCTATG---ATCAAGCACACAGTCAAGTTA-GGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Spaln_aa2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGCTGGAAACCTATGATCAAGCACACAGT---CAAGTTAGGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Spaln_nt2Genome TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGG-TGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGCTGGAAACCTATGA---TCAAGCACACAGTCAAGTTAG-GAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Pairagon TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGG-TGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGCTGGAAACCTATGA---TCAAGCACACAGTCAAGTTAG-GAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Exonerate_protein2genome cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagtactgatgtggtctgggaggcaaagccaaaggagaagactaggctggaaacctatgatcaagcacacagtcaagttaggaaggggtttagggcatacatggaggcctcaccgttggaggacaaggtggtggagttggacaacatcccagtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from Exonerate_coding2genome cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagtactgatgtggtctgggaggcaaagccaaaggagaagactaggctggaaacctatgatcaagcacacagtcaagttaggaaggggtttagggcatacatggaggcctcaccgttggaggacaaggtggtggagttggacaacatcccagtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt Alignment from GeneWise TTCTGATGTGGTTTGGGAGGCAAAACCAAAGAAGAAGGCCAGGTGGAAGCCCATGAGTGTGAAGCACACAGAGAAGCTGGAGAAGGAGTTCAGGGAGTACACAGAGGCCTCGCCCTTGGAGGACAAAGTGGTCGAGTTGGACAACATTCCG cacctgtcaggattttctgtgcacatattttaactctgatacatttgcagTACTGATGTGGTCTGGGAGGCAAAGCCAAAGGAGAAGACTAGGCTGGAAACCTATGATCAAGCACACAGTCAA---GTTAGGAAGGGGTTTAGGGCATACATGGAGGCCTCACCGTTGGAGGACAAGGTGGTGGAGTTGGACAACATCCCAgtgagttctatcttgtgatttatgtacaatacttaagtaatgatcttctt #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGT-CTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg aggtcgtgtgtaaatgatctctgagacccactttttggctttatttgcagcaCTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTCTTGAAAATTCTCATCCAGGATCAGAAACAGA-TGTATCAGAAATTAAAATTGAAggtgaggatatatatttcctgtttaaggatagacaaaattcaaaaggcagc Alignment from CESAR ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAG-ATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg aggtcgtgtgtaaatgatctctgagacccactttttggctttatttgcagcaCTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTCTTGAAAATTCTCATCCAGGATCAGAAAC-AGATGTATCAGAAATTAAAATTGAAggtgaggatatatatttcctgtttaaggatagacaaaattcaaaaggcagc Alignment from Spaln_aa2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcgtgtgtaaatgatctctgagacccactttttggctttatttgcagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTCTTGAAAATTCTCATCCAGGATCAGAAACAGATGTATCAGAAATTAAAATTGAAGgtgaggatatatatttcctgtttaaggatagacaaaattcaaaaggcagc Alignment from Spaln_nt2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTT-ATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcgtgtgtaaatgatctctgagacccactttttggctttatttgcagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTCTTGAAAATTCTCATCCAGGATCAGAAAC-AGATGTATCAGAAATTAAAATTGAAGgtgaggatatatatttcctgtttaaggatagacaaaattcaaaaggcagc Alignment from Pairagon CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTC-TACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcgtgtgtaaatgatctctgagacccactttttggctttatttgcagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTCTTGAAAATTCTCATCCAGGATCAGAAAC-AGATGTATCAGAAATTAAAATTGAAGgtgaggatatatatttcctgtttaaggatagacaaaattcaaaaggcagc Alignment from Exonerate_protein2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcgtgtgtaaatgatctctgagacccactttttggctttatttgcagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTCTTGAAAATTCTCATCCAGGATCAGAAACAGATGTATCAGAAATTAAAATTGAAGgtgaggatatatatttcctgtttaaggatagacaaaattcaaaaggcagc Alignment from Exonerate_coding2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcgtgtgtaaatgatctctgagacccactttttggctttatttgcagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTCTTGAAAATTCTCATCCAGGATCAGAAACAGATGTATCAGAAATTAAAATTGAAGgtgaggatatatatttcctgtttaaggatagacaaaattcaaaaggcagc Alignment from GeneWise CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG aggtcgtgtgtaaatgatctctgagacccactttttggctttatttgcagCACTAAAGGTACCTATAAATGAAGACATTATTACATTGCAGCTTGTGGCAGAATTATCATGTCTTGAAAATTCTCATCCAGGATCAGAAACAGATGTATCAGAAATTAAAATTGAAGgtgaggatatatatttcctgtttaaggatagacaaaattcaaaaggcagc #### Vps13a_ID4119_4 --> 2 - 1 Original Alignment gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAA-CCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa cattgctagttactgacaggaccaaccactccctctttctttttcctcaggtAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATACTCAACCCTGTTGGAGCCGTTCTGGAAGAAATCTTTTTAC-CATAATACCTTCTTCTagtgagctacttaaagtagctcaaagctttagcttttccccaggtctagtt Alignment from CESAR gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAA-CCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa cattgctagttactgacaggaccaaccactccctctttctttttcctcaggtAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATACTCAACCCTGTTGGAGCCGTTCTGGAAGAAATCTTTTTA-CCATAATACCTTCTTCTagtgagctacttaaagtagctcaaagctttagcttttccccaggtctagtt Alignment from Spaln_aa2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cattgctagttactgacaggaccaaccactccctctttctttttcctcagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATACTCAACCCTGTTGGAGCCGTTCTGGAAGAAATCTTTTTACCATAATACCTTCTTCTAgtgagctacttaaagtagctcaaagctttagcttttccccaggtctagtt Alignment from Spaln_nt2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCA-GTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cattgctagttactgacaggaccaaccactccctctttctttttcctcagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATACTCAACCCTGTTGGAGCCGTTCTGGAAGAAATCTTTTTAC-CATAATACCTTCTTCTAgtgagctacttaaagtagctcaaagctttagcttttccccaggtctagtt Alignment from Pairagon GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCA-GTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cattgctagttactgacaggaccaaccactccctctttctttttcctcagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATACTCAACCCTGTTGGAGCCGTTCTGGAAGAAATCTTTTTAC-CATAATACCTTCTTCTAgtgagctacttaaagtagctcaaagctttagcttttccccaggtctagtt Alignment from Exonerate_protein2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cattgctagttactgacaggaccaaccactccctctttctttttcctcagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATACTCAACCCTGTTGGAGCCGTTCTGGAAGAAATCTTTTTACCATAATACCTTCTTCTAgtgagctacttaaagtagctcaaagctttagcttttccccaggtctagtt Alignment from Exonerate_coding2genome cattgctagttactgacaggaccaaccactccctctttctttttcctcaggtagccttagacttaaaatcccatggaaaaacctttatactcaaccctgttggagccgttctggaagaaatctttttaccataataccttcttctagtgagctacttaaagtagctcaaagctttagcttttccccaggtctagtt Alignment from GeneWise GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA cattgctagttactgacaggaccaaccactccctctttctttttcctcagGTAGCCTTAGACTTAAAATCCCATGGAAAAACCTTTATACTCAACCCTGTTGGAGCCGTTCTGGAAGAAATCTTTTTACCATAATACCTTCTTCTAgtgagctacttaaagtagctcaaagctttagcttttccccaggtctagtt #### Vwce_ID2953_8 --> 2 - 0 Original Alignment ctTTCCCGAAGGCCGTTCTGGCCCCATCTGCCATCCTGCAGCCCCGACAGCATCCTGCTAAGATGTCCCTGCTCCTCCCTGAGGCAGGCCGGCCTGCCCTGTCCCCAGGACACAGCCCTCCTCCAGGGGCCCCAGGATACCCCACTGGAGTTAGAACAATCAGTCAGCCATCTACCACCCAGGTCCTACCCACATTCTTTCCCACACAGTTGATATCCACTCCAGTGCCAAGTTCCTCCCCACTGGGGACCCTTGGACCCCCCTCACTCCTCCAGGGGGCTGTAGGGACCCCTTCCTCACCTAGGGGTCCTGAAAGCCCAAAG-CTGGGAGCAGGGTCCTCTTCCTGTTGGCACCTGGGAGCCACGTATGAATCAGGCAGCCGCTGGAACCAGCCCGGATGTTCTCAGTGCTTGTGCCAG agtgcctgcaagctttccccactgcctttgtgtgtgtgtatcattttcagctTTCCCAAAAGCTGTTCTGGCACCATCAGCAATCTTACAACCCCGATTGCATCCAGCCACAATGTCCTTGCTCCTTCCTGAAGCAGGGCAGCCTGCACTCTCCCCAGGACACAGTCCCCCACCAGGAGCACCAGGCTATCCTACTGGGGTTGGAACAATTAGCCAGCCATCTAATACACCTGTCCTACCTGCATACTTTCCAACCCAGCTGGTCTCTACCCCAGTGCCAAGTACATCCCCACTGGGGACCCTTGTACCCCCTTTACTTCTCCAGGGAACTGTTGGGACCCCATCATCACCCAGGGGTCCAGAAAGTCCAGAGCCTGGGTGCAGGGTCCTCTTCCTGCTGGCACTTGGGTGTTACAT-CAAATCAGGCAGTCACTGGAACCAGCCTGGATGTTCTCAGTGCTTATGCCAGgtgggttggtgtggaggtccaatgactccacaagtgaatattctagccat Alignment from CESAR ctTTCCCGAAGGCCGTTCTGGCCCCATCTGCCATCCTGCAGCCCCGACAGCATCCTGCTAAGATGTCCCTGCTCCTCCCTGAGGCAGGCCGGCCTGCCCTGTCCCCAGGACACAGCCCTCCTCCAGGGGCCCCAGGATACCCCACTGGAGTTAGAACAATCAGTCAGCCATCTACCACCCAGGTCCTACCCACATTCTTTCCCACACAGTTGATATCCACTCCAGTGCCAAGTTCCTCCCCACTGGGGACCCTTGGACCCCCCTCACTCCTCCAGGGGGCTGTAGGGACCCCTTCCTCACCTAGGGGTCCTGAAAGCCCAAAG-CTGGGAGCAGGGTCCTCTTCCTGTTGGCACCTGGGAGCCACGTATGAATCAGGCAGCCGCTGGAACCAGCCCGGATGTTCTCAGTGCTTGTGCCAG agtgcctgcaagctttccccactgcctttgtgtgtgtgtatcattttcagctTTCCCAAAAGCTGTTCTGGCACCATCAGCAATCTTACAACCCCGATTGCATCCAGCCACAATGTCCTTGCTCCTTCCTGAAGCAGGGCAGCCTGCACTCTCCCCAGGACACAGTCCCCCACCAGGAGCACCAGGCTATCCTACTGGGGTTGGAACAATTAGCCAGCCATCTAATACACCTGTCCTACCTGCATACTTTCCAACCCAGCTGGTCTCTACCCCAGTGCCAAGTACATCCCCACTGGGGACCCTTGTACCCCCTTTACTTCTCCAGGGAACTGTTGGGACCCCATCATCACCCAGGGGTCCAGAAAGTCCAGAGCCTGGGTGCAGGGTCCTCTTCCTGCTGGCACTTGGGTGTTACA-TCAAATCAGGCAGTCACTGGAACCAGCCTGGATGTTCTCAGTGCTTATGCCAGgtgggttggtgtggaggtccaatgactccacaagtgaatattctagccat Alignment from Spaln_aa2Genome CTTTCCCGAAGGCCGTTCTGGCCCCATCTGCCATCCTGCAGCCCCGACAGCATCCTGCTAAGATGTCCCTGCTCCTCCCTGAGGCAGGCCGGCCTGCCCTGTCCCCAGGACACAGCCCTCCTCCAGGGGCCCCAGGATACCCCACTGGAGTTAGAACAATCAGTCAGCCATCTACCACCCAGGTCCTACCCACATTCTTTCCCACACAGTTGATATCCACTCCAGTGCCAAGTTCCTCCCCACTGGGGACCCTTGGACCCCCCTCACTCCTCCAGGGGGCTGTAGGGACCCCTTCCTCACCTAGGGGTCCTGAAAGCCCAAAGCTGGGAGCAGGGTCCTCTTCCTGTTGGCACCTGGGAGCCACGTATGAATCAGGCAGCCGCTGGAACCAGCCCGGATGTTCTCAGTGCTTGTGCCAG agtgcctgcaagctttccccactgcctttgtgtgtgtgtatcattttcagCTTTCCCAAAAGCTGTTCTGGCACCATCAGCAATCTTACAACCCCGATTGCATCCAGCCACAATGTCCTTGCTCCTTCCTGAAGCAGGGCAGCCTGCACTCTCCCCAGGACACAGTCCCCCACCAGGAGCACCAGGCTATCCTACTGGGGTTGGAACAATTAGCCAGCCATCTAATACACCTGTCCTACCTGCATACTTTCCAACCCAGCTGGTCTCTACCCCAGTGCCAAGTACATCCCCACTGGGGACCCTTGTACCCCCTTTACTTCTCCAGGGAACTGTTGGGACCCCATCATCACCCAGGGGTCCAGAAAGTCCAGAGCCTGGGTGCAGGGTCCTCTTCCTGCTGGCACTTGGGTGTTACATCAAATCAGGCAGTCACTGGAACCAGCCTGGATGTTCTCAGTGCTTATGCCAGgtgggttggtgtggaggtccaatgactccacaagtgaatattctagccat Alignment from Spaln_nt2Genome CTTTCCCGAAGGCCGTTCTGGCCCCATCTGCCATCCTGCAGCCCCGACAGCATCCTGCTAAGATGTCCCTGCTCCTCCCTGAGGCAGGCCGGCCTGCCCTGTCCCCAGGACACAGCCCTCCTCCAGGGGCCCCAGGATACCCCACTGGAGTTAGAACAATCAGTCAGCCATCTACCACCCAGGTCCTACCCACATTCTTTCCCACACAGTTGATATCCACTCCAGTGCCAAGTTCCTCCCCACTGGGGACCCTTGGACCCCCCTCACTCCTCCAGGGGGCTGTAGGGACCCCTTCCTCACCTAGGGGTCCTGAAAGCCCAAAGC-TGGGAGCAGGGTCCTCTTCCTGTTGGCACCTGGGAGCCACGTATGAATCAGGCAGCCGCTGGAACCAGCCCGGATGTTCTCAGTGCTTGTGCCAG agtgcctgcaagctttccccactgcctttgtgtgtgtgtatcattttcagCTTTCCCAAAAGCTGTTCTGGCACCATCAGCAATCTTACAACCCCGATTGCATCCAGCCACAATGTCCTTGCTCCTTCCTGAAGCAGGGCAGCCTGCACTCTCCCCAGGACACAGTCCCCCACCAGGAGCACCAGGCTATCCTACTGGGGTTGGAACAATTAGCCAGCCATCTAATACACCTGTCCTACCTGCATACTTTCCAACCCAGCTGGTCTCTACCCCAGTGCCAAGTACATCCCCACTGGGGACCCTTGTACCCCCTTTACTTCTCCAGGGAACTGTTGGGACCCCATCATCACCCAGGGGTCCAGAAAGTCCAGAGCCTGGGTGCAGGGTCCTCTTCCTGCTGGCACTTGGGTGTTACAT-CAAATCAGGCAGTCACTGGAACCAGCCTGGATGTTCTCAGTGCTTATGCCAGgtgggttggtgtggaggtccaatgactccacaagtgaatattctagccat Alignment from Pairagon CTTTCCCGAAGGCCGTTCTGGCCCCATCTGCCATCCTGCAGCCCCGACAGCATCCTGCTAAGATGTCCCTGCTCCTCCCTGAGGCAGGCCGGCCTGCCCTGTCCCCAGGACACAGCCCTCCTCCAGGGGCCCCAGGATACCCCACTGGAGTTAGAACAATCAGTCAGCCATCTACCACCCAGGTCCTACCCACATTCTTTCCCACACAGTTGATATCCACTCCAGTGCCAAGTTCCTCCCCACTGGGGACCCTTGGACCCCCCTCACTCCTCCAGGGGGCTGTAGGGACCCCTTCCTCACCTAGGGGTCCTGAAAGCCCAAAG-CTGGGAGCAGGGTCCTCTTCCTGTTGGCACCTGGGAGCCACGTATG--------AATCAGGCAGCCGCTGGAACCAGCCCGGATGTTCTCAGTGCTTGTGCCAG agtgcctgcaagctttccccactgcctttgtgtgtgtgtatcattttcagCTTTCCCAAAAGCTGTTCTGGCACCATCAGCAATCTTACAACCCCGATTGCATCCAGCCACAATGTCCTTGCTCCTTCCTGAAGCAGGGCAGCCTGCACTCTCCCCAGGACACAGTCCCCCACCAGGAGCACCAGGCTATCCTACTGGGGTTGGAACAATTAGCCAGCCATCTAATACACCTGTCCTACCTGCATACTTTCCAACCCAGCTGGTCTCTACCCCAGTGCCAAGTACATCCCCACTGGGGACCCTTGTACCCCCTTTACTTCTCCAGGGAACTGTTGGGACCCCATCATCACCCAGGGGTCCAGAAAGTCCAGAGCCTGGGTGCAGGGTCCTCTTCCTGCTGGCACTTGGG---------TGTTACATCAAATCAGGCAGTCACTGGAACCAGCCTGGATGTTCTCAGTGCTTATGCCAGgtgggttggtgtggaggtccaatgactccacaagtgaatattctagccat Alignment from Exonerate_protein2genome CTTTCCCGAAGGCCGTTCTGGCCCCATCTGCCATCCTGCAGCCCCGACAGCATCCTGCTAAGATGTCCCTGCTCCTCCCTGAGGCAGGCCGGCCTGCCCTGTCCCCAGGACACAGCCCTCCTCCAGGGGCCCCAGGATACCCCACTGGAGTTAGAACAATCAGTCAGCCATCTACCACCCAGGTCCTACCCACATTCTTTCCCACACAGTTGATATCCACTCCAGTGCCAAGTTCCTCCCCACTGGGGACCCTTGGACCCCCCTCACTCCTCCAGGGGGCTGTAGGGACCCCTTCCTCACCTAGGGGTCCTGAAAGCCCAAAG-CTGGGAGCAGGGTCCTCTTCCTGTTGGCACCTGGGAGCCACG--TATGAATCAGGCAGCCGCTGGAACCAGCCCGGATGTTCTCAGTGCTTGTGCCAG agtgcctgcaagctttccccactgcctttgtgtgtgtgtatcattttcagCTTTCCCAAAAGCTGTTCTGGCACCATCAGCAATCTTACAACCCCGATTGCATCCAGCCACAATGTCCTTGCTCCTTCCTGAAGCAGGGCAGCCTGCACTCTCCCCAGGACACAGTCCCCCACCAGGAGCACCAGGCTATCCTACTGGGGTTGGAACAATTAGCCAGCCATCTAATACACCTGTCCTACCTGCATACTTTCCAACCCAGCTGGTCTCTACCCCAGTGCCAAGTACATCCCCACTGGGGACCCTTGTACCCCCTTTACTTCTCCAGGGAACTGTTGGGACCCCATCATCACCCAGGGGTCCAGAAAGTCCAGAGCCTGGGTGCAGGGTCCTCTTCCTGCTGGCACTTGGGTGTTACATC---AAATCAGGCAGTCACTGGAACCAGCCTGGATGTTCTCAGTGCTTATGCCAGgtgggttggtgtggaggtccaatgactccacaagtgaatattctagccat Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise CTTTCCCGAAGGCCGTTCTGGCCCCATCTGCCATCCTGCAGCCCCGACAGCATCCTGCTAAGATGTCCCTGCTCCTCCCTGAGGCAGGCCGGCCTGCCCTGTCCCCAGGACACAGCCCTCCTCCAGGGGCCCCAGGATACCCCACTGGAGTTAGAACAATCAGTCAGCCATCTACCACCCAGGTCCTACCCACATTCTTTCCCACACAGTTGATATCCACTCCAGTGCCAAGTTCCTCCCCACTGGGGACCCTTGGACCCCCCTCACTCCTCCAGGGGGCTGTAGGGACCCCTTCCTCACCTAGGGGTCCTGAAAGCCCAAAGCTGGGAGCAGGGTCCTCTTCCTGTTGGCACCTGGGAGCCACGTATGAATCAGGCAGCCGCTGGAACCAGCCCGGATGTTCTCAGTGCTTGTGCCAG agtgcctgcaagctttccccactgcctttgtgtgtgtgtatcattttcagCTTTCCCAAAAGCTGTTCTGGCACCATCAGCAATCTTACAACCCCGATTGCATCCAGCCACAATGTCCTTGCTCCTTCCTGAAGCAGGGCAGCCTGCACTCTCCCCAGGACACAGTCCCCCACCAGGAGCACCAGGCTATCCTACTGGGGTTGGAACAATTAGCCAGCCATCTAATACACCTGTCCTACCTGCATACTTTCCAACCCAGCTGGTCTCTACCCCAGTGCCAAGTACATCCCCACTGGGGACCCTTGTACCCCCTTTACTTCTCCAGGGAACTGTTGGGACCCCATCATCACCCAGGGGTCCAGAAAGTCCAGAGCCTGGGTGCAGGGTCCTCTTCCTGCTGGCACTTGGGTGTTACATCAAATCAGGCAGTCACTGGAACCAGCCTGGATGTTCTCAGTGCTTATGCCAGgtgggttggtgtggaggtccaatgactccacaagtgaatattctagccat #### Vwce_ID2964_18 --> 2 - 0 Original Alignment acTGTAACTTCGAAGGG-AGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcttagactcccctgccctttccttctccatcttgcctccctagacTGTAATTTTGAAGGGCAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAG-CGATGAGCCCTGTACCCGATGCATCTGCCAGgcaggagagagagggaaggagcttacagtttgccctcatggacttacaga Alignment from CESAR acTGTAACTTCGAAGGG-AGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcttagactcccctgccctttccttctccatcttgcctccctagacTGTAATTTTGAAGGGCAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTA-GCGATGAGCCCTGTACCCGATGCATCTGCCAGgcaggagagagagggaaggagcttacagtttgccctcatggacttacaga Alignment from Spaln_aa2Genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcttagactcccctgccctttccttctccatcttgcctccctagACTGTAATTTTGAAGGGCAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGCGATGAGCCCTGTACCCGATGCATCTGCCAGgcaggagagagagggaaggagcttacagtttgccctcatggacttacaga Alignment from Spaln_nt2Genome ACTGTAACTTCGAAGGG-AGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcttagactcccctgccctttccttctccatcttgcctccctagACTGTAATTTTGAAGGGCAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAG-CGATGAGCCCTGTACCCGATGCATCTGCCAGgcaggagagagagggaaggagcttacagtttgccctcatggacttacaga Alignment from Pairagon ACTGTAACTTCGAAGGG-AGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcttagactcccctgccctttccttctccatcttgcctccctagACTGTAATTTTGAAGGGCAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAG-CGATGAGCCCTGTACCCGATGCATCTGCCAGgcaggagagagagggaaggagcttacagtttgccctcatggacttacaga Alignment from Exonerate_protein2genome ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAG actgcctcttagactcccctgccctttccttctccatcttgcctccctagACTGTAATTTTGAAGGGCAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGCGATGAGCCCTGTACCCGATGCATCTGCCAGgcaggagagagagggaaggagcttacagtttgccctcatggacttacaga Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise ACTGTAACTTCGAAGGGAGAAAGGTAGTGAATGGTCAGGTGTTCACCTTGGATGATGAGCCCTGTACCCGGTGCATCTGCCAGCTGGGAGAG---------------GTG actgcctcttagactcccctgccctttccttctccatcttgcctccctagACTGTAATTTTGAAGGGCAGAAAGGTAGTCAATGGTCAGGTTTTCACCTTAGCGATGAGCCCTGTACCCGATGCATCTGCCAGGCAGGAGAGAGAGGGAAGGAGCTTACAgtttgccctcatggacttacaga #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment ggGTGAACCTTCAGCGGAAACATGCGGCA-AATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aatttcatatattcagccacctcattatatgtttcttcttctttccccaggaGTGAACCTTCAGTGTAAACACACAGCCCAATTTTGCTCCATTGGGACAA---CGGAGGGAGC-GGCTGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtaagaaggccatgtttctgtaagaaacacaacagttgtagaattttcaa Alignment from CESAR ggGTGAACCTTCAGCGGAAACATGCGGCA-AATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aatttcatatattcagccacctcattatatgtttcttcttctttccccaggaGTGAACCTTCAGTGTAAACACACAGCCCAATTTTGCTCCATTGGGACAA---CGGAGGGAG-CGGCTGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtaagaaggccatgtttctgtaagaaacacaacagttgtagaattttcaa Alignment from Spaln_aa2Genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aatttcatatattcagccacctcattatatgtttcttcttctttccccagGAGTGAACCTTCAGTGTAAACACACAGCCCAATTTTGCTCCATTGGG---ACAACGGAGGGAGCGGCTGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtaagaaggccatgtttctgtaagaaacacaacagttgtagaattttcaa Alignment from Spaln_nt2Genome GGGTGAACCTTCAGCGGAAACATGCGGCA-AATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aatttcatatattcagccacctcattatatgtttcttcttctttccccagGAGTGAACCTTCAGTGTAAACACACAGCCCAATTTTGCTCCATTGGGACA---ACGGAGGGA-GCGGCTGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtaagaaggccatgtttctgtaagaaacacaacagttgtagaattttcaa Alignment from Pairagon GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCC---------------------GCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aatttcatatattcagccacctcattatatgtttcttcttctttccccagGAGTGAACCTTCAGTGTAAACAC-----------------------ACAGCCCAATTTTGCTCCATTGGGACAACGGAGGGAG-CGGCTGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtaagaaggccatgtttctgtaagaaacacaacagttgtagaattttcaa Alignment from Exonerate_protein2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aatttcatatattcagccacctcattatatgtttcttcttctttccccagGAGTGAACCTTCAGTGTAAACACACAGCCCAATTTTGCTCCATTGGG---ACAACGGAGGGAGCGGCTGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtaagaaggccatgtttctgtaagaaacacaacagttgtagaattttcaa Alignment from Exonerate_coding2genome GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aatttcatatattcagccacctcattatatgtttcttcttctttccccagGAGTGAACCTTCAGTGTAAACACACAGCCCAATTTTGCTCCATTGGG---ACAACGGAGGGAGCGGCTGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtaagaaggccatgtttctgtaagaaacacaacagttgtagaattttcaa Alignment from GeneWise GGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA aatttcatatattcagccacctcattatatgtttcttcttctttccccagGAGTGAACCTTCAGTGTAAACACACAGCCCAATTTTGCTCCATTGGGACA---ACGGAGGGAGCGGCTGTGAATGCTCTGTGCTGGGGTACTGGCAGTGAGACCCAAgtaagaaggccatgtttctgtaagaaacacaacagttgtagaattttcaa #### Wdr74_ID2315_5 --> 0 - 0 Original Alignment CTCTTGGAACTGAAGGTGGGTCCTGGGGTGTGTAGGATGCGCCAAGATCCCACACATACACATGTGGTT-GCCACATGTGGGAAAGAAAATGCTTTGAAAGTATGGGACCTACAGGGGTCTGAGGAGCCTGTATTCAGGGCCAAAAAT agtctataatagactacaagtctataatgcttccgatgcctccaccctagCTTTTAGAACTCAAAGCAGGTCTAGGGGTGGGTAGAATGCACCAAGACTGCACACATACACATGTTGTTCATTACATGCGGGAAGGAGAATGCCCTGAAAG-ATGGGACTTACAGGGATCTGAGGAGCCTGTGTTTAGGGCCAAAAATgtgaggctaggtaaagagaagtaatatatcatcaccaggtatctttatta Alignment from CESAR CTCTTGGAACTGAAGGTGGGTCCTGGGGTGTGTAGGATGCGCCAAGATCCCACACATACACATGTGGTT-GCCACATGTGGGAAAGAAAATGCTTTGAAAGTATGGGACCTACAGGGGTCTGAGGAGCCTGTATTCAGGGCCAAAAAT agtctataatagactacaagtctataatgcttccgatgcctccaccctagCTTTTAGAACTCAAAGCAGGTCTAGGGGTGGGTAGAATGCACCAAGACTGCACACATACACATGTTGTTCATTACATGCGGGAAGGAGAATGCCCTGAAA-GATGGGACTTACAGGGATCTGAGGAGCCTGTGTTTAGGGCCAAAAATgtgaggctaggtaaagagaagtaatatatcatcaccaggtatctttatta Alignment from Spaln_aa2Genome CTCTTGGAACTGAAGGTGGGTCCTGGGGTGTGTAGGATGCGCCAAGATCCCACACATACACATGTGGTT-GCCACATGTGGGAAAGAAAATGCTTTGAAAGTATGGGACCTACAGGGGTCTGAGGAGCCTGTATTCAGGGCCAAAAAT agtctataatagactacaagtctataatgcttccgatgcctccaccctagCTTTTAGAACTCAAAGCAGGTCTAGGGGTGGGTAGAATGCACCAAGACTGCACACATACACATGTTGTTcATTACATGCGGGAAGGAGAATGCCCTGAAAGA-TGGGACTTACAGGGATCTGAGGAGCCTGTGTTTAGGGCCAAAAATgtgaggctaggtaaagagaagtaatatatcatcaccaggtatctttatta Alignment from Spaln_nt2Genome CTCTTGGAACTGAAGGTGGGTCCTGGGGTGTGTAGGATGCGCCAAGATCCCACACATACACATGTGGTTGCC-ACATGTGGGAAAGAAAATGCTTTGAAAGTATGGGACCTACAGGGGTCTGAGGAGCCTGTATTCAGGGCCAAAAAT agtctataatagactacaagtctataatgcttccgatgcctccaccctagCTTTTAGAACTCAAAGCAGGTCTAGGGGTGGGTAGAATGCACCAAGACTGCACACATACACATGTTGTTCATTACATGCGGGAAGGAGAATGCCCTGAAAG-ATGGGACTTACAGGGATCTGAGGAGCCTGTGTTTAGGGCCAAAAATgtgaggctaggtaaagagaagtaatatatcatcaccaggtatctttatta Alignment from Pairagon CTCTTGGAACTGAAGGTGGGTCCTGGGGTGTGTAGGATGCGCCAAGATCCCACACATACACATGTGGTT-GCCACATGTGGGAAAGAAAATGCTTTGAAAGTATGGGACCTACAGGGGTCTGAGGAGCCTGTATTCAGGGCCAAAAAT agtctataatagactacaagtctataatgcttccgatgcctccaccctagCTTTTAGAACTCAAAGCAGGTCTAGGGGTGGGTAGAATGCACCAAGACTGCACACATACACATGTTGTTCATTACATGCGGGAAGGAGAATGCCCTGAAAG-ATGGGACTTACAGGGATCTGAGGAGCCTGTGTTTAGGGCCAAAAATgtgaggctaggtaaagagaagtaatatatcatcaccaggtatctttatta Alignment from Exonerate_protein2genome CTCTTGGAACTGAAGGTGGGTCCTGGGGTGTGTAGGATGCGCCAAGATCCCACACATACACATGTGGTTGCCACATGTGGGAAAGAAAATGCTTTGAAAGTATGGGACCTACAGGGGTCTGAGGAGCCTGTATTCAGGGCCAAAAAT agtctataatagactacaagtctataatgcttccgatgcctccaccctagCTTTTAGAACTCAAAGCAGGTCTAGGGGTGGGTAGAATGCACCAAGACTGCACACATACACATGTTGTTCATTACATGCGGGAAGGAGAATGCCCTGAAAGATGGGACTTACAGGGATCTGAGGAGCCTGTGTTTAGGGCCAAAAATgtgaggctaggtaaagagaagtaatatatcatcaccaggtatctttatta Alignment from Exonerate_coding2genome CTCTTGGAACTGAAGGTGGGTCCTGGGGTGTGTAGGATGCGCCAAGATCCCACACATACACATGTGGTTGCCACATGTGGGAAAGAAAATGCTTTGAAAGTATGGGACCTACAGGGGTCTGAGGAGCCTGTATTCAGGGCCAAAAAT agtctataatagactacaagtctataatgcttccgatgcctccaccctagCTTTTAGAACTCAAAGCAGGTCTAGGGGTGGGTAGAATGCACCAAGACTGCACACATACACATGTTGTTCATTACATGCGGGAAGGAGAATGCCCTGAAAGATGGGACTTACAGGGATCTGAGGAGCCTGTGTTTAGGGCCAAAAATgtgaggctaggtaaagagaagtaatatatcatcaccaggtatctttatta Alignment from GeneWise CTCTTGGAACTGAAGGTGGGTCCTGGGGTGTGTAGGATGCGCCAAGATCCCACACATACACATGTGGTTGCCACATGTGGGAAAGAAAATGCTTTGAAAGTATGGGACCTACAGGGGTCTGAGGAGCCTGTATTCAGGGCCAAAAAT agtctataatagactacaagtctataatgcttccgatgcctccaccctagCTTTTAGAACTCAAAGCAGGTCTAGGGGTGGGTAGAATGCACCAAGACTGCACACATACACATGTTGTTCATTACATGCGGGAAGGAGAATGCCCTGAAAGATGGGACTTACAGGGATCTGAGGAGCCTGTGTTTAGGGCCAAAAATgtgaggctaggtaaagagaagtaatatatcatcaccaggtatctttatta #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAG-CCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaatgaatgtagtctgccaaatttccccctaatcctttcacagggAGGCTAGTTGGCTGTCTGAAGAGCCTCGCAGGTGGTGTTCGTGGGTTG---TGCCATCCTTCAAAGCCCCCTAGTGGCTTCATGTGGCCTGGACAGAA-ACTGAGGATGCACAGGATACGCAACCTGTGTGGTGTGGAGCACAAGgtaaggttgagcaaacgtagcagctgtcctagtgatcaggttatggcagt Alignment from CESAR ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAG-CCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaatgaatgtagtctgccaaatttccccctaatcctttcacagggAGGCTAGTTGGCTGTCTGAAGAGCCTCGCAGGTGGTGTTCGTGGGTTG---TGCCATCCTTCAAAGCCCCCTAGTGGCTTCATGTGGCCTGGACAGA-AACTGAGGATGCACAGGATACGCAACCTGTGTGGTGTGGAGCACAAGgtaaggttgagcaaacgtagcagctgtcctagtgatcaggttatggcagt Alignment from Spaln_aa2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCC-CTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaatgaatgtagtctgccaaatttccccctaatcctttcacagGGAGGCTAGTTGGCTGTCTGAAGAGCCTCGCAGGTGGTGTTCGTGGGTTG---TGCCATCCTTCAAAGCCCcCTAGTGGCTTCATGTGGCCTGGACAGAAA-CTGAGGATGCACAGGATACGCAACCTGTGTGGTGTGGAGCACAAGgtaaggttgagcaaacgtagcagctgtcctagtgatcaggttatggcagt Alignment from Spaln_nt2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCC-TATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaatgaatgtagtctgccaaatttccccctaatcctttcacagGGAGGCTAGTTGGCTGTCTGAAGAGCCTCGCAGGTGGTGTTCGTGGGTT---GTGCCATCCTTCAAAGCCCCCTAGTGGCTTCATGTGGCCTGGACAGAAAC-TGAGGATGCACAGGATACGCAACCTGTGTGGTGTGGAGCACAAGgtaaggttgagcaaacgtagcagctgtcctagtgatcaggttatggcagt Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAG-CCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaatgaatgtagtctgccaaatttccccctaatcctttcacagGGAGGCTAGTTGGCTGTCTGAAGAGCCTCGCAGGTGGTGTTCGTGGGTT---GTGCCATCCTTCAAAGCCCCCTAGTGGCTTCATGTGGCCTGGACAGAAAC-TGAGGATGCACAGGATACGCAACCTGTGTGGTGTGGAGCACAAGgtaaggttgagcaaacgtagcagctgtcctagtgatcaggttatggcagt Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaatgaatgtagtctgccaaatttccccctaatcctttcacagGGAGGCTAGTTGGCTGTCTGAAGAGCCTCGCAGGTGGTGTTCGTGGGTTG---TGCCATCCTTCAAAGCCCCCTAGTGGCTTCATGTGGCCTGGACAGAAACTGAGGATGCACAGGATACGCAACCTGTGTGGTGTGGAGCACAAGgtaaggttgagcaaacgtagcagctgtcctagtgatcaggttatggcagt Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaatgaatgtagtctgccaaatttccccctaatcctttcacagGGAGGCTAGTTGGCTGTCTGAAGAGCCTCGCAGGTGGTGTTCGTGGGTTG---TGCCATCCTTCAAAGCCCCCTAGTGGCTTCATGTGGCCTGGACAGAAACTGAGGATGCACAGGATACGCAACCTGTGTGGTGTGGAGCACAAGgtaaggttgagcaaacgtagcagctgtcctagtgatcaggttatggcagt Alignment from GeneWise TCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG ttcttgagaatgaatgtagtctgccaaatttccccctaatcctttcacagggagGCTAGTTGGCTGTCTGAAGAGCCTCGCAGGTGGTGTTCGTGGGTTG---TGCCATCCTTCAAAGCCCCCTAGTGGCTTCATGTGGCCTGGACAGAAACTGAGGATGCACAGGATACGCAACCTGTGTGGTGTGGAGCACAAGgtaaggttgagcaaacgtagcagctgtcctagtgatcaggttatggcagt #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTC-GAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggacttccatgccctatagactgcgtctctcttcttctccagggGGGCAAGGTTGGCTCTGGGGTGGATGCAGTGATAATGCAGGCTTTGGAGAGGCAATCTCCAAGCAATTTGTTGACGTTCTCCAAGTCAGGGCAGGATGCCCGAGCAGCTATAAACTTGC-CAACAATGAAGCCGGCCACAAGgtaggttcaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from CESAR ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTC-GAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggacttccatgccctatagactgcgtctctcttcttctccagggGGGCAAGGTTGGCTCTGGGGTGGATGCAGTGATAATGCAGGCTTTGGAGAGGCAATCTCCAAGCAATTTGTTGACGTTCTCCAAGTCAGGGCAGGATGCCCGAGCAGCTATAAACTTG-CCAACAATGAAGCCGGCCACAAGgtaggttcaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Spaln_aa2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggacttccatgccctatagactgcgtctctcttcttctccagGGGGGCAAGGTTGGCTCTGGGGTGGATGCAGTGATAATGCAGGCTTTGGAGAGGCAATCTCCAAGCAATTTGTTGACGTTCTCCAAGTCAGGGCAGGATGCCCGAGCAGCTATAAACTTGCCAACAATGAAGCCGGCCACAAGgtaggttcaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Spaln_nt2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGA-GACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggacttccatgccctatagactgcgtctctcttcttctccagGGGGGCAAGGTTGGCTCTGGGGTGGATGCAGTGATAATGCAGGCTTTGGAGAGGCAATCTCCAAGCAATTTGTTGACGTTCTCCAAGTCAGGGCAGGATGCCCGAGCAGCTATAAACTTGC-CAACAATGAAGCCGGCCACAAGgtaggttcaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Pairagon GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCT-CGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggacttccatgccctatagactgcgtctctcttcttctccagGGGGGCAAGGTTGGCTCTGGGGTGGATGCAGTGATAATGCAGGCTTTGGAGAGGCAATCTCCAAGCAATTTGTTGACGTTCTCCAAGTCAGGGCAGGATGCCCGAGCAGCTATAAACTTGC-CAACAATGAAGCCGGCCACAAGgtaggttcaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Exonerate_protein2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggacttccatgccctatagactgcgtctctcttcttctccagGGGGGCAAGGTTGGCTCTGGGGTGGATGCAGTGATAATGCAGGCTTTGGAGAGGCAATCTCCAAGCAATTTGTTGACGTTCTCCAAGTCAGGGCAGGATGCCCGAGCAGCTATAAACTTGCCAACAATGAAGCCGGCCACAAGgtaggttcaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from Exonerate_coding2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggacttccatgccctatagactgcgtctctcttcttctccagGGGGGCAAGGTTGGCTCTGGGGTGGATGCAGTGATAATGCAGGCTTTGGAGAGGCAATCTCCAAGCAATTTGTTGACGTTCTCCAAGTCAGGGCAGGATGCCCGAGCAGCTATAAACTTGCCAACAATGAAGCCGGCCACAAGgtaggttcaatagtggttgatggcatgcatcatgagacctgtcattgtag Alignment from GeneWise GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG ccataccaggacttccatgccctatagactgcgtctctcttcttctccagGGGGGCAAGGTTGGCTCTGGGGTGGATGCAGTGATAATGCAGGCTTTGGAGAGGCAATCTCCAAGCAATTTGTTGACGTTCTCCAAGTCAGGGCAGGATGCCCGAGCAGCTATAAACTTGCCAACAATGAAGCCGGCCACAAGgtaggttcaatagtggttgatggcatgcatcatgagacctgtcattgtag #### Yif1a_ID832_4 --> 0 - 1 Original Alignment AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATCGTACCTCTTCCTCCTCGAAAAGATCTCAATACCC-TGACCTTTATATCCCAagtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from CESAR AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCa aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATCGTACCTCTTCCTCCTCGAAAAGATCTCAATA-CCCTGACCTTTATATCCCAagtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Spaln_aa2Genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATCGTACCTCTTCCTCCTCGAAAAGATCTCAATACCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Spaln_nt2Genome AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATCGTACCTCTTCCTCCTCGAAAAGATCTCAAT-ACCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Pairagon AACTGGAAAATGCAATACAGCCATGAT-GTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATCGTACCTCTTCCTCCTCGAAAAGATCTCAATA-CCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Exonerate_protein2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATCGTACCTCTTCCTCCTCGAAAAGATCTCAATACCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from Exonerate_coding2genome AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATCGTACCTCTTCCTCCTCGAAAAGATCTCAATACCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac Alignment from GeneWise AACTGGAAAATGCAATACAGCCATGATGTGCCTCTGCCCCCGCGGAAAGATCTCAATGCCCCTGACCTCTATATCCCCA aaggcaaataacttaattgcccatactggaaggcattctcttcattttagAACTGGAAAATGCAGTATAGCCAGGATCGTACCTCTTCCTCCTCGAAAAGATCTCAATACCCTGACCTTTATATCCCAAgtaagagtttaccagacaggtgggaatgagtcgctgtaccaatgatgaac #### Zdhhc16_ID8345_2 --> 0 - 0 Original Alignment GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATC-GTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG ttggactatggacccctactctgacaaccattcatctctgttctctttagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTTGTTCAATTGTGGCCATTGCGTATCTATGTGTTCTACCGCTACTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCAGTTTCTTTATAGCCACTGGAATCTCATTCTCATTCGTCTCCCAGCATTATCAAGCCATCGCTACTCCTCACA-ATATCCACCTCAGgtgagcgccccacagtgcaagtttcactaaagacaatgctttcttgctgg Alignment from CESAR GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATC-GTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG ttggactatggacccctactctgacaaccattcatctctgttctctttagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTTGTTCAATTGTGGCCATTGCGTATCTATGTGTTCTACCGCTACTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCAGTTTCTTTATAGCCACTGGAATCTCATTCTCATTCGTCTCCCAGCATTATCAAGCCATCGCTACTCCTCAC-AATATCCACCTCAGgtgagcgccccacagtgcaagtttcactaaagacaatgctttcttgctgg Alignment from Spaln_aa2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG ttggactatggacccctactctgacaaccattcatctctgttctctttagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTTGTTCAATTGTGGCCATTGCGTATCTATGTGTTCTACCGCTACTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCAGTTTCTTTATAGCCACTGGAATCTCATTCTCATTCGTCTCCCAGCATTATCAAGCCATCGCTACTCCTCACAATATCCACCTCAGgtgagcgccccacagtgcaagtttcactaaagacaatgctttcttgctgg Alignment from Spaln_nt2Genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCAT-CGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG ttggactatggacccctactctgacaaccattcatctctgttctctttagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTTGTTCAATTGTGGCCATTGCGTATCTATGTGTTCTACCGCTACTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCAGTTTCTTTATAGCCACTGGAATCTCATTCTCATTCGTCTCCCAGCATTATCAAGCCATCGCTACTCCT-CACAATATCCACCTCAGgtgagcgccccacagtgcaagtttcactaaagacaatgctttcttgctgg Alignment from Pairagon GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCA-TCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG ttggactatggacccctactctgacaaccattcatctctgttctctttagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTTGTTCAATTGTGGCCATTGCGTATCTATGTGTTCTACCGCTACTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCAGTTTCTTTATAGCCACTGGAATCTCATTCTCATTCGTCTCCCAGCATTATCAAGCCATCGCTACTCCTCAC-AATATCCACCTCAGgtgagcgccccacagtgcaagtttcactaaagacaatgctttcttgctgg Alignment from Exonerate_protein2genome GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG ttggactatggacccctactctgacaaccattcatctctgttctctttagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTTGTTCAATTGTGGCCATTGCGTATCTATGTGTTCTACCGCTACTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCAGTTTCTTTATAGCCACTGGAATCTCATTCTCATTCGTCTCCCAGCATTATCAAGCCATCGCTACTCCTCACAATATCCACCTCAGgtgagcgccccacagtgcaagtttcactaaagacaatgctttcttgctgg Alignment from Exonerate_coding2genome ttggactatggacccctactctgacaaccattcatctctgttctctttaggtgtttgtagtgctagtgattgtgctgccttgttcaattgtggccattgcgtatctatgtgttctaccgctactccttcgaacttactcagtaccccaactctgctggcagtttctttatagccactggaatctcattctcattcgtctcccagcattatcaagccatcgctactcctcacaatatccacctcaggtgagcgccccacagtgcaagtttcactaaagacaatgctttcttgctgg Alignment from GeneWise GTGTTTGTGGTGCTGGTGATCGTGCTGACCGGGTCCATCGTGGCCATTGCTTATCTGTGTGTCCTGCCCCTCATCCTCCGAACCTACTCGGTACCACGGCTCTGCTGGCATTTCTTCTATAGTCACTGGAATCTGATCCTCATCGTCTTCCATTACTACCAGGCCATCACCACTCCTCCTGGATACCCACCCCAG ttggactatggacccctactctgacaaccattcatctctgttctctttagGTGTTTGTAGTGCTAGTGATTGTGCTGCCTTGTTCAATTGTGGCCATTGCGTATCTATGTGTTCTACCGCTACTCCTTCGAACTTACTCAGTACCCCAACTCTGCTGGCAGTTTCTTTATAGCCACTGGAATCTCATTCTCATTCGTCTCCCAGCATTATCAAGCCATCGCTACTCCTCACAATATCCACCTCAGgtgagcgccccacagtgcaagtttcactaaagacaatgctttcttgctgg #### Zfyve27_ID8429_11 --> 0 - 1 Original Alignment CGGAGCTGCAGCAACTGTGGGAACAGC-TTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCCTTCTGCTCTCACTGCTGCTCATTCAAGGTACCCC-CTCCTCCATGGGTGCCACAagtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from CESAR CGGAGCTGCAGCAACTGTGGGAACAGC-TTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAg gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCCTTCTGCTCTCACTGCTGCTCATTCAAGGTACCC-CCTCCTCCATGGGTGCCACAagtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Spaln_aa2Genome CGGAGCTGCAGCAACTGTGGGAACAGC-TTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCcTTCTGCTCTCACTGCTGCTCATTCAAGGTACCCCC-TCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Spaln_nt2Genome CGGAGCTGCAGCAACTGTGGGAACAGC-TTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCCTTCTGCTCTCACTGCTGCTCATTCAAGGTACCC-CCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Pairagon CGGAGCTGCAGCAACTGTGGGAACAG-CTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCCTTCTGCTCTCACTGCTGCTCATTCAAGGTACCCC-CTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Exonerate_protein2genome CGGAGCTGCAGCAACTGTGGGAACAGC-TTCTGCTCGCGGTGTTGCTCCTTCAAGGTG--CCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCCTTCTGCTCTCACTGCTGCTCATTCAAGGTACCCCC---TCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from Exonerate_coding2genome CGGAGCTGCAGCAACTGTGGGAACAGC-TTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCCTTCTGCTCTCACTGCTGCTCATTCAAGGTA-CCCCCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt Alignment from GeneWise CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAG gtctatatggtccacaggtcacaccccttgcctgtgtttcctttctgtagCGAAGCTGCACTAACTGTGCAAATAGCCTTCTGCTCTCACTGCTGCTCATTCAAGGTACCCCCTCCTCCATGGGTGCCACAAgtgaggggaaagttttgacaatcaagcacaatctgaaaatgtccaatgtt ####