#### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg taatgaaggccacccttacttgtctggtctgagcagtgccttctcaacagCTCACCAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGTCTGGTGCTTATCATTGCACCCTGGAACTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATT------ggtaagagccttaggggttccaagtttcactagtctgatctatctctgtct Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg taatgaaggccacccttacttgtctggtctgagcagtgccttctcaacagCTCACCAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGTCTGGTGCTTATCATTGCACCCTGGAACTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATT------ggtaagagccttaggggttccaagtttcactagtctgatctatctctgtct Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccacccttacttgtctggtctgagcagtgccttctcaacagCTCACCAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGTCTGGTGCTTATCATTGCACCCTGGAACTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGGTAAGAgccttaggggttccaagtttcactagtctgatctatctctgtct Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTG taatgaaggccacccttacttgtctggtctgagcagtgccttctcaacagCTCACCAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGTCTGGTGCTTATCATTGCACCCTGGAACTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGgtaagagccttaggggttccaagtttcactagtctgatctatctctgtct Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTG taatgaaggccacccttacttgtctggtctgagcagtgccttctcaacagCTCACCAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGTCTGGTGCTTATCATTGCACCCTGGAACTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGgtaagagccttaggggttccaagtttcactagtctgatctatctctgtct Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccacccttacttgtctggtctgagcagtgccttctcaacagCTCACCAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGTCTGGTGCTTATCATTGCACCCTGGAACTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATT------Ggtaagagccttaggggttccaagtttcactagtctgatctatctctgtct Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG taatgaaggccacccttacttgtctggtctgagcagtgccttctcaacagCTCACCAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGTCTGGTGCTTATCATTGCACCCTGGAACTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATT------Ggtaagagccttaggggttccaagtttcactagtctgatctatctctgtct Alignment from GeneWise CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTG taatgaaggccacccttacttgtctggtctgagcagtgccttctcaacagCTCACCAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGTCTGGTGCTTATCATTGCACCCTGGAACTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGgtaagagccttaggggttccaagtttcactagtctgatctatctctgtct #### 1700055N04Rik_ID227_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG ggcttgaggagtgtgcaatcatcaatctgcttctctctcctcctggtcaggaAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTAGAT---gtaagaggtgatatgaggccctgtgaggtcggagcttgattttagcttaa Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG ggcttgaggagtgtgcaatcatcaatctgcttctctctcctcctggtcaggaAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTAGAT---gtaagaggtgatatgaggccctgtgaggtcggagcttgattttagct Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGAC ggcttgaggagtgtgcaatcatcaatctgcttctctctcctcctggtcagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTAGATgtaagaggtgatatgaggccctgtgaggtcggagcttgattttagcttaa Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGAC ggcttgaggagtgtgcaatcatcaatctgcttctctctcctcctggtcagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTAGATgtaagaggtgatatgaggccctgtgaggtcggagcttgattttagcttaa Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGAC ggcttgaggagtgtgcaatcatcaatctgcttctctctcctcctggtcagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTAGATgtaagaggtgatatgaggccctgtgaggtcggagcttgattttagcttaa Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG ggcttgaggagtgtgcaatcatcaatctgcttctctctcctcctggtcagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTAGAT---gtaagaggtgatatgaggccctgtgaggtcggagcttgattttagct Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG ggcttgaggagtgtgcaatcatcaatctgcttctctctcctcctggtcagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTAGAT---gtaagaggtgatatgaggccctgtgaggtcggagcttgattttagct Alignment from GeneWise GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGAC ggcttgaggagtgtgcaatcatcaatctgcttctctctcctcctggtcagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTAGATgtaagaggtgatatgaggccctgtgaggtcggagcttgattttagcttaa #### 1700055N04Rik_ID228_6 --> 0 - 1 Original Alignment AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA---------------g aaagagcttgccccctgagttgtctccatgtgcaaatctatcttttccagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACGGCATCCCTTGCGGGGggtaagaagagccctgtcgagaaccaggggtagagcgatataatataatat Alignment from CESAR AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA---------------g aaagagcttgccccctgagttgtctccatgtgcaaatctatcttttccagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACGGCATCCCTTGCGGGGggtaagaagagccctgtcgagaaccaggggtagagcgatataatataatat Alignment from Spaln_aa2Genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA---------------G aaagagcttgccccctgagttgtctccatgtgcaaatctatcttttccagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACGGCATCCCTTGCGGGGGgtaagaagagccctgtcgagaaccaggggtagagcgatataatataatat Alignment from Spaln_nt2Genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aaagagcttgccccctgagttgtctccatgtgcaaatctatcttttccagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCAC-Ggcatcccttgcggggggtaagaagagccctgtcgagaaccaggggtagagcgatataatataatat Alignment from Pairagon AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG--------------- aaagagcttgccccctgagttgtctccatgtgcaaatctatcttttccagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACGGCATCCCTTGCGGGGGgtaagaagagccctgtcgagaaccaggggtagagcgatataatataatat Alignment from Exonerate_protein2genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCAC aaagagcttgccccctgagttgtctccatgtgcaaatctatcttttccagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACggcatcccttgcggggggtaagaagagccctgtcgagaaccaggggtagagcgatataatataatat Alignment from Exonerate_coding2genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCAC aaagagcttgccccctgagttgtctccatgtgcaaatctatcttttccagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACggcatcccttgcggggggtaagaagagccctgtcgagaaccaggggtagagcgatataatataatat Alignment from GeneWise AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACA------------GGA- aaagagcttgccccctgagttgtctccatgtgcaaatctatcttttccagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCACGGCATCCCTTGCGGGGGgtaagaagagccctgtcgagaaccaggggtagagcgatataatataatat #### 1810009A15Rik_ID2453_2 --> 0 - 2 Original Alignment GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGG---------gc aggtgggaggcctaggccttacatgcatacttgtttctgttgctttccagGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGGCGCAGACAAgcgtaagaacaagttggatccacttcttaccagatatagtggatctctaagt Alignment from CESAR GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGG---------gc aggtgggaggcctaggccttacatgcatacttgtttctgttgctttccagGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGGCGCAGACAAgcgtaagaacaagttggatccacttcttaccagatatagtggatctctaagt Alignment from Spaln_aa2Genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCG aggtgggaggcctaggccttacatgcatacttgtttctgttgctttccagGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGgcgcagacaagcgtaagaacaagttggatccacttcttaccagatatagtggatctctaagt Alignment from Spaln_nt2Genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGG---------GC aggtgggaggcctaggccttacatgcatacttgtttctgttgctttccagGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGGCGCAGACAAGCgtaagaacaagttggatccacttcttaccagatatagtggatctctaagt Alignment from Pairagon GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGG---------GC aggtgggaggcctaggccttacatgcatacttgtttctgttgctttccagGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGGCGCAGACAAGCgtaagaacaagttggatccacttcttaccagatatagtggatctctaagt Alignment from Exonerate_protein2genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGC aggtgggaggcctaggccttacatgcatacttgtttctgttgctttccagGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGGCGcagacaagcgtaagaacaagttggatccacttcttaccagatatagtggatctctaagt Alignment from Exonerate_coding2genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGC aggtgggaggcctaggccttacatgcatacttgtttctgttgctttccagGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGGCGcagacaagcgtaagaacaagttggatccacttcttaccagatatagtggatctctaagt Alignment from GeneWise GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGCGTCCAGT-- aggtgggaggcctaggccttacatgcatacttgtttctgttgctttccagGAGCTAAAAAAGAAGTTGTCTAAGCGCCGCAGGGTATTGAGTAAGGATTGGCAGAGGAAACGCCAGGTGGTTGGGGCTGTGATAGATGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGGCGCAGACAAGCgtaagaacaagttggatccacttcttaccagatatagtggatctctaagt #### 2010012O05Rik_ID10004_3 --> 0 - 2 Original Alignment AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTAC------ca tgagtgcatcaggaagagtaccagtatgccctcttcttctcacctggcagAGTTTAAGGAAGATGGCAATAATAACAACGCACCTACAGTACAGCTGGcagtaactatgcttggtcaagtgggaggtggatggaggtggaaggggcattg Alignment from CESAR AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTAC------ca tgagtgcatcaggaagagtaccagtatgccctcttcttctcacctggcagAGTTTAAGGAAGATGGCAATAATAACAACGCACCTACAGTACAGCTGGcagtaactatgcttggtcaagtgggaggtggatggaggtggaaggggcattg Alignment from Spaln_aa2Genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAG----- tgagtgcatcaggaagagtaccagtatgccctcttcttctcacctggcagAGTTTAAGGAAGATGGCAATAATAACAACGCACCTACAGTACAGCTGGCAgtaactatgcttggtcaagtgggaggtggatggaggtggaaggggcattg Alignment from Spaln_nt2Genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTAC------CA tgagtgcatcaggaagagtaccagtatgccctcttcttctcacctggcagAGTTTAAGGAAGATGGCAATAATAACAACGCACCTACAGTACAGCTGGCAgtaactatgcttggtcaagtgggaggtggatggaggtggaaggggcattg Alignment from Pairagon AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTAC------CA tgagtgcatcaggaagagtaccagtatgccctcttcttctcacctggcagAGTTTAAGGAAGATGGCAATAATAACAACGCACCTACAGTACAGCTGGCAgtaactatgcttggtcaagtgggaggtggatggaggtggaaggggcattg Alignment from Exonerate_protein2genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAG---CAAGAAGCTATTCAGAAGAA tgagtgcatcaggaagagtaccagtatgccctcttcttctcacctggcagAGTTTAAGGAAGATGGCAATAATAACAACGCACCTACAGTACAGCTGGCAGTAACTATGCTTGGTCAAgtgggaggtggatggaggtggaaggggcattg Alignment from Exonerate_coding2genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAG---CAAGAAGCTATTCAGAAGAA tgagtgcatcaggaagagtaccagtatgccctcttcttctcacctggcagAGTTTAAGGAAGATGGCAATAATAACAACGCACCTACAGTACAGCTGGCAGTAACTATGCTTGGTCAAgtgggaggtggatggaggtggaaggggcattg Alignment from GeneWise AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAGCAAGA tgagtgcatcaggaagagtaccagtatgccctcttcttctcacctggcagAGTTTAAGGAAGATGGCAATAATAACAACGCACCTACAGTACAGCTGGCAgtaactatgcttggtcaagtgggaggtggatggaggtggaaggggcattg #### 9130011E15Rik_ID9675_6 --> 0 - 0 Original Alignment GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG gggcgaaatatagacgctggtcgatgaagattttgctctttgtctcgcag------------------------ACTATCCTGGAATATGTAATGATCAACAGTATATTTGAAGCCATTTTACAGgtaagcttgacttcctaaaggcttttcctttatatgtagtccatcactta Alignment from CESAR GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG ataatttttacgacaaataaacaaggaagattttgctctttgtctcgcag------------------------ACTATCCTGGAATATGTAATGATCAACAGTATATTTGAAGCCATTTTACAGgtaagcttgacttcctaaaggcttttcctttatatgtagtccatcactta Alignment from Spaln_aa2Genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG gggcgaaatatagacgctggtcgatgaagATTTTGCTCTTTGTCTCGCAG---ACTATCCTGGAATATGTAATGATCAACAGTATATTTGAAGCCATTTTACAGgtaagcttgacttcctaaaggcttttcctttatatgtagtccatcactta Alignment from Spaln_nt2Genome -CTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG gggcgaaatatagacgctggtcgatgaagattttgctctttgtctcgcagACTATCCTGGAATATGTAATGATCAACAGTATATTTGAAGCCATTTTACAGgtaagcttgacttcctaaaggcttttcctttatatgtagtccatcactta Alignment from Pairagon GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG gggcgaaatatagacgctggtcgatgaagattttgctctttgtctcgcag------------------------ACTATCCTGGAATATGTAATGATCAACAGTATATTTGAAGCCATTTTACAGgtaagcttgacttcctaaaggcttttcctttatatgtagtccatcactta Alignment from Exonerate_protein2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG gggcgaaatatagacgctggtcgatgaagATTTTGCTCTTTGTCTCGCAG---ACTATCCTGGAATATGTAATGATCAACAGTATATTTGAAGCCATTTTACAGgtaagcttgacttcctaaaggcttttcctttatatgtagtccatcactta Alignment from Exonerate_coding2genome GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG gggcgaaatatagacgctggtcgatgaagATTTTGCTCTTTGTCTCGCAG---ACTATCCTGGAATATGTAATGATCAACAGTATATTTGAAGCCATTTTACAGgtaagcttgacttcctaaaggcttttcctttatatgtagtccatcactta Alignment from GeneWise GTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAG gggcgaaatatagacgctggtcgatgaagATTTTGCTCTTTGTCTCGCAG---ACTATCCTGGAATATGTAATGATCAACAGTATATTTGAAGCCATTTTACAGgtaagcttgacttcctaaaggcttttcctttatatgtagtccatcactta #### A630007B06Rik_ID12189_8 --> 0 - 0 Original Alignment ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG------ ggattgtgccatctatgtcccttggcaacctttgattcttcccactgcagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGACGAATTACAGACATTGAGAACAAAGGGCGGGgtacaaaaccctcattcctaactcatatggggtggacactgttagtttag Alignment from CESAR ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG------ ggattgtgccatctatgtcccttggcaacctttgattcttcccactgcagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGACGAATTACAGACATTGAGAACAAAGGGCGGGgtacaaaaccctcattcctaactcatatggggtggacactgttagtttag Alignment from Spaln_aa2Genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG------ ggattgtgccatctatgtcccttggcaacctttgattcttcccactgcagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGACGAATTACAGACATTGAGAACAAAGGGCGGGgtacaaaaccctcattcctaactcatatggggtggacactgttagtttag Alignment from Spaln_nt2Genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG- ggattgtgccatctatgtcccttggcaacctttgattcttcccactgcagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGACGAATTACAGACATTGAGAACAAAGGgcggggtacaaaaccctcattcctaactcatatggggtggacactgttagtttag Alignment from Pairagon ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG------ ggattgtgccatctatgtcccttggcaacctttgattcttcccactgcagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGACGAATTACAGACATTGAGAACAAAGGGCGGGgtacaaaaccctcattcctaactcatatggggtggacactgttagtttag Alignment from Exonerate_protein2genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG ggattgtgccatctatgtcccttggcaacctttgattcttcccactgcagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGACGAATTACAGACATTGAGAACAAAGggcggggtacaaaaccctcattcctaactcatatggggtggacactgttagtttag Alignment from Exonerate_coding2genome ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG ggattgtgccatctatgtcccttggcaacctttgattcttcccactgcagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGACGAATTACAGACATTGAGAACAAAGggcggggtacaaaaccctcattcctaactcatatggggtggacactgttagtttag Alignment from GeneWise ATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAG------ ggattgtgccatctatgtcccttggcaacctttgattcttcccactgcagATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTCAAGAGGACATTTAAGGAGGGCATGGACGAATTACAGACATTGAGAACAAAGGGCGGGgtacaaaaccctcattcctaactcatatggggtggacactgttagtttag #### AI846148_ID2143_3 --> 2 - 1 Original Alignment ag---TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg aagagagagctgtgaaggctcccaagctcctgattgccccaactccccagaaGACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTGAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCCCTTGAACTGCCCagtgagacaccaaggaaccttaggtttggtaggacatcctatggtaaggga Alignment from CESAR agTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg gagaagagagagctgtgaaggctcccaacctgattgccccaactccccagaagacTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTGAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCCCTTGAACTGCCCagtgagacaccaaggaaccttaggtttggtaggacatcctatggtaaggga Alignment from Spaln_aa2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagagagagctgtgaaggctcccaagctcctgattgccccaactccccagaagACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTGAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgagacaccaaggaaccttaggtttggtaggacatcctatggtaaggga Alignment from Spaln_nt2Genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagagagagctgtgaaggctcccaagctcctgattgccccaactccccagaagACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTGAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgagacaccaaggaaccttaggtttggtaggacatcctatggtaaggga Alignment from Pairagon AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagagagagctgtgaaggctcccaagctcctgattgccccaactccccagaagACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTGAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgagacaccaaggaaccttaggtttggtaggacatcctatggtaaggga Alignment from Exonerate_protein2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagagagagctgtgaaggctcccaagctcctgattgccccaactccccagaagACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTGAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgagacaccaaggaaccttaggtttggtaggacatcctatggtaaggga Alignment from Exonerate_coding2genome AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagagagagctgtgaaggctcccaagctcctgattgccccaactccccagaagACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTGAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgagacaccaaggaaccttaggtttggtaggacatcctatggtaaggga Alignment from GeneWise AGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagagagagctgtgaaggctcccaagctcctgattgccccaactccccagaagACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTGCTTTTAGATTCTGAAGACAACCCATCTCTTCCCACTAGGCTCCGACCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgagacaccaaggaaccttaggtttggtaggacatcctatggtaaggga #### Abcc2_ID8821_5 --> 0 - 0 Original Alignment ---GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgttaaatgtcctcactgatgtttgaagAATGATAGCAAGTCTAACATGACCTATTCCTGTCTGTTCTTTATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCATTTTCAGAATCAAGTGACTCAACACATgtgagtctctacagccattcattgcacacgttgttatacctgcaggatgc Alignment from CESAR ---GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgttaaatgtcctcactgatgtttgaagAATGATAGCAAGTCTAACATGACCTATTCCTGTCTGTTCTTTATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCATTTTCAGAATCAAGTGACTCAACACATgtgagtctctacagccattcattgcacacgttgttatacctgcaggatgc Alignment from Spaln_aa2Genome GATAGCAAGTCCAAC---ATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgttaaatgtcctcactgatgtttgaagAATGATAGCAAGTCTAACATGACCTATTCCTGTCTGTTCTTTATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCATTTTCAGAATCAAGTGACTCAACACATgtgagtctctacagccattcattgcacacgttgttatacctgcaggatgc Alignment from Spaln_nt2Genome ---GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgttaaatgtcctcactgatgtttgaagAATGATAGCAAGTCTAACATGACCTATTCCTGTCTGTTCTTTATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCATTTTCAGAATCAAGTGACTCAACACATgtgagtctctacagccattcattgcacacgttgttatacctgcaggatgc Alignment from Pairagon ---GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgttaaatgtcctcactgatgtttgaagAATGATAGCAAGTCTAACATGACCTATTCCTGTCTGTTCTTTATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCATTTTCAGAATCAAGTGACTCAACACATgtgagtctctacagccattcattgcacacgttgttatacctgcaggatgc Alignment from Exonerate_protein2genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgttaaatgtcctcactgatgtttgaagaatGATAGCAAGTCTAACATGACCTATTCCTGTCTGTTCTTTATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCATTTTCAGAATCAAGTGACTCAACACATgtgagtctctacagccattcattgcacacgttgttatacctgcaggatgc Alignment from Exonerate_coding2genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgttaaatgtcctcactgatgtttgaagaatGATAGCAAGTCTAACATGACCTATTCCTGTCTGTTCTTTATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCATTTTCAGAATCAAGTGACTCAACACATgtgagtctctacagccattcattgcacacgttgttatacctgcaggatgc Alignment from GeneWise ---GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgttaaatgtcctcactgatgtttgaagAATGATAGCAAGTCTAACATGACCTATTCCTGTCTGTTCTTTATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCATTTTCAGAATCAAGTGACTCAACACATgtgagtctctacagccattcattgcacacgttgttatacctgcaggatgc #### Acsl5_ID11602_7 --> 0 - 0 Original Alignment AATATAGGCAAAGAGAACTTCAAAAAACCAGTG tttaatgactctttcttgtagacgatttcacaacttctcctccccttcag---------AAAGAGAACTTCAAGAAACCAGTGgtaagtagtctgcctgctaagtttgagtttttttagaccctctgtggttc Alignment from CESAR AATATAGGCAAAGAGAACTTCAAAAAACCAGTG ctgtccatctttaatgactctttcttttcacaacttctcctccccttcag---------AAAGAGAACTTCAAGAAACCAGTGgtaagtagtctgcctgctaagtttgagtttttttagaccctctgtggttc Alignment from Spaln_aa2Genome AAAGAGAACTTCAAAAAACCAGTG tttaatgactctttcttgtagacgatttcacaacttctcctccccttcagAAAGAGAACTTCAAGAAACCAGTGgtaagtagtctgcctgctaagtttgagtttttttagaccctctgtggttc Alignment from Spaln_nt2Genome AAAGAGAACTTCAAAAAACCAGTG tttaatgactctttcttgtagacgatttcacaacttctcctccccttcagAAAGAGAACTTCAAGAAACCAGTGgtaagtagtctgcctgctaagtttgagtttttttagaccctctgtggttc Alignment from Pairagon AATATAGGCAAAGAGAACTTCAAAAAACCAGTG tttaatgactctttcttgtagacgatttcacaacttctcctccccttcag---------AAAGAGAACTTCAAGAAACCAGTGgtaagtagtctgcctgctaagtttgagtttttttagaccctctgtggttc Alignment from Exonerate_protein2genome AATATAGGCAAAGAGAACTTCAAAAAACCAGTG tttaatgactctttcttgtagacgatttcacaacttctcctCCCCTTCAGAAAGAGAACTTCAAGAAACCAGTGgtaagtagtctgcctgctaagtttgagtttttttagaccctctgtggttc Alignment from Exonerate_coding2genome tttaatgactctttcttgtagacgatttcacaacttctcctccccttcagaaagagaacttcaagaaaccagtggtaagtagtctgcctgctaagtttgagtttttttagaccctctgtggttc Alignment from GeneWise tttaatgactctttcttgtagacgatttcacaacttctcctccccttcagaaagagaacttcaagaaaccagtggtaagtagtctgcctgctaagtttgagtttttttagaccctctgtggttc #### Actn3_ID691_19 --> 0 - 0 Original Alignment AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG ttgtggcctcacctgatagatattagtccatgtgccttaactcactgcag---CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtaggggccttgtccatttcaaaagcaccatcagatctcctcctcctgcc Alignment from CESAR AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG aggaggaggcctcacctgatagatagtccatgtgccttaactcactgcag---CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtaggggccttgtccatttcaaaagcaccatcagatctcctcctcctgcc Alignment from Spaln_aa2Genome AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG ttgtggcctcacctgatagatattagtccatgtgccttaactcactgcag---CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtaggggccttgtccatttcaaaagcaccatcagatctcctcctcctgcc Alignment from Spaln_nt2Genome G- CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG TTgtggcctcacctgatagatattagtccatgtgccttaactcactgcagCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtaggggccttgtccatttcaaaagcaccatcagatctcctcctcctgcc Alignment from Pairagon ------------------------------------------------AGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG TTGTGGCCTCACCTGATAGATATTAGTCCATGTGCCTTAACTCACTGCAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtaggggccttgtccatttcaaaagcaccatcagatctcctcctcctgcc Alignment from Exonerate_protein2genome AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG ttgtggcctcacctgatagatattagtccatgtgccttaactcactgCAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtaggggccttgtccatttcaaaagcaccatcagatctcctcctcctgcc Alignment from Exonerate_coding2genome AAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG ttgtggcctcacctgatagatattagtccatgtgccttaactcactgCAGCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtaggggccttgtccatttcaaaagcaccatcagatctcctcctcctgcc Alignment from GeneWise CGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTACGATCTG ttgtggcctcacctgatagatattagtccatgtgccttaactcactgcagCGGAATGGGATGATGGAGCCCGACGACTTCCGAGCTTGTCTCATCTCCATGGGTTATGATCTGgtaggggccttgtccatttcaaaagcaccatcagatctcctcctcctgcc #### Actn3_ID692_18 --> 0 - 0 Original Alignment CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG ttaacccaatacttgactactccccaacgtgctcactgtttttctggtagCACATTCGTGTGGGCTGGGAGCAATTGCTCACCTCCATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACTACTTT------gtaacgtagcctggaggcctcacctgatagaggctcatggccatccctac Alignment from CESAR CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG ttaacccaatacttgactactccccaacgtgctcactgtttttctggtagCACATTCGTGTGGGCTGGGAGCAATTGCTCACCTCCATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACTACTTT------gtaacgtagcctggaggcctcacctgattagtctcttctttgac Alignment from Spaln_aa2Genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTT ttaacccaatacttgactactccccaacgtgctcactgtttttctggtagCACATTCGTGTGGGCTGGGAGCAATTGCTCACCTCCATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACTACTTTgtaacgtagcctggaggcctcacctgatagaggctcatggccatccctac Alignment from Spaln_nt2Genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCG ttaacccaatacttgactactccccaacgtgctcactgtttttctggtagCACATTCGTGTGGGCTGGGAGCAATTGCTCACCTCCATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACTACTTTGTAACgtagcctggaggcctcacctgatagaggctcatggccatccctac Alignment from Pairagon CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTT ttaacccaatacttgactactccccaacgtgctcactgtttttctggtagCACATTCGTGTGGGCTGGGAGCAATTGCTCACCTCCATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACTACTTTgtaacgtagcctggaggcctcacctgatagaggctcatggccatccctac Alignment from Exonerate_protein2genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG ttaacccaatacttgactactccccaacgtgctcactgtttttctggtagCACATTCGTGTGGGCTGGGAGCAATTGCTCACCTCCATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACTACTTTGTAACGtagcctggaggcctcacctgatagaggctcatggccatccctac Alignment from Exonerate_coding2genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG ttaacccaatacttgactactccccaacgtgctcactgtttttctggtagCACATTCGTGTGGGCTGGGAGCAATTGCTCACCTCCATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACTACTTTGTAACGtagcctggaggcctcacctgatagaggctcatggccatccctac Alignment from GeneWise CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTT-GACCGG------------------------------------------- ttaacccaatacttgactactccccaacgtgctcactgtttttctggtagCACATTCGTGTGGGCTGGGAGCAATTGCTCACCTCCATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACTACTTTGTAACGTAGCCTGGAGGCCTCACCTGATAGAGGCTCATGGCCATCCCTAC #### Actn3_ID694_16 --> 0 - 0 Original Alignment GTCAGA---AAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG cttattactcgcagagttggctattaaaacccttctctatctttctgcag---AGAAAAAAGCTGGTCCCTGCCCGTGACCAGACACTCCAGGAGAAGCTGGCCCGGCAGCAAGTGAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGGCCCTGGATCCAGGGAAAGGTGGAGgtgagtgttgggaggctgggccaatacagggatcggcatgaagcccagct Alignment from CESAR GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG caccttattactcgcagagttggctaaaacccttctctatctttctgcagAGAAAAAAGCTGGTCCCTGCCCGTGACCAGACACTCCAGGAGAAGCTGGCCCGGCAGCAAGTGAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGGCCCTGGATCCAGGGAAAGGTGGAGgtgagtgttgggaggctgggccaatacagggatcggcatgaagcccagct Alignment from Spaln_aa2Genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG cttattactcgcagagttggctattaaaacccttctctatctttctgcagAGAAAAAAGCTGGTCCCTGCCCGTGACCAGACACTCCAGGAGAAGCTGGCCCGGCAGCAAGTGAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGGCCCTGGATCCAGGGAAAGGTGGAGgtgagtgttgggaggctgggccaatacagggatcggcatgaagcccagct Alignment from Spaln_nt2Genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG cttattactcgcagagttggctattaaaacccttctctatctttctgcagAGAAAAAAGCTGGTCCCTGCCCGTGACCAGACACTCCAGGAGAAGCTGGCCCGGCAGCAAGTGAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGGCCCTGGATCCAGGGAAAGGTGGAGgtgagtgttgggaggctgggccaatacagggatcggcatgaagcccagct Alignment from Pairagon GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG cttattactcgcagagttggctattaaaacccttctctatctttctgcagAGAAAAAAGCTGGTCCCTGCCCGTGACCAGACACTCCAGGAGAAGCTGGCCCGGCAGCAAGTGAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGGCCCTGGATCCAGGGAAAGGTGGAGgtgagtgttgggaggctgggccaatacagggatcggcatgaagcccagct Alignment from Exonerate_protein2genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG cttattactcgcagagttggctattaaaacccttctctatctttctgcagAGAAAAAAGCTGGTCCCTGCCCGTGACCAGACACTCCAGGAGAAGCTGGCCCGGCAGCAAGTGAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGGCCCTGGATCCAGGGAAAGGTGGAGgtgagtgttgggaggctgggccaatacagggatcggcatgaagcccagct Alignment from Exonerate_coding2genome GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG cttattactcgcagagttggctattaaaacccttctctatctttctgcagAGAAAAAAGCTGGTCCCTGCCCGTGACCAGACACTCCAGGAGAAGCTGGCCCGGCAGCAAGTGAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGGCCCTGGATCCAGGGAAAGGTGGAGgtgagtgttgggaggctgggccaatacagggatcggcatgaagcccagct Alignment from GeneWise GTCAGAAAGCTGGTACCCAGCCGTGACCAGACACTGCAGGAGGAGCTGGCCCGGCAGCAGGTGAACGAGAGGCTCCGGCGACAGTTTGCAGCCCAGGCTAATGCCATAGGACCCTGGATCCAGGGAAAAGTGGAG cttattactcgcagagttggctattaaaacccttctctatctttctgcagAGAAAAAAGCTGGTCCCTGCCCGTGACCAGACACTCCAGGAGAAGCTGGCCCGGCAGCAAGTGAATGAGAGGTCACGGCGGCAGTTTACAGCCCAGGCTAATGCCATAGGGCCCTGGATCCAGGGAAAGGTGGAGgtgagtgttgggaggctgggccaatacagggatcggcatgaagcccagct #### Actn3_ID695_15 --> 0 - 0 Original Alignment ---AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatgggcatactgggtctttcatgttctttatctagATCAGCCTACTAACAGCACATGAACAGTTCAAGGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCTAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATCACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaagtaaccctgtgtgttccttacttattcttgcacatttaatacaatg Alignment from CESAR ---AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatgggcatactgggtctttcatgttctttatctagATCAGCCTACTAACAGCACATGAACAGTTCAAGGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCTAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATCACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaagtaaccctgtgtgttccttacttattcttgcacatttaatacaatg Alignment from Spaln_aa2Genome AGCCTGCTAACAGCA---CACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatgggcatactgggtctttcatgttctttatctagATCAGCCTACTAACAGCACATGAACAGTTCAAGGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCTAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATCACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaagtaaccctgtgtgttccttacttattcttgcacatttaatacaatg Alignment from Spaln_nt2Genome AGCCTGCTAAC---AGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatgggcatactgggtctttcatgttctttatctagATCAGCCTACTAACAGCACATGAACAGTTCAAGGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCTAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATCACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaagtaaccctgtgtgttccttacttattcttgcacatttaatacaatg Alignment from Pairagon ---AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatgggcatactgggtctttcatgttctttatctagATCAGCCTACTAACAGCACATGAACAGTTCAAGGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCTAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATCACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaagtaaccctgtgtgttccttacttattcttgcacatttaatacaatg Alignment from Exonerate_protein2genome ---AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatgggcatactgggtctttcatgttctttatctagATCAGCCTACTAACAGCACATGAACAGTTCAAGGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCTAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATCACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaagtaaccctgtgtgttccttacttattcttgcacatttaatacaatg Alignment from Exonerate_coding2genome ---AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatgggcatactgggtctttcatgttctttatctagATCAGCCTACTAACAGCACATGAACAGTTCAAGGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCTAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATCACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaagtaaccctgtgtgttccttacttattcttgcacatttaatacaatg Alignment from GeneWise ---AGCCTGCTAACAGCACACGAACAGTTCAAGGCAACGTTGCCCGAGGCTGATCGAGAGCGAGGCGCCATCCTGGGCATCCAAGGAGAGATCCAGAAGATTTGCCAAACATACGGACTACGGCCAAAGTCCGGCAACCCCTACATCACCCTCAGTTCGCAGGACATCAACAATAAGTGGGATACA catacatgggtgcaaatgggcatactgggtctttcatgttctttatctagATCAGCCTACTAACAGCACATGAACAGTTCAAGGCAACATTACCTGAAGCAGATCGAGAGCGAGGTGCCATCCTAGGCATCCAAGGAGAGATTCCAAAGATCTGCCAAACATACGGGCTGCGGCCCAAGTCTGGTAACCCCTACATCACCCTCAGTTCAAGGGACATCAACAATAAGTGGGATACAgtaagtaaccctgtgtgttccttacttattcttgcacatttaatacaatg #### Actn3_ID696_14 --> 0 - 0 Original Alignment AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG------------------ aagaccagcaggctgagaagaatctggatttgcttctttttttccctcagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCCGGGCAGCCTCCTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTTGTCCATTCTGTGGAGGAGACACAGGACTCAAAAACCTATGGTgtaattgaaggcattagggggggagtctttggatgcactttatgtggtgt Alignment from CESAR AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG------------------ aagaccagcaggctgagaagaatctggatttgcttctttttttccctcagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCCGGGCAGCCTCCTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTTGTCCATTCTGTGGAGGAGACACAGGACTCAAAAACCTATGGTgtaattgaaggcattagggggggagtctttggatgcactttatgtggtgt Alignment from Spaln_aa2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG------------------ aagaccagcaggctgagaagaatctggatttgcttctttttttccctcagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCCGGGCAGCCTCCTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTTGTCCATTCTGTGGAGGAGACACAGGACTCAAAAACCTATGGTgtaattgaaggcattagggggggagtctttggatgcactttatgtggtgt Alignment from Spaln_nt2Genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAGA--------------- aagaccagcaggctgagaagaatctggatttgcttctttttttccctcagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCCGGGCAGCCTCCTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTTGTCCATTCTGTGGAGGAGACACAGGACTCAAAAACCTATGgtgtaattgaaggcattagggggggagtctttggatgcactttatgtggtgt Alignment from Pairagon AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG------------------ aagaccagcaggctgagaagaatctggatttgcttctttttttccctcagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCCGGGCAGCCTCCTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTTGTCCATTCTGTGGAGGAGACACAGGACTCAAAAACCTATGGTgtaattgaaggcattagggggggagtctttggatgcactttatgtggtgt Alignment from Exonerate_protein2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aagaccagcaggctgagaagaatctggatttgcttctttttttccctcagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCCGGGCAGCCTCCTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTTGTCCATTCTGTGGAGGAGACACAGgactcaaaaacctatggtgtaattgaaggcattagggggggagtctttggatgcactttatgtggtgt Alignment from Exonerate_coding2genome AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG aagaccagcaggctgagaagaatctggatttgcttctttttttccctcagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCCGGGCAGCCTCCTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTTGTCCATTCTGTGGAGGAGACACAGgactcaaaaacctatggtgtaattgaaggcattagggggggagtctttggatgcactttatgtggtgt Alignment from GeneWise AGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCCCCCTTCAATAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTCGTGCACTCTGTGGAGGAGACCCAG------------------ aagaccagcaggctgagaagaatctggatttgcttctttttttccctcagAGGATGGAGAAGCTCCTGGAGACCATTGACCAGCTGCAGCTGGAGCTTGCTCGCCGGGCAGCCTCCTTCAATAACTGGTTTGATGGGGCTATTGAGGACCTGCACGATGTGTGGCTTGTCCATTCTGTGGAGGAGACACAGGACTCAAAAACCTATGGTgtaattgaaggcattagggggggagtctttggatgcactttatgtggtgt #### Actn3_ID704_6 --> 1 - 0 Original Alignment cTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ccggggcctaatgtgattcagatgagatctgtccaacacattgttttcagc------------------CTTTGTGCTCTTATCCACCGGCACCGGCCGGACCTTATTGACTATGCCAAGCTCCACAAGgtgagctgcacctctacaactcataactctatagtctctgccttcagctg Alignment from CESAR cTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG acacatccctgccgtaaaccggggcgatctgtccaacacattgttttcagc------------------CTTTGTGCTCTTATCCACCGGCACCGGCCGGACCTTATTGACTATGCCAAGCTCCACAAGgtgagctgcacctctacaactcataactctatagtctctgccttcagctg Alignment from Spaln_aa2Genome CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ccggggcctaatgtgattcagatgagatctgtccaacacattgttttcagC------------------CTTTGTGCTCTTATCCACCGGCACCGGCCGGACCTTATTGACTATGCCAAGCTCCACAAGgtgagctgcacctctacaactcataactctatagtctctgccttcagctg Alignment from Spaln_nt2Genome CCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ccggggcctaatgtgattcagatgagatctgtccaacacattgttttcagCCTTTGTGCTCTTATCCACCGGCACCGGCCGGACCTTATTGACTATGCCAAGCTCCACAAGgtgagctgcacctctacaactcataactctatagtctctgccttcagctg Alignment from Pairagon CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ccggggcctaatgtgattcagatgagatctgtccaacacattgttttcag------------------CCTTTGTGCTCTTATCCACCGGCACCGGCCGGACCTTATTGACTATGCCAAGCTCCACAAGgtgagctgcacctctacaactcataactctatagtctctgccttcagctg Alignment from Exonerate_protein2genome GCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ccggggcctaatgtgattcagatgagatctgtccaacacattgTTTTCAGCCTTTGTGCTCTTATCCACCGGCACCGGCCGGACCTTATTGACTATGCCAAGCTCCACAAGgtgagctgcacctctacaactcataactctatagtctctgccttcagctg Alignment from Exonerate_coding2genome GCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ccggggcctaatgtgattcagatgagatctgtccaacacattgTTTTCAGCCTTTGTGCTCTTATCCACCGGCACCGGCCGGACCTTATTGACTATGCCAAGCTCCACAAGgtgagctgcacctctacaactcataactctatagtctctgccttcagctg Alignment from GeneWise ----AGCTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG ccggggcctaatgtgattcagatgagATCTGTCCAACACATTGTTTTCAGCCTTTGTGCTCTTATCCACCGGCACCGGCCGGACCTTATTGACTATGCCAAGCTCCACAAGgtgagctgcacctctacaactcataactctatagtctctgccttcagctg #### Actn3_ID705_5 --> 2 - 2 Original Alignment agACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag gtgcatgaacagggccagctcataaaatcagccttaactctctttttcagag------TCCAAACAAGGCTTGTTCCTCTGGTGTCAGCGGAAAATAGCTCCATACCGCAATGTCAATGTACAGAACTTCCATACTaggtatacctgatggcctccagtgaatgcaagtaaggtgtttgctggcaact Alignment from CESAR agACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCag tgagtagtgcatgaacagggccagcaatcagccttaactctctttttcagag------TCCAAACAAGGCTTGTTCCTCTGGTGTCAGCGGAAAATAGCTCCATACCGCAATGTCAATGTACAGAACTTCCATACTaggtatacctgatggcctccagtgaatgcaagtaaggtgtttgctggcaact Alignment from Spaln_aa2Genome CAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gtgcatgaacagggccagctcataaaatcagccttaactctctttttcagAGTCCAAACAAGGCTTGTTCCTCTGGTGTCAGCGGAAAATAGCTCCATACCGCAATGTCAATGTACAGAACTTCCATACTAGgtatacctgatggcctccagtgaatgcaagtaaggtgtttgctggcaact Alignment from Spaln_nt2Genome CAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gtgcatgaacagggccagctcataaaatcagccttaactctctttttcagAGTCCAAACAAGGCTTGTTCCTCTGGTGTCAGCGGAAAATAGCTCCATACCGCAATGTCAATGTACAGAACTTCCATACTAGgtatacctgatggcctccagtgaatgcaagtaaggtgtttgctggcaact Alignment from Pairagon AGACCTCAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gtgcatgaacagggccagctcataaaatcagccttaactctctttttcagAG------TCCAAACAAGGCTTGTTCCTCTGGTGTCAGCGGAAAATAGCTCCATACCGCAATGTCAATGTACAGAACTTCCATACTAGgtatacctgatggcctccagtgaatgcaagtaaggtgtttgctggcaact Alignment from Exonerate_protein2genome CAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gtgcatgaacagggccagctcataaaatcagccttaactctctttttcagAGTCCAAACAAGGCTTGTTCCTCTGGTGTCAGCGGAAAATAGCTCCATACCGCAATGTCAATGTACAGAACTTCCATACTAGgtatacctgatggcctccagtgaatgcaagtaaggtgtttgctggcaact Alignment from Exonerate_coding2genome CAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gtgcatgaacagggccagctcataaaatcagccttaactctctttttcagAGTCCAAACAAGGCTTGTTCCTCTGGTGTCAGCGGAAAATAGCTCCATACCGCAATGTCAATGTACAGAACTTCCATACTAGgtatacctgatggcctccagtgaatgcaagtaaggtgtttgctggcaact Alignment from GeneWise CAGCCAAAGAAGGCTTGCTTCTCTGGTGTCAGCGGAAAACAGCACCGTACCGCAATGTCAACGTACAGAACTTCCATACCAG gtgcatgaacagggccagctcataaaatcagccttaactctctttttcagAGTCCAAACAAGGCTTGTTCCTCTGGTGTCAGCGGAAAATAGCTCCATACCGCAATGTCAATGTACAGAACTTCCATACTAGgtatacctgatggcctccagtgaatgcaagtaaggtgtttgctggcaact #### Actn3_ID706_4 --> 2 - 1 Original Alignment aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg gggccacgagcttctgtaccaaggtctgaatcaatacattttgtctttagaaATTGTTGACGGGAACCTGAAAATGACCCTTGGCATGATCTGGACAATCATCCTCCGCTTTGCCATTCAGGACATCTCT------ggtaagtgcaagttgatgagtagtgcatgaacagggcctttcacggctggt Alignment from CESAR aaATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAg gggccacgagcttctgtaccaaggtctgaatcaatacattttgtctttagaaATTGTTGACGGGAACCTGAAAATGACCCTTGGCATGATCTGGACAATCATCCTCCGCTTTGCCATTCAGGACATCTCT------ggtaagtgcaagttgatgagtagtgcatgaacaggtcataaaattgtgttt Alignment from Spaln_aa2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gggccacgagcttctgtaccaaggtctgaatcaatacattttgtctttagAAATTGTTGACGGGAACCTGAAAATGACCCTTGGCATGATCTGGACAATCATCCTCCGCTTTGCCATTCAGGACATCTCTGGTAAGTgcaagttgatgagtagtgcatgaacagggcctttcacggctggt Alignment from Spaln_nt2Genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTG gggccacgagcttctgtaccaaggtctgaatcaatacattttgtctttagAAATTGTTGACGGGAACCTGAAAATGACCCTTGGCATGATCTGGACAATCATCCTCCGCTTTGCCATTCAGGACATCTCTGgtaagtgcaagttgatgagtagtgcatgaacagggcctttcacggctggt Alignment from Pairagon AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTG gggccacgagcttctgtaccaaggtctgaatcaatacattttgtctttagAAATTGTTGACGGGAACCTGAAAATGACCCTTGGCATGATCTGGACAATCATCCTCCGCTTTGCCATTCAGGACATCTCTGgtaagtgcaagttgatgagtagtgcatgaacagggcctttcacggctggt Alignment from Exonerate_protein2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gggccacgagcttctgtaccaaggtctgaatcaatacattttgtctttagAAATTGTTGACGGGAACCTGAAAATGACCCTTGGCATGATCTGGACAATCATCCTCCGCTTTGCCATTCAGGACATCTCTGGTAAGTgcaagttgatgagtagtgcatgaacagggcctttcacggctggt Alignment from Exonerate_coding2genome AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTGTAGAAG gggccacgagcttctgtaccaaggtctgaatcaatacattttgtctttagAAATTGTTGACGGGAACCTGAAAATGACCCTTGGCATGATCTGGACAATCATCCTCCGCTTTGCCATTCAGGACATCTCTGGTAAGTgcaagttgatgagtagtgcatgaacagggcctttcacggctggt Alignment from GeneWise AAATTGTTGACGGGAACCTGAAGATGACCCTGGGCATGATCTGGACCATCATCCTCCGCTTTGCCATTCAGGACATCTCTG gggccacgagcttctgtaccaaggtctgaatcaatacattttgtctttagAAATTGTTGACGGGAACCTGAAAATGACCCTTGGCATGATCTGGACAATCATCCTCCGCTTTGCCATTCAGGACATCTCTGgtaagtgcaagttgatgagtagtgcatgaacagggcctttcacggctggt #### Actn3_ID707_3 --> 2 - 1 Original Alignment ga---------GAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg tacacttccactcatgacctttgacctttttttaatgtgtcttctcacaggtGGGGAGAAAGCAAGGCTGCCTAGGCCTGACAAAGGCAAGATGTGCTTTCACAAAATTGCCAATGTCAATAACGCCCTAGACTTCATCGCTAGCAAAGGAGTGAAGTTGGTTGCCATTAGTGCTGAAggtgaggagggggacaagagacatagacagtggagaggcaagatgttactt Alignment from CESAR ga---GAG------AGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAg tacacttccactcatgacctttgacctttttttaatgtgtcttctcacaggtGGGGAGAAAGCAAGGCTGCCTAGGCCTGACAAAGGCAAGATGTGCTTTCACAAAATTGCCAATGTCAATAACGCCCTAGACTTCATCGCTAGCAAAGGAGTGAAGTTGGTTGCCATTAGTGCTGAAggtgaggagggggacaagagacatagacagtggagaggcaagatgttactt Alignment from Spaln_aa2Genome GAGAGAGGCTGCCTAGG---------CCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tacacttccactcatgacctttgacctttttttaatgtgtcttctcacagGTGGGGAGAAAGCAAGGCTGCCTAGGCCTGACAAAGGCAAGATGTGCTTTCACAAAATTGCCAATGTCAATAACGCCCTAGACTTCATCGCTAGCAAAGGAGTGAAGTTGGTTGCCATTAGTGCTGAAGgtgaggagggggacaagagacatagacagtggagaggcaagatgttactt Alignment from Spaln_nt2Genome GAGAGAGGCTGCCTA---------GGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tacacttccactcatgacctttgacctttttttaatgtgtcttctcacagGTGGGGAGAAAGCAAGGCTGCCTAGGCCTGACAAAGGCAAGATGTGCTTTCACAAAATTGCCAATGTCAATAACGCCCTAGACTTCATCGCTAGCAAAGGAGTGAAGTTGGTTGCCATTAGTGCTGAAGgtgaggagggggacaagagacatagacagtggagaggcaagatgttactt Alignment from Pairagon G---------AGAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tacacttccactcatgacctttgacctttttttaatgtgtcttctcacagGTGGGGAGAAAGCAAGGCTGCCTAGGCCTGACAAAGGCAAGATGTGCTTTCACAAAATTGCCAATGTCAATAACGCCCTAGACTTCATCGCTAGCAAAGGAGTGAAGTTGGTTGCCATTAGTGCTGAAGgtgaggagggggacaagagacatagacagtggagaggcaagatgttactt Alignment from Exonerate_protein2genome GA---------GAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tacacttccactcatgacctttgacctttttttaatgtgtcttctcacagGTGGGGAGAAAGCAAGGCTGCCTAGGCCTGACAAAGGCAAGATGTGCTTTCACAAAATTGCCAATGTCAATAACGCCCTAGACTTCATCGCTAGCAAAGGAGTGAAGTTGGTTGCCATTAGTGCTGAAGgtgaggagggggacaagagacatagacagtggagaggcaagatgttactt Alignment from Exonerate_coding2genome GA---------GAGAGGCTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tacacttccactcatgacctttgacctttttttaatgtgtcttctcacagGTGGGGAGAAAGCAAGGCTGCCTAGGCCTGACAAAGGCAAGATGTGCTTTCACAAAATTGCCAATGTCAATAACGCCCTAGACTTCATCGCTAGCAAAGGAGTGAAGTTGGTTGCCATTAGTGCTGAAGgtgaggagggggacaagagacatagacagtggagaggcaagatgttactt Alignment from GeneWise -----CTGCCTAGGCCCGACAAAGGCAAGATGCGCTTCCACAAAATCGCCAATGTCAATAAAGCCCTAGACTTCATTGCCAGCAAAGGAGTTAAGCTAGTGTCCATCGGTGCTGAAG tacacttccactcatgacctttgacctttttttaatgtgtcttctcacaggtggggagaaagCAAGGCTGCCTAGGCCTGACAAAGGCAAGATGTGCTTTCACAAAATTGCCAATGTCAATAACGCCCTAGACTTCATCGCTAGCAAAGGAGTGAAGTTGGTTGCCATTAGTGCTGAAGgtgaggagggggacaagagacatagacagtggagaggcaagatgttactt #### Actr1a_ID9870_10 --> 0 - 2 Original Alignment ---ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTgg gatatcagcactccaggagagagtgtacgcctgattcttcctgtctttagGGGATATCTGCACCCCAGGAGCAACTGTATTCCACATGGATCgggtaatgagcccttctaatggaataggatgggaagtaaaagctttcgatca Alignment from CESAR ---ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTgg gatatcagcactccaggagagagtgtacgcctgattcttcctgtctttagGGGATATCTGCACCCCAGGAGCAACTGTATTCCACATGGATCgggtaatgagcccttctaatggaataggatgggaagtaaaagctttcgatca Alignment from Spaln_aa2Genome ATATCTGCACCCCAG---GAGAGACTGTATTCCACATGGATTGG gatatcagcactccaggagagagtgtacgcctgattcttcctgtctttagGGGATATCTGCACCCCAGGAGCAACTGTATTCCACATGGATCGGgtaatgagcccttctaatggaataggatgggaagtaaaagctttcgatca Alignment from Spaln_nt2Genome ---ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatatcagcactccaggagagagtgtacgcctgattcttcctgtctttagGGGATATCTGCACCCCAGGAGCAACTGTATTCCACATGGATCGGgtaatgagcccttctaatggaataggatgggaagtaaaagctttcgatca Alignment from Pairagon ---ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatatcagcactccaggagagagtgtacgcctgattcttcctgtctttagGGGATATCTGCACCCCAGGAGCAACTGTATTCCACATGGATCGGgtaatgagcccttctaatggaataggatgggaagtaaaagctttcgatca Alignment from Exonerate_protein2genome ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatatcagcactccaggagagagtgtacgcctgattcttcctgtctttaggggATATCTGCACCCCAGGAGCAACTGTATTCCACATGGATCGGgtaatgagcccttctaatggaataggatgggaagtaaaagctttcgatca Alignment from Exonerate_coding2genome ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatatcagcactccaggagagagtgtacgcctgattcttcctgtctttaggggATATCTGCACCCCAGGAGCAACTGTATTCCACATGGATCGGgtaatgagcccttctaatggaataggatgggaagtaaaagctttcgatca Alignment from GeneWise ---ATATCTGCACCCCAGGAGAGACTGTATTCCACATGGATTGG gatatcagcactccaggagagagtgtacgcctgattcttcctgtctttagGGGATATCTGCACCCCAGGAGCAACTGTATTCCACATGGATCGGgtaatgagcccttctaatggaataggatgggaagtaaaagctttcgatca #### Actr1a_ID9872_8 --> 0 - 1 Original Alignment ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAg ttgggggtctcggtctgctcctttgaatcatcgcctgcttcatttcctag------CCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAggtaaggatatctacttttgagccaaccatagaaacaacctgagcatttct Alignment from CESAR ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAg cacaagttgggggtctcggtctgctaatcatcgcctgcttcatttcctag------CCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAggtaaggatatctacttttgagccaaccatagaaacaacctgagcatttct Alignment from Spaln_aa2Genome ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG ttgggggtctcggtctgctcctttgaatcatcgcctgcttcatttcctag------CCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtaaggatatctacttttgagccaaccatagaaacaacctgagcatttct Alignment from Spaln_nt2Genome ATTGGC CCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG TTGGGGgtctcggtctgctcctttgaatcatcgcctgcttcatttcctagCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtaaggatatctacttttgagccaaccatagaaacaacctgagcatttct Alignment from Pairagon ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG ttgggggtctcggtctgctcctttgaatcatcgcctgcttcatttcctag------CCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtaaggatatctacttttgagccaaccatagaaacaacctgagcatttct Alignment from Exonerate_protein2genome CCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG ttgggggtctcggtctgctcctttgaatcatcgcctgcttcatttcctaGCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtaaggatatctacttttgagccaaccatagaaacaacctgagcatttct Alignment from Exonerate_coding2genome CCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG ttgggggtctcggtctgctcctttgaatcatcgcctgcttcatttcctaGCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtaaggatatctacttttgagccaaccatagaaacaacctgagcatttct Alignment from GeneWise CCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG ttgggggtctcggtctgctcctttgaatcatcgcctgcttcatttcctagCCTTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGCGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtaaggatatctacttttgagccaaccatagaaacaacctgagcatttct #### Acy3_ID251_5 --> 2 - 0 Original Alignment gcATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agggttatcaggaaacaacagggatgagggctctctgtctgtcattccaggcATGGACTTACCAGCCTTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCCGATGGTGACCTAGCTGGCACTGTGCACCCA---------gtatgtgttaactgcctggtgggtgccagggtaggagtactgtgaacacc Alignment from CESAR gcATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agggttatcaggaaacaacagggatgagggctctctgtctgtcattccaggcATGGACTTACCAGCCTTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCCGATGGTGACCTAGCTGGCACTGTGCACCCA---------gtatgtgttaactgcctggtgggtgccagggtaggagtact Alignment from Spaln_aa2Genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agggttatcaggaaacaacagggatgagggctctctgtctgtcattccagGCATGGACTTACCAGCCTTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCCGATGGTGACCTAGCTGGCACTGTGCACCCA---GTATGTgttaactgcctggtgggtgccagggtaggagtactgtgaac Alignment from Spaln_nt2Genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCT agggttatcaggaaacaacagggatgagggctctctgtctgtcattccagGCATGGACTTACCAGCCTTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCCGATGGTGACCTAGCTGGCACTGTGCACCCAgtatgtgttaactgcctggtgggtgccagggtaggagtactgtgaacacc Alignment from Pairagon GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCT agggttatcaggaaacaacagggatgagggctctctgtctgtcattccagGCATGGACTTACCAGCCTTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCCGATGGTGACCTAGCTGGCACTGTGCACCCAgtatgtgttaactgcctggtgggtgccagggtaggagtactgtgaacacc Alignment from Exonerate_protein2genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGC agggttatcaggaaacaacagggatgagggctctctgtctgtcattccagGCATGGACTTACCAGCCTTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCCGATGGTGACCTAGCTGGCACTGTGCACCCAGTATGTGttaactgcctggtgggtgccagggtaggagtactgtgaacacc Alignment from Exonerate_coding2genome GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGC agggttatcaggaaacaacagggatgagggctctctgtctgtcattccagGCATGGACTTACCAGCCTTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCCGATGGTGACCTAGCTGGCACTGTGCACCCAGTATGTGttaactgcctggtgggtgccagggtaggagtactgtgaacacc Alignment from GeneWise GCATGGACTTACCCGCCTTTGAGATGGATATCTACAGGAACTTGGGCAGTGTGGACTTCCCACGCACTGCAGATGGTGACCTGGCTGGCACTGTGCACCCTCAACTGCAG agggttatcaggaaacaacagggatgagggctctctgtctgtcattccagGCATGGACTTACCAGCCTTTGAGATGGATATCTACAGGAACTTGGGAAGTGTGGACTTCCCACGCACTGCCGATGGTGACCTAGCTGGCACTGTGCACCCA---GTATGTgttaactgcctggtgggtgccagggtaggagtactgtgaac #### Add3_ID11215_7 --> 0 - 0 Original Alignment GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacaggtgttcaaggtatctttttgcatttccttccatctacag------GTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtatggcccaaccctaccctgcttttgattgcactacatagccactagtt Alignment from CESAR GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG tattctgagtcccacaggtgttcaatttttgcatttccttccatctacag------GTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtatggcccaaccctaccctgcttttgattgcactacatagccactagtt Alignment from Spaln_aa2Genome GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacaggtgttcaaggtatctttttgcatttccttccatctacag------GTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtatggcccaaccctaccctgcttttgattgcactacatagccactagtt Alignment from Spaln_nt2Genome GTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacaggtgttcaaggtatctttttgcatttccttccatctacagGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtatggcccaaccctaccctgcttttgattgcactacatagccactagtt Alignment from Pairagon GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacaggtgttcaaggtatctttttgcatttccttccatctacag------GTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtatggcccaaccctaccctgcttttgattgcactacatagccactagtt Alignment from Exonerate_protein2genome GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacaggtgttcaaggtatctttttgcatttccttccatCTACAGGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtatggcccaaccctaccctgcttttgattgcactacatagccactagtt Alignment from Exonerate_coding2genome GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacaggtgttcaaggtatctttttgcatttccttccatCTACAGGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtatggcccaaccctaccctgcttttgattgcactacatagccactagtt Alignment from GeneWise GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacaggtgttcaaggtatctttttgcatttccttccatctacagGTCCTC------AGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtatggcccaaccctaccctgcttttgattgcactacatagccactagtt #### Adrbk1_ID478_17 --> 0 - 1 Original Alignment TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAG------g ctggcacccatgatctactcatacatcctcttctctctggcctcttccagTTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTTACCATCTCTGAGTGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTTGAGGCACAAAAA---GCCAAAAACAAACAGCTGGGTCAGGAGGAGCTCAAAggtaggcacgtgccacccaccttagaccgcaggagtggaatgagagtctgc Alignment from CESAR TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAG------g ctggcacccatgatctactcatacatcctcttctctctggcctcttccagTTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTTACCATCTCTGAGTGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTTGAGGCACAA---AAAGCCAAAAACAAACAGCTGGGTCAGGAGGAGCTCAAAggtaggcacgtgccacccaccttagaccgcaggagtggaatgagagtctgc Alignment from Spaln_aa2Genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAG------G ctggcacccatgatctactcatacatcctcttctctctggcctcttccagTTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTTACCATCTCTGAGTGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTTGAGGCACAAAAA---GCCAAAAACAAACAGCTGGGTCAGGAGGAGCTCAAAGgtaggcacgtgccacccaccttagaccgcaggagtggaatgagagtctgc Alignment from Spaln_nt2Genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAG------G ctggcacccatgatctactcatacatcctcttctctctggcctcttccagTTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTTACCATCTCTGAGTGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTTGAGGCAC---AAAAAGCCAAAAACAAACAGCTGGGTCAGGAGGAGCTCAAAGgtaggcacgtgccacccaccttagaccgcaggagtggaatgagagtctgc Alignment from Pairagon TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAG------G ctggcacccatgatctactcatacatcctcttctctctggcctcttccagTTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTTACCATCTCTGAGTGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTTGAGGCAC---AAAAAGCCAAAAACAAACAGCTGGGTCAGGAGGAGCTCAAAGgtaggcacgtgccacccaccttagaccgcaggagtggaatgagagtctgc Alignment from Exonerate_protein2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAG------G ctggcacccatgatctactcatacatcctcttctctctggcctcttccagTTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTTACCATCTCTGAGTGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTTGAGGCA---CAAAAAGCCAAAAACAAACAGCTGGGTCAGGAGGAGCTCAAAGgtaggcacgtgccacccaccttagaccgcaggagtggaatgagagtctgc Alignment from Exonerate_coding2genome TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAG------G ctggcacccatgatctactcatacatcctcttctctctggcctcttccagTTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTTACCATCTCTGAGTGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTTGAGGCA---CAAAAAGCCAAAAACAAACAGCTGGGTCAGGAGGAGCTCAAAGgtaggcacgtgccacccaccttagaccgcaggagtggaatgagagtctgc Alignment from GeneWise TTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTCACCATCTCTGAGCGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTGGAGGCACGAAAGAAGGCCAAAAACAAACAGCTGGGCCACGAGGAG------G ctggcacccatgatctactcatacatcctcttctctctggcctcttccagTTACTGGACAGTGACCAGGAACTGTACCGCAACTTCCCTCTTACCATCTCTGAGTGGTGGCAACAGGAGGTGGCAGAGACTGTCTTTGATACCATCAATGCTGAAACAGACCGGCTTGAGGCACAAAAA---GCCAAAAACAAACAGCTGGGTCAGGAGGAGCTCAAAGgtaggcacgtgccacccaccttagaccgcaggagtggaatgagagtctgc #### Adrbk1_ID482_13 --> 1 - 0 Original Alignment aCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagctccccatcctctcttctgaactttttttttttaaatctaga---------TTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACTATGgtgagcctaacagtgtcactaagacctatgtgatgccagaagcatacatc Alignment from CESAR aCACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccactgaactttttttttttaaatctaga---------TTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACTATGgtgagcctaacagtgtcactaagacctatgtgatgccagaagcatacatc Alignment from Spaln_aa2Genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagctccccatcctctcttctgaactttttttttttaaatctagA---------TTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACTATGgtgagcctaacagtgtcactaagacctatgtgatgccagaagcatacatc Alignment from Spaln_nt2Genome ACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagctccccatcctctcttctgaactttttttttttaaatctagA-------TTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACTATGgtgagcctaacagtgtcactaagacctatgtgatgccagaagcatacatc Alignment from Pairagon ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagctccccatcctctcttctgaactttttttttttaaatctagA---------TTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACTATGgtgagcctaacagtgtcactaagacctatgtgatgccagaagcatacatc Alignment from Exonerate_protein2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG gtctagctccccatcctctcttctgaactttttttttttaaA---TCTAGATTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACTATGgtgagcctaacagtgtcactaagacctatgtgatgccagaagcatacatc Alignment from Exonerate_coding2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG gtctagctccccatcctctcttctgaactttttttttttaaA---TCTAGATTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACTATGgtgagcctaacagtgtcactaagacctatgtgatgccagaagcatacatc Alignment from GeneWise ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG tcagtctagctccccatcctctcttctgaactttttttttttaaatctagA---------TTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACTATGgtgagcctaacagtgtcactaagacctatgtgatgccagaagcatacatc #### Adrbk1_ID484_11 --> 0 - 2 Original Alignment ---CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTgt cccctccacagacagtcatcatgatgacaatgaccccatccccccaccagGGACCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCCGACTTGAGCCTGGCATGTGACTTCTCCAAGAAGAGGCCCCATGCCAGTgtgtaactgcccaggtattcactccaaccacaaccttcttcctctttcactt Alignment from CESAR ---CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTgt cccctccacagacagtcatcatgatgacaatgaccccatccccccaccagGGACCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCCGACTTGAGCCTGGCATGTGACTTCTCCAAGAAGAGGCCCCATGCCAGTgtgtaactgcccaggtattcactccaaccacaaccttcttcctctttaccct Alignment from Spaln_aa2Genome CCAGCCAACATT---CTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT cccctccacagacagtcatcatgatgacaatgaccccatccccccaccagGGACCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCCGACTTGAGCCTGGCATGTGACTTCTCCAAGAAGAGGCCCCATGCCAGTGTgtaactgcccaggtattcactccaaccacaaccttcttcctctttcactt Alignment from Spaln_nt2Genome ---CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT cccctccacagacagtcatcatgatgacaatgaccccatccccccaccagGGACCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCCGACTTGAGCCTGGCATGTGACTTCTCCAAGAAGAGGCCCCATGCCAGTGTgtaactgcccaggtattcactccaaccacaaccttcttcctctttcactt Alignment from Pairagon ---CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT cccctccacagacagtcatcatgatgacaatgaccccatccccccaccagGGACCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCCGACTTGAGCCTGGCATGTGACTTCTCCAAGAAGAGGCCCCATGCCAGTGTgtaactgcccaggtattcactccaaccacaaccttcttcctctttcactt Alignment from Exonerate_protein2genome ---CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT cccctccacagacagtcatcatgatgacaatgaccccatccccccaccagGGACCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCCGACTTGAGCCTGGCATGTGACTTCTCCAAGAAGAGGCCCCATGCCAGTGTgtaactgcccaggtattcactccaaccacaaccttcttcctctttcactt Alignment from Exonerate_coding2genome ---CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT cccctccacagacagtcatcatgatgacaatgaccccatccccccaccagGGACCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCCGACTTGAGCCTGGCATGTGACTTCTCCAAGAAGAGGCCCCATGCCAGTGTgtaactgcccaggtattcactccaaccacaaccttcttcctctttcactt Alignment from GeneWise ---CCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCGGACCTGGGCCTAGCCTGTGACTTCTCCAAGAAGAGGCCTCATGCCAGTGT cccctccacagacagtcatcatgatgacaatgaccccatccccccaccagGGACCAGCCAACATTCTCCTGGATGAACATGGCCATGTGAGAATCTCCGACTTGAGCCTGGCATGTGACTTCTCCAAGAAGAGGCCCCATGCCAGTGTgtaactgcccaggtattcactccaaccacaaccttcttcctctttcactt #### Adrbk1_ID486_9 --> 0 - 1 Original Alignment ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC ccagccttggcctgccttccataactcacatccaaatgtttttctttcagGTGGTAGACTGTCCCTTCACTGTGTGCATGTCATATGCGTTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTTATGAACggtacgctagcttaggggatgttttttttttttacctcctaaggcGGGGAC Alignment from CESAR ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGGGAC ccagccttggcctgccttccataactcacatccaaatgtttttctttcagGTGGTAGACTGTCCCTTCACTGTGTGCATGTCATATGCGTTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTTATGAACggtacgctagcttaggggatgcatttttgtctttctcctttaggcGGGGAC Alignment from Spaln_aa2Genome GACTGCCCC------TTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagccttggcctgccttccataactcacatccaaatgtttttctttcagGTGGTAGACTGTCCCTTCACTGTGTGCATGTCATATGCGTTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTTATGAACGgtacgctagcttaggggatgttttttttttttacctcctaagGCGGGGAC Alignment from Spaln_nt2Genome GACTGCCCCTTC------ATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagccttggcctgccttccataactcacatccaaatgtttttctttcagGTGGTAGACTGTCCCTTCACTGTGTGCATGTCATATGCGTTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTTATGAACGgtacgctagcttaggggatgttttttttttttacctcctaagGCGGGGAC Alignment from Pairagon ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACGGT------------------------------------------GGGGAC ccagccttggcctgccttccataactcacatccaaatgtttttctttcagGTGGTAGACTGTCCCTTCACTGTGTGCATGTCATATGCGTTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTTATGAACGGTACGCTAGCTTAGGGGATGTTTTTTTTTTTTACCTCCTAAGGCGGGGAC Alignment from Exonerate_protein2genome ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagccttggcctgccttccataactcacatccaaatgtttttctttcagGTGGTAGACTGTCCCTTCACTGTGTGCATGTCATATGCGTTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTTATGAACGgtacgctagcttaggggatgttttttttttttacctcctaagGCGGGGAC Alignment from Exonerate_coding2genome ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagccttggcctgccttccataactcacatccaaatgtttttctttcagGTGGTAGACTGTCCCTTCACTGTGTGCATGTCATATGCGTTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTTATGAACGgtacgctagcttaggggatgttttttttttttacctcctaagGCGGGGAC Alignment from GeneWise ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGGGAC ccagccttggcctgccttccataactcacatccaaatgtttttctttcagGTGGTAGACTGTCCCTTCACTGTGTGCATGTCATATGCGTTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTTATGAACGgtacgctagcttaggggatgttttttttttttacctcctaagGCGGGGAC #### Adrbk1_ID489_6 --> 1 - 0 Original Alignment tGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC--------- agcccagtgcctcaatgattgctagagtcactcctttaaaacacaactagtGACAAGTTCACACATTTCTGTCAGTGGAAGAATATTGAGCTCAACATCCATCCAGAAACTgtaagtggttgtactccacaaaggtgactctggggggatgaagtctagtt Alignment from CESAR tGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC--------- agcccagtgcctcaatgattgctagagtcactcctttaaaacacaactagtGACAAGTTCACACATTTCTGTCAGTGGAAGAATATTGAGCTCAACATCCATCCAGAAACTgtaagtggttgtactccacaaaggtgactctggggggatgaagtctagtt Alignment from Spaln_aa2Genome TGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC--------- agcccagtgcctcaatgattgctagagtcactcctttaaaacacaactagTGACAAGTTCACACATTTCTGTCAGTGGAAGAATATTGAGCTCAACATCCATCCAGAAACTgtaagtggttgtactccacaaaggtgactctggggggatgaagtctagtt Alignment from Spaln_nt2Genome TGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC--------- agcccagtgcctcaatgattgctagagtcactcctttaaaacacaactagTGACAAGTTCACACATTTCTGTCAGTGGAAGAATATTGAGCTCAACATCCATCCAGAAACTgtaagtggttgtactccacaaaggtgactctggggggatgaagtctagtt Alignment from Pairagon TGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC--------- agcccagtgcctcaatgattgctagagtcactcctttaaaacacaactagTGACAAGTTCACACATTTCTGTCAGTGGAAGAATATTGAGCTCAACATCCATCCAGAAACTgtaagtggttgtactccacaaaggtgactctggggggatgaagtctagtt Alignment from Exonerate_protein2genome TGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC agcccagtgcctcaatgattgctagagtcactcctttaaaacacaactagTGACAAGTTCACACATTTCTGTCAGTGGAAGAATATTGAGCTCAACATCCATccagaaactgtaagtggttgtactccacaaaggtgactctggggggatgaagtctagtt Alignment from Exonerate_coding2genome TGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC agcccagtgcctcaatgattgctagagtcactcctttaaaacacaactagTGACAAGTTCACACATTTCTGTCAGTGGAAGAATATTGAGCTCAACATCCATccagaaactgtaagtggttgtactccacaaaggtgactctggggggatgaagtctagtt Alignment from GeneWise TGACAAGTTCACACGGTTCTGCCAGTGGAAGAATGTTGAGCTCAACATCCAC--------- agcccagtgcctcaatgattgctagagtcactcctttaaaacacaactagTGACAAGTTCACACATTTCTGTCAGTGGAAGAATATTGAGCTCAACATCCATCCAGAAACTgtaagtggttgtactccacaaaggtgactctggggggatgaagtctagtt #### Adrbk1_ID490_5 --> 0 - 2 Original Alignment CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGag aggcttgccagaccgaatcaccttatacacgggcccttcattatccccag------ATTGAGGAGATTTGTCAGAAACTCCGAAGGGATTTATTCCAGAAGTTCATAGAGaggtagtcaggcgaagttgacttctctgaccctgcacagccaagtgtgtcgg Alignment from CESAR CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGag agcctgaggcttgccagaccgaatctacacgggcccttcattatccccag------ATTGAGGAGATTTGTCAGAAACTCCGAAGGGATTTATTCCAGAAGTTCATAGAGaggtagtcaggcgaagttgacttctctgaccctgcacagccaagtgtgtcgg Alignment from Spaln_aa2Genome CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG aggcttgccagaccgaatcaccttatacacgggcccttcattatccccag------ATTGAGGAGATTTGTCAGAAACTCCGAAGGGATTTATTCCAGAAGTTCATAGAGAGgtagtcaggcgaagttgacttctctgaccctgcacagccaagtgtgtcgg Alignment from Spaln_nt2Genome ATTGAGGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG aggcttgccagaccgaatcaccttatacacgggcccttcattatccccagATTGAGGAGATTTGTCAGAAACTCCGAAGGGATTTATTCCAGAAGTTCATAGAGAGgtagtcaggcgaagttgacttctctgaccctgcacagccaagtgtgtcgg Alignment from Pairagon CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG aggcttgccagaccgaatcaccttatacacgggcccttcattatccccag------ATTGAGGAGATTTGTCAGAAACTCCGAAGGGATTTATTCCAGAAGTTCATAGAGAGgtagtcaggcgaagttgacttctctgaccctgcacagccaagtgtgtcgg Alignment from Exonerate_protein2genome CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG aggcttgccagaccgaatcaccttatacacgggcccttcattatCCCCAGATTGAGGAGATTTGTCAGAAACTCCGAAGGGATTTATTCCAGAAGTTCATAGAGAGgtagtcaggcgaagttgacttctctgaccctgcacagccaagtgtgtcgg Alignment from Exonerate_coding2genome CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG aggcttgccagaccgaatcaccttatacacgggcccttcattatCCCCAGATTGAGGAGATTTGTCAGAAACTCCGAAGGGATTTATTCCAGAAGTTCATAGAGAGgtagtcaggcgaagttgacttctctgaccctgcacagccaagtgtgtcgg Alignment from GeneWise ---------------------------------CCATACATTGAGGAGATTTGTCAGAACCTCCGAGGGGACGTGTTCCAGAAGTTCATAGAGAG aggcttgccagACCGAATCACCTTATACACGGGCCCTTCATTATCCCCAGATTGAGGAGATTTGTCAGAAACTCCGAAGGGATTTATTCCAGAAGTTCATAGAGAGgtagtcaggcgaagttgacttctctgaccctgcacagccaagtgtgtcgg #### Adrbk1_ID491_4 --> 0 - 0 Original Alignment ---------CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acaactcttttttcttcgttcctatccatcgtcttctttccctcctgtagCTGCTCTCCCCCTTTTCACAAAACGCTACAGAGCATGTGCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAAgtgggtttggggtggtccccatggccctcttccctccccacccagatctc Alignment from CESAR ---------CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acaactcttttttcttcgttcctatccatcgtcttctttccctcctgtagCTGCTCTCCCCCTTTTCACAAAACGCTACAGAGCATGTGCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAAgtgggtttggggtggtccccatggccctcttccctccccacccagatctc Alignment from Spaln_aa2Genome CCCTTTTCAAAG---------AATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acaactcttttttcttcgttcctatccatcgtcttctttccctcctgtagCTGCTCTCCCCCTTTTCACAAAACGCTACAGAGCATGTGCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAAgtgggtttggggtggtccccatggccctcttccctccccacccagatctc Alignment from Spaln_nt2Genome CCCTTTTCA---------AAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acaactcttttttcttcgttcctatccatcgtcttctttccctcctgtagCTGCTCTCCCCCTTTTCACAAAACGCTACAGAGCATGTGCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAAgtgggtttggggtggtccccatggccctcttccctccccacccagatctc Alignment from Pairagon ---------CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acaactcttttttcttcgttcctatccatcgtcttctttccctcctgtagCTGCTCTCCCCCTTTTCACAAAACGCTACAGAGCATGTGCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAAgtgggtttggggtggtccccatggccctcttccctccccacccagatctc Alignment from Exonerate_protein2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acaactcttttttcttcgttcctatccatcgtcttctttccctcctgtagctgctctccCCCTTTTCACAAAACGCTACAGAGCATGTGCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAAgtgggtttggggtggtccccatggccctcttccctccccacccagatctc Alignment from Exonerate_coding2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acaactcttttttcttcgttcctatccatcgtcttctttccctcctgtagctgctctccCCCTTTTCACAAAACGCTACAGAGCATGTGCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAAgtgggtttggggtggtccccatggccctcttccctccccacccagatctc Alignment from GeneWise ---------CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG acaactcttttttcttcgttcctatccatcgtcttctttccctcctgtagCTGCTCTCCCCCTTTTCACAAAACGCTACAGAGCATGTGCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAAgtgggtttggggtggtccccatggccctcttccctccccacccagatctc #### Afap1l2_ID12244_19 --> 0 - 0 Original Alignment ---CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtgttaatatatacataataatttgaccggtctttcttctcacccctcagTTTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtcagctgccgcactccaaattgtagatgtagccttgtagcccttgcacg Alignment from CESAR ---CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtgttaatatatacataataatttgaccggtctttcttctcacccctcagTTTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtcagctgccgcactccaaattgtagatgtagccttgtagcccttgcacg Alignment from Spaln_aa2Genome CCACAGCCC---AAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtgttaatatatacataataatttgaccggtctttcttctcacccctcagTTTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCAGCT---ACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtcagctgccgcactccaaattgtagatgtagccttgtagcccttgcacg Alignment from Spaln_nt2Genome TCCACAGCCC--AAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtgttaatatatacataataatttgaccggtctttcttctcacccctcagTTTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCAG---CTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtcagctgccgcactccaaattgtagatgtagccttgtagcccttgcacg Alignment from Pairagon ---CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtgttaatatatacataataatttgaccggtctttcttctcacccctcagTTTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCAG---CTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtcagctgccgcactccaaattgtagatgtagccttgtagcccttgcacg Alignment from Exonerate_protein2genome ---CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtgttaatatatacataataatttgaccggtctttcttctcacccctcagTTTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtcagctgccgcactccaaattgtagatgtagccttgtagcccttgcacg Alignment from Exonerate_coding2genome ---CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtgttaatatatacataataatttgaccggtctttcttctcacccctcagTTTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtcagctgccgcactccaaattgtagatgtagccttgtagcccttgcacg Alignment from GeneWise ---CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtgttaatatatacataataatttgaccggtctttcttctcacccctcagTTTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCACCA---GCTACACCAGTTAATTCAGCATCTGTACTAAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtcagctgccgcactccaaattgtagatgtagccttgtagcccttgcacg #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tcctcaccaggccctgcagccagaaagtgtgactcattttgatctctcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCTACCCCACGAAGCACCATGGTTAAGTTACAGGCTGAACAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCC---------------------------------------ggttgttggactaaagccgcacttagcacttgaaacctaaatccggagtct Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tcctcaccaggccctgcagccagaaagtgtgactcattttgatctctcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCTACCCCACGAAGCACCATGGTTAAGTTACAGGCTGAACAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCCGGT------------------------------------tgttggactaaa Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAG tcctcaccaggccctgcagccagaaagtgtgactcattttgatctctcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCTACCCCACGAAGCACCATGGTTAAGTTACAGGCTGAACAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCCGGTTGTTGGACTAAAgccgcacttagcacttgaaacctaaatccggagtct Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCA GCC tcctcaccaggccctgcagccagaaagtgtgactcattttgatctctcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCTACCCCACGAAGCACCATGGTTAAGTTACAGGCTGAACAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCCGgttgttggactaaagccgcacttagcacttgaaacctaaatccggagTCT Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tcctcaccaggccctgcagccagaaagtgtgactcattttgatctctcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCTACCCCACGAAGCACCATGGTTAAGTTACAGGCTGAACAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCC---------------------------------------Ggttgttggactaaagccgcacttagcacttgaaacctaaatccggagtct Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGA tcctcaccaggccctgcagccagaaagtgtgactcattttgatctctcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCTACCCCACGAAGCACCATGGTTAAGTTACAGGCTGAACAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCCGGTTGTTGGACTAAAGCCGCACTTAGCACTTgaaacctaaatccggagtct Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGA tcctcaccaggccctgcagccagaaagtgtgactcattttgatctctcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCTACCCCACGAAGCACCATGGTTAAGTTACAGGCTGAACAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCCGGTTGTTGGACTAAAGCCGCACTTAGCACTTgaaacctaaatccggagtct Alignment from GeneWise AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tcctcaccaggccctgcagccagaaagtgtgactcattttgatctctcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCTACCCCACGAAGCACCATGGTTAAGTTACAGGCTGAACAACAGAGAATCTCCTTCCCTGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATT---------------------------------------TCTGCCGgttgttggactaaagccgcacttagcacttgaaacctaaatccggagtct #### Aldh3b2_ID238_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ccattcatctgactcttcatctaccactttggctctctctaactcctcagCTCACCAAGCTTAGCTCGGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTA------------------ggtaagtggggttttgagcaacaagactggaaagcatccacccgttctgat Alignment from CESAR CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg ccattcatctgactcttcatctaccactttggctctctctaactcctcagCTCACCAAGCTTAGCTCGGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTA------------------ggtaagtggggttttgagcaacaagactggaaagcatccacccgttctgat Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTA- ccattcatctgactcttcatctaccactttggctctctctaactcctcagCTCACCAAGCTTAGCTCGGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGgtaagtggggttttgagcaacaagactggaaagcatccacccgttctgat Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAG ccattcatctgactcttcatctaccactttggctctctctaactcctcagCTCACCAAGCTTAGCTCGGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGgtaagtggggttttgagcaacaagactggaaagcatccacccgttctgat Alignment from Pairagon CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAG ccattcatctgactcttcatctaccactttggctctctctaactcctcagCTCACCAAGCTTAGCTCGGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGgtaagtggggttttgagcaacaagactggaaagcatccacccgttctgat Alignment from Exonerate_protein2genome ccattcatctgactcttcatctaccactttggctctctctaactcctcagctcaccaagcttagctcggccttcatccggaaagagccctttggtcttgtgcttatcattgcaccctggaattatcctgtgaacttgatgatcatacctttaggtaagtggggttttgagcaacaagactggaaagcatccacccgttctgat Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAG ccattcatctgactcttcatctaccactttggctctctctaactcctcagCTCACCAAGCTTAGCTCGGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGgtaagtggggttttgagcaacaagactggaaagcatccacccgttctgat Alignment from GeneWise CTCACCAAGCTGAGCTCAGCCTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGG--------------------------------------------- ccattcatctgactcttcatctaccactttggctctctctaactcctcagCTCACCAAGCTTAGCTCGGCCTTCATCCGGAAAGAGCCCTTTGGTCTTGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGGTAAGTGGGGTTTTGAGCAACAAGACTGGAAAGCATCCACCCGTTCTGAT #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG tttctgatatgcctttgggctaaatgcactgattcttttctctttaacaggaAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACACAGGCAGAG---gtaagtagctgtgagatggtgggttatggcccctactgtctcaggcccaa Alignment from CESAR gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG tttctgatatgcctttgggctaaatgcactgattcttttctctttaacaggaAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACACAGGCAGAG---gtaagtagctgtgagatggtgggttatggcccctactgtctcaggcc Alignment from Spaln_aa2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAG tttctgatatgcctttgggctaaatgcactgattcttttctctttaacagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACACAGGCAGAGgtaagtagctgtgagatggtgggttatggcccctactgtctcaggcccaa Alignment from Spaln_nt2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAG tttctgatatgcctttgggctaaatgcactgattcttttctctttaacagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACACAGGCAGAGgtaagtagctgtgagatggtgggttatggcccctactgtctcaggcccaa Alignment from Pairagon GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAG tttctgatatgcctttgggctaaatgcactgattcttttctctttaacagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACACAGGCAGAGgtaagtagctgtgagatggtgggttatggcccctactgtctcaggcccaa Alignment from Exonerate_protein2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAG tttctgatatgcctttgggctaaatgcactgattcttttctctttaacagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACACAGGCAGAGgtaagtagctgtgagatggtgggttatggcccctactgtctcaggcccaa Alignment from Exonerate_coding2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAG tttctgatatgcctttgggctaaatgcactgattcttttctctttaacagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACACAGGCAGAGgtaagtagctgtgagatggtgggttatggcccctactgtctcaggcccaa Alignment from GeneWise GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG tttctgatatgcctttgggctaaatgcactgattcttttctctttaacagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCATCTGAGGGATACAGTGTCCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACACAGGCA---GAGgtaagtagctgtgagatggtgggttatggcccctactgtctcaggcccaa #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg gcattggtcctcttttccgatgtattaactgaggtttccttttctttcagGTCGGGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGCGAGTCCTCCTCCAACATAATGCCAATGTAGGCAAAGAAAGCCACCAAGGCTGGGCTggtaagttactgggcagtgcttccatgttggtgaatggtgcctacaggact Alignment from CESAR ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg gcattggtcctcttttccgatgtattaactgaggtttccttttctttcagGTCGGGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGCGAGTCCTCCTCCAACATAATGCCAATGTAGGCAAAGAAAGCCACCAAGGCTGGGCTggtaagttactgggcagtgcttccatgttggtgaatggtgcctacaggact Alignment from Spaln_aa2Genome CACGACATT------GAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttttccgatgtattaactgaggtttccttttctttcagGTCGGGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGCGAGTCCTCCTCCAACATAATGCCAATGTAGGCAAAGAAAGCCACCAAGGCTGGGCTGgtaagttactgggcagtgcttccatgttggtgaatggtgcctacaggact Alignment from Spaln_nt2Genome ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttttccgatgtattaactgaggtttccttttctttcagGTCGGGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGCGAGTCCTCCTCCAACATAATGCCAATGTAGGCAAAGAAAGCCACCAAGGCTGGGCTGgtaagttactgggcagtgcttccatgttggtgaatggtgcctacaggact Alignment from Pairagon ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttttccgatgtattaactgaggtttccttttctttcagGTCGGGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGCGAGTCCTCCTCCAACATAATGCCAATGTAGGCAAAGAAAGCCACCAAGGCTGGGCTGgtaagttactgggcagtgcttccatgttggtgaatggtgcctacaggact Alignment from Exonerate_protein2genome ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttttccgatgtattaactgaggtttccttttctttcagGTCGGGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGCGAGTCCTCCTCCAACATAATGCCAATGTAGGCAAAGAAAGCCACCAAGGCTGGGCTGgtaagttactgggcagtgcttccatgttggtgaatggtgcctacaggact Alignment from Exonerate_coding2genome ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttttccgatgtattaactgaggtttccttttctttcagGTCGGGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGCGAGTCCTCCTCCAACATAATGCCAATGTAGGCAAAGAAAGCCACCAAGGCTGGGCTGgtaagttactgggcagtgcttccatgttggtgaatggtgcctacaggact Alignment from GeneWise ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gcattggtcctcttttccgatgtattaactgaggtttccttttctttcagGTCGGGCATGACATTGAGCAGGAGGACCCCCAAGGGCAGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGCGAGTCCTCCTCCAACATAATGCCAATGTAGGCAAAGAAAGCCACCAAGGCTGGGCTGgtaagttactgggcagtgcttccatgttggtgaatggtgcctacaggact #### Atg2a_ID1517_6 --> 0 - 1 Original Alignment TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCA---------------------------------------------------g gggttgggtggcatatgacaactctataaggtacatgttttatttcctagCTGGAGGTGTCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CAGCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAACTCTCACCCACTTCAAACCTCAGTACTTTGTGATTTTCCTTAATGGAACAggtaaggttgtactcgggagtgaaaccaggacagccaggcaggatactgtt Alignment from CESAR TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAg gggttgggtggcatatgacaactctataaggtacatgttttatttcctagCTGGAGGTGTCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CAGCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAactctcacccacttcaaacctcagtactttgtgattttccttaatggaacaggtaaggttgtactcgggagtgaaaccaggacagccaggcaggtgtttttg Alignment from Spaln_aa2Genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCC GTCAACCTTGCAG gggttgggtggcatatgacaactctataaggtacatgttttatttcctagCTGGAGGTGTCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CAGCAACTCCAGAGTCTTCTTAGTGCTgtaaaccttacaactctcacccacttcaaacctcagtactttgtgattttccttaatggaacaggtaagGTTGTACTCGGGAgtgaaaccaggacagccaggcaggatactgtt Alignment from Spaln_nt2Genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCC GTCAACCTTGCAG gggttgggtggcatatgacaactctataaggtacatgttttatttcctagCTGGAGGTGTCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCA---CCAGCAACTCCAGAGTCTTCTTAGTGCTgtaaaccttacaactctcacccacttcaaacctcagtactttgtgattttccttaatggaacagGT--------AAGgttgtactcgggagtgaaaccaggacagccaggcagg Alignment from Pairagon TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGC------------------------------------------------------------------------------------------------------- gggttgggtggcatatgacaactctataaggtacatgttttatttcctagCTGGAGGTGTCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCA---CCAGCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAACTCTCACCCACTTCAAACCTCAGTACTTTGTGATTTTCCTTAATGGAACAGGTAAGGTTGTACTCGGGAGTGAAACCAGGACAGCCAGGCAGGATACTGTT Alignment from Exonerate_protein2genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG gggttgggtggcatatgacaactctataaggtacatgttttatttcctagCTGGAGGTGTCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CAGCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAActctcacccacttcaaacctcagtactttgtgattttccttaatggaacaggtaaggttgtactcgggagtgaaaccaggacagccaggcaggatactgtt Alignment from Exonerate_coding2genome TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAGAGGCTGCTCAGTGCCGTCAACCTTGCAG gggttgggtggcatatgacaactctataaggtacatgttttatttcctagCTGGAGGTGTCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CAGCAACTCCAGAGTCTTCTTAGTGCTGTAAACCTTACAActctcacccacttcaaacctcagtactttgtgattttccttaatggaacaggtaaggttgtactcgggagtgaaaccaggacagccaggcaggatactgtt Alignment from GeneWise TTGGAGGTATCAGGACAACTGGGATCCCTGCACCTGCTTTTGACCCCGCGTCAGCTCCAGCAGCTCCAG- --AGGCTGCTCAG gggttgggtggcatatgacaactctataaggtacatgttttatttcctagCTGGAGGTGTCAGGAAAGCTGGGATCCCTACACCTGCTTCTGACCCCACATCAC---CAGCAACTCCAGAgtcttcttagtgctgtaaaccttacaactctcacccacttcaaacctcagtactttgtgattttccttaatggaacaggtaaggttgtactcgggagtgaaaccaggacagccagGCAGGATACTGTT #### Atg2a_ID1521_10 --> 1 - 0 Original Alignment CTGCCCTTGTAGCCACGTCcg g---------TTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCcggtaagaattcccttactacttttttgtaggAACGAGTTCCTATCTGGCACAGCTGTGCAGCTGTCCTGGGAGCTGCATACAGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAGCTGGAGGTTCTGGAGTGCCTATGGCACAGGGCTGCCACACCACCAGAGTACACGGAGgtaagtgcaaaagagtgttatggacgggtcccttctggtgggtgtcaggc Alignment from CESAR CTGCCCTTGTAGCCACGTCcg g---------TTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCcggtatgtattcccttactacttttttgtaggAACGAGTTCCTATCTGGCACAGCTGTGCAGCTGTCCTGGGAGCTGCATACAGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAGCTGGAGGTTCTGGAGTGCCTATGGCACAGGGCTGCCACACCACCAGAGTACACGGAGgtaagtgcaaaagagtgttatggacgggtcccttctggtgggtgtcaggc Alignment from Spaln_aa2Genome CTGCCCTTGTAGCCACGTCCG GTTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCCGgtaagaattcccttactacttttttgtaggaacgagTtcCTATCTGGCACAGCTGTGCAGCTGTCCTGGGAGCTGCATACAGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAGCTGGAGGTTCTGGAGTGCCTATGGCACAGGGCTGCCACACCACCAGAGTACACGGAGgtaagtgcaaaagagtgttatggacgggtcccttctggtgggtgtcaggc Alignment from Spaln_nt2Genome CTGCCCTTGTAGCCACGTCCG GTTAACTGGCACA--GCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCCGgtaagaattcccttactacttttttgtaggaacgagTTCCTATCTGGCACAGCTGTGCAGCTGTCCTGGGAGCTGCATACAGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAGCTGGAGGTTCTGGAGTGCCTATGGCACAGGGCTGCCACACCACCAGAGTACACGGAGgtaagtgcaaaagagtgttatggacgggtcccttctggtgggtgtcaggc Alignment from Pairagon CTGCCCTTGTAGCCACGTCCGGT--------------------------------------TAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCCGGTAAGAATTCCCTTACTACTTTTTTGTAGGAACGAGTTCCTATCTGGCACAGCTGTGCAGCTGTCCTGGGAGCTGCATACAGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAGCTGGAGGTTCTGGAGTGCCTATGGCACAGGGCTGCCACACCACCAGAGTACACGGAGgtaagtgcaaaagagtgttatggacgggtcccttctggtgggtgtcaggc Alignment from Exonerate_protein2genome CTGCCCTTGTAGCCACGTCCG GTTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCCGgtaagaattcccttactacttttttgtaggaacgagttCCTATCTGGCACAGCTGTGCAGCTGTCCTGGGAGCTGCATACAGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAGCTGGAGGTTCTGGAGTGCCTATGGCACAGGGCTGCCACACCACCAGAGTACACGGAGgtaagtgcaaaagagtgttatggacgggtcccttctggtgggtgtcaggc Alignment from Exonerate_coding2genome CTGCCCTTGTAGCCACGTCCG GTTAACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCCGgtaagaattcccttactacttttttgtaggaacgagttCCTATCTGGCACAGCTGTGCAGCTGTCCTGGGAGCTGCATACAGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAGCTGGAGGTTCTGGAGTGCCTATGGCACAGGGCTGCCACACCACCAGAGTACACGGAGgtaagtgcaaaagagtgttatggacgggtcccttctggtgggtgtcaggc Alignment from GeneWise CTGCCCTTGTAGCCACGTCCGG--TTA------------------------------------ACTGGCACAGCCGTGCAGCTGTCCTGGGAGCTGCGCACGGGCAGCCACAGCCGGAGGACAAGCAGCACCGAAGTGCACTTTGGACAGCTGGAGGTGCTGGAGTGCCTATGGCCCAGGGCTGCCACAGAGCCAGAGTACACGGAG TTGCCCTTGTAGCCACATCCGGTAAGAATTCCCTTACTACTTTTTTGTAGGAACGAGTTCCTATCTGGCACAGCTGTGCAGCTGTCCTGGGAGCTGCATACAGGCAGCCACAGCCGGCGGACAAGCAGCACTGAAGTGCACTTTGGACAGCTGGAGGTTCTGGAGTGCCTATGGCACAGGGCTGCCACACCACCAGAGTACACGGAGgtaagtgcaaaagagtgttatggacgggtcccttctggtgggtgtcaggc #### Atg2a_ID1525_14 --> 2 - 2 Original Alignment gaATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCT------------ca ggagcagggaagatccagctataaagccgaacagtgccttttaatttcaggaATTTATGAAGAAGGAGAAAAGCCACCAGTCCCCTGCTTGCGAATATCCAAAGCTCTGAACTCCAGGAGCACTGAAGCCAAGTACTTCCTACCTGTTTCCCCAGAAcagtgtgtggattgttagcaggggtggctacagagggcaaaacttttggtgg Alignment from CESAR gaATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCT------------ca ggagcagggaagatccagctataaagccgaacagtgccttttaatttcaggaATTTATGAAGAAGGAGAAAAGCCACCAGTCCCCTGCTTGCGAATATCCAAAGCTCTGAACTCCAGGAGCACTGAAGCCAAGTACTTCCTACCTGTTTCCCCAGAAcagtgtgtggattgttagcaggggtggctacagagggcaaaacttttggtgg Alignment from Spaln_aa2Genome GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCAG----------- ggagcagggaagatccagctataaagccgaacagtgccttttaatttcagGAATTTATGAAGAAGGAGAAAAGCCACCAGTCCCCTGCTTGCGAATATCCAAAGCTCTGAACTCCAGGAGCACTGAAGCCAAGTACTTCCTACCTGTTTCCCCAGAACAgtgtgtggattgttagcaggggtggctacagagggcaaaacttttggtgg Alignment from Spaln_nt2Genome GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCT ggagcagggaagatccagctataaagccgaacagtgccttttaatttcagGAATTTATGAAGAAGGAGAAAAGCCACCAGTCCCCTGCTTGCGAATATCCAAAGCTCTGAACTCCAGGAGCACTGAAGCCAAGTACTTCCTACCTgtttccccagaacagtgtgtggattgttagcaggggtggctacagagggcaaaacttttggtgg Alignment from Pairagon GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCT------------CA ggagcagggaagatccagctataaagccgaacagtgccttttaatttcagGAATTTATGAAGAAGGAGAAAAGCCACCAGTCCCCTGCTTGCGAATATCCAAAGCTCTGAACTCCAGGAGCACTGAAGCCAAGTACTTCCTACCTGTTTCCCCAGAACAgtgtgtggattgttagcaggggtggctacagagggcaaaacttttggtgg Alignment from Exonerate_protein2genome GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA ggagcagggaagatccagctataaagccgaacagtgccttttaatttcagGAATTTATGAAGAAGGAGAAAAGCCACCAGTCCCCTGCTTGCGAATATCCAAAGCTCTGAACTCCAGGAGCACTGAAGCCAAGTACTTCCTACCTGTttccccagaacagtgtgtggattgttagcaggggtggctacagagggcaaaacttttggtgg Alignment from Exonerate_coding2genome GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA ggagcagggaagatccagctataaagccgaacagtgccttttaatttcagGAATTTATGAAGAAGGAGAAAAGCCACCAGTCCCCTGCTTGCGAATATCCAAAGCTCTGAACTCCAGGAGCACTGAAGCCAAGTACTTCCTACCTGTttccccagaacagtgtgtggattgttagcaggggtggctacagagggcaaaacttttggtgg Alignment from GeneWise GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCT------------CA ggagcagggaagatccagctataaagccgaacagtgccttttaatttcagGAATTTATGAAGAAGGAGAAAAGCCACCAGTCCCCTGCTTGCGAATATCCAAAGCTCTGAACTCCAGGAGCACTGAAGCCAAGTACTTCCTACCTGTTTCCCCAGAACAgtgtgtggattgttagcaggggtggctacagagggcaaaacttttggtgg #### Atg2a_ID1530_19 --> 0 - 1 Original Alignment GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAg catagatcccaagctccaatcccagcaacacagctgtctcctgcctgcagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTAT------ggtgaatgtttgtgagtcactaagacacacattgaactgggctgggaacct Alignment from CESAR GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAg catagatcccaagctccaatcccagcaacacagctgtctcctgcctgcagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATGGTGAAtgtttgtgagtcactaagacacacattgaactgggctgggaacct Alignment from Spaln_aa2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG catagatcccaagctccaatcccagcaacacagctgtctcctgcctgcagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATGGTGAATgtttgtgagtcactaagacacacattgaactgggctgggaacct Alignment from Spaln_nt2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG catagatcccaagctccaatcccagcaacacagctgtctcctgcctgcagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATGGTGAATgtttgtgagtcactaagacacacattgaactgggctgggaacct Alignment from Pairagon GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG catagatcccaagctccaatcccagcaacacagctgtctcctgcctgcagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTAT------Ggtgaatgtttgtgagtcactaagacacacattgaactgggctgggaacct Alignment from Exonerate_protein2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG catagatcccaagctccaatcccagcaacacagctgtctcctgcctgcagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATGGTGAATgtttgtgagtcactaagacacacattgaactgggctgggaacct Alignment from Exonerate_coding2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG catagatcccaagctccaatcccagcaacacagctgtctcctgcctgcagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATGGTGAATgtttgtgagtcactaagacacacattgaactgggctgggaacct Alignment from GeneWise GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG catagatcccaagctccaatcccagcaacacagctgtctcctgcctgcagGATGAGACAGGGAAACGGCTGGATGTCACCCATGGGGGGCTGGCACTAGATGTGAAGCAAGGTACAATCTTCAGTGTAGCCCACTACCGTGGTCAACCAGGACTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTATGGTGAATgtttgtgagtcactaagacacacattgaactgggctgggaacct #### Atg2a_ID1531_20 --> 2 - 0 Original Alignment cgGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG ttaagaatatgcttagaagcttcagccatgactttgcttgtacccttcagcgGCCATTGAGGACTACCTGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATAAG---------gtaggagctaatattctacctagttcaactgaccacaggcatcctgggcc Alignment from CESAR cgGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG ttaagaatatgcttagaagcttcagccatgactttgcttgtacccttcagcgGCCATTGAGGACTACCTGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCAT---------AAGgtaggagctaatattctacctagttcaactgaccacaggcatcctgggcc Alignment from Spaln_aa2Genome CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG ttaagaatatgcttagaagcttcagccatgactttgcttgtacccttcagCGGCCATTGAGGACTACCTGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATAAG---GTAGGAgctaatattctacctagttcaactgaccacaggcatcctgg Alignment from Spaln_nt2Genome CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAG ttaagaatatgcttagaagcttcagccatgactttgcttgtacccttcagCGGCCATTGAGGACTACCTGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATAAGgtaggagctaatattctacctagttcaactgaccacaggcatcctgggcc Alignment from Pairagon CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAG ttaagaatatgcttagaagcttcagccatgactttgcttgtacccttcagCGGCCATTGAGGACTACCTGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATAAGgtaggagctaatattctacctagttcaactgaccacaggcatcctgggcc Alignment from Exonerate_protein2genome CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAG ttaagaatatgcttagaagcttcagccatgactttgcttgtacccttcagCGGCCATTGAGGACTACCTGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATAAGgtaggagctaatattctacctagttcaactgaccacaggcatcctgggcc Alignment from Exonerate_coding2genome CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAG ttaagaatatgcttagaagcttcagccatgactttgcttgtacccttcagCGGCCATTGAGGACTACCTGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCATAAGgtaggagctaatattctacctagttcaactgaccacaggcatcctgggcc Alignment from GeneWise CGGCCATTGAAGACTACCTGCTACCCACTCATTTGGAAGTGCCCAGCTTTGCTCCCCCCGCTCAGCTGGCTCCAACCATCTACCCATCAGAGGAAGGGGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGTCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCACAAGAATGTCAAG ttaagaatatgcttagaagcttcagccatgactttgcttgtacccttcagCGGCCATTGAGGACTACCTGCTACCCACCCATTTGGAAGTGCCCAGCTTTGCTCCACCCGCTCAGCTGGCTCCAACCATATATCCATCTGAGGAAGGAGTGACTGAGCGAGGAACCTTGGGCCGCAAGGGCCAGGGGCCCCCCATGCTGTCTGCAGCTGTCCGTATCCACCTGGACCCTCAT---------AAGgtaggagctaatattctacctagttcaactgaccacaggcatcctgggcc #### Atg2a_ID1533_22 --> 0 - 2 Original Alignment CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTAC------ag aaaagatcactctgttccctctccacacatttcccctccccctccaccagCTCCTGGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGATACCTGCCCCCAACCATCATCACTGTACTGCACACACATCTATTCTCCTGTGCTGTAGACTACTTTTTGaggtgagagtggggtcctgttgcgggctcatggattttaggcaggctttaca Alignment from CESAR CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTAC------ag aaaagatcactctgttccctctccacacatttcccctccccctccaccagCTCCTGGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGATACCTGCCCCCAACCATCATCACTGTACTGCACACACATCTATTCTCCTGTGCTGTAGACTACTTTTTGaggtgagagtggggtcctgttgcgggctcatggattttaggcaggctttaca Alignment from Spaln_aa2Genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTACAGG----- aaaagatcactctgttccctctccacacatttcccctccccctccaccagCTCCTGGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGATACCTGCCCCCAACCATCATCACTGTACTGCACACACATCTATTCTCCTGTGCTGTAGACTACTTTTTGAGgtgagagtggggtcctgttgcgggctcatggattttaggcaggctttaca Alignment from Spaln_nt2Genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTAC------AG aaaagatcactctgttccctctccacacatttcccctccccctccaccagCTCCTGGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGATACCTGCCCCCAACCATCATCACTGTACTGCACACACATCTATTCTCCTGTGCTGTAGACTACTTTTTGAGgtgagagtggggtcctgttgcgggctcatggattttaggcaggctttaca Alignment from Pairagon CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGAC------------------------------------------------------------- aaaagatcactctgttccctctccacacatttcccctccccctccaccagCTCCTGGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGATACCTGCCCCCAACCATCATCACTGTACTGCACACACATCTATTCTCCTGTGCTGTAGACTACTTTTTGAGGTGAGAGTGGGGTCCTGTTGCGGGCTCATGGATTTTAGGCAGGCTTTACA Alignment from Exonerate_protein2genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTAC------AG aaaagatcactctgttccctctccacacatttcccctccccctccaccagCTCCTGGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGATACCTGCCCCCAACCATCATCACTGTACTGCACACACATCTATTCTCCTGTGCTGTAGACTACTTTTTGAGgtgagagtggggtcctgttgcgggctcatggattttaggcaggctttaca Alignment from Exonerate_coding2genome CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTAC------AG aaaagatcactctgttccctctccacacatttcccctccccctccaccagCTCCTGGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGATACCTGCCCCCAACCATCATCACTGTACTGCACACACATCTATTCTCCTGTGCTGTAGACTACTTTTTGAGgtgagagtggggtcctgttgcgggctcatggattttaggcaggctttaca Alignment from GeneWise CTCCTGGACTTCTTGGATGTGCTGGATGACCCTGTGCTGGGATACCTGCCCCCAACCGTCATCACTGTCCTGCACACACATCTCTTCTCCTGCGCTGTGGACTAC------AG aaaagatcactctgttccctctccacacatttcccctccccctccaccagCTCCTGGACTTCTTAGATGTGCTGGATGACCCACTGCTGGGATACCTGCCCCCAACCATCATCACTGTACTGCACACACATCTATTCTCCTGTGCTGTAGACTACTTTTTGAGgtgagagtggggtcctgttgcgggctcatggattttaggcaggctttaca #### Atg2a_ID1534_23 --> 1 - 2 Original Alignment gCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCag ggcaggctttacagggaagaagcatgccatgatttttatcttcatttcagaCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACA---------------aggtacggtagctaccccattatccgacgggttatgcctggtccattctact Alignment from CESAR gCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCag ggcaggctttacagggaagaagcatgccatgatttttatcttcatttcagaCCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACA---------------aggtacggtagctaccccattatccgacgggttatgcctggtccattctact Alignment from Spaln_aa2Genome GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTC ggcaggctttacagggaagaagcatgccatgatttttatcttcatttcagACCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACAAGgtacggtagctaccccattatccgacgggttatgcctggtccattctact Alignment from Spaln_nt2Genome GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCAC ggcaggctttacagggaagaagcatgccatgatttttatcttcatttcagACCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACA---CAAGgtacggtagctaccccattatccgacgggttatgcctggtccattctact Alignment from Pairagon GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG ggcaggctttacagggaagaagcatgccatgatttttatcttcatttcagACCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACA---------------AGgtacggtagctaccccattatccgacgggttatgcctggtccattctact Alignment from Exonerate_protein2genome GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTC ggcaggctttacagggaagaagcatgccatgatttttatcttcatttcagACCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACAAGgtacggtagctaccccattatccgacgggttatgcctggtccattctact Alignment from Exonerate_coding2genome GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACG ggcaggctttacagggaagaagcatgccatgatttttatcttcatttcagACCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACAaggtacggtagctaccccattatccgacgggttatgcctggtccattctact Alignment from GeneWise GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTC ggcaggctttacagggaagaagcatgccatgatttttatcttcatttcagACCCCTCTACCTCCCTGTGCGCGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACAAGgtacggtagctaccccattatccgacgggttatgcctggtccattctact #### Atg2a_ID1535_24 --> 1 - 1 Original Alignment gTTCATCCTTGATGACTCCGCTCTGTACCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAg tgcagtggctcctgtgcagtagctcccctcctccctctcttccatcacaga---ATTCTTGATGACTCTGCTCTTTACCTGTCTGAGAAGTGTGAGGTTGAGAGTCTAGAGCTGCAGCGAggtaaggaggctggatcaggctcccctatactgagattgcagattgtcatg Alignment from CESAR gTTCATCCTTGATGACTCCGCTCTGTACCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAg ccctgcagtggctcctgtgcagtagccctcctccctctcttccatcacaga---ATTCTTGATGACTCTGCTCTTTACCTGTCTGAGAAGTGTGAGGTTGAGAGTCTAGAGCTGCAGCGAggtaaggaggctggatcaggctcccctatactgagattgcagattgtcatg Alignment from Spaln_aa2Genome GTTCATCCTTGATGACTCCGCTCTGTACCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAG tgcagtggctcctgtgcagtagctcccctcctccctctcttccatcacagA---ATTCTTGATGACTCTGCTCTTTACCTGTCTGAGAAGTGTGAGGTTGAGAGTCTAGAGCTGCAGCGAGgtaaggaggctggatcaggctcccctatactgagattgcagattgtcatg Alignment from Spaln_nt2Genome CATCCTTGATGACTCCGCTCTGTACCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAG tgcagtggctcctgtgcagtagctcccctcctccctctcttccatcacagAATTCTTGATGACTCTGCTCTTTACCTGTCTGAGAAGTGTGAGGTTGAGAGTCTAGAGCTGCAGCGAGgtaaggaggctggatcaggctcccctatactgagattgcagattgtcatg Alignment from Pairagon GTTCATCCTTGATGACTCCGCTCTGTACCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAG tgcagtggctcctgtgcagtagctcccctcctccctctcttccatcacag---AATTCTTGATGACTCTGCTCTTTACCTGTCTGAGAAGTGTGAGGTTGAGAGTCTAGAGCTGCAGCGAGgtaaggaggctggatcaggctcccctatactgagattgcagattgtcatg Alignment from Exonerate_protein2genome GTTCATCCTTGATGACTCCGCTCTGTACCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAG tgcagtggctcctgtgcagtagctcccctcctccctctcttccatcacagA---ATTCTTGATGACTCTGCTCTTTACCTGTCTGAGAAGTGTGAGGTTGAGAGTCTAGAGCTGCAGCGAGgtaaggaggctggatcaggctcccctatactgagattgcagattgtcatg Alignment from Exonerate_coding2genome tgcagtggctcctgtgcagtagctcccctcctccctctcttccatcacagaattcttgatgactctgctctttacctgtctgagaagtgtgaggttgagagtctagagctgcagcgaggtaaggaggctggatcaggctcccctatactgagattgcagattgtcatg Alignment from GeneWise GTTCATCCTTGATGACTCCGCTCTGTACCTGTCTGACAAGTGTGAGGTGGAGAGCCTGGATCTGCGGCGAG tgcagtggctcctgtgcagtagctcccctcctccctctcttccatcacagA---ATTCTTGATGACTCTGCTCTTTACCTGTCTGAGAAGTGTGAGGTTGAGAGTCTAGAGCTGCAGCGAGgtaaggaggctggatcaggctcccctatactgagattgcagattgtcatg #### Atg2a_ID1536_25 --> 2 - 0 Original Alignment at------TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG catgtaagggaaaggtgtaaatagtgtgctctctctttcatgctttctagacAGTTTGTATGTATGTGTGCTGGATATTGATCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGATTGgtgagtatggggccaataaaagttcggatgattatagttattgttatcct Alignment from CESAR at------TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG catgtaagggaaaggtgtaaatagtgtgctctctctttcatgctttctagacAGTTTGTATGTATGTGTGCTGGATATTGATCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGATTGgtgagtatggggccaataaaagttcggatgattatagttattgttatcct Alignment from Spaln_aa2Genome AT------TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG catgtaagggaaaggtgtaaatagtgtgctctctctttcatgctttctagACAGTTTGTATGTATGTGTGCTGGATATTGATCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGATTGgtgagtatggggccaataaaagttcggatgattatagttattgttatcct Alignment from Spaln_nt2Genome ATT--ATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG catgtaagggaaaggtgtaaatagtgtgctctctctttcatgctttctagacagTTTGTATGTATGTGTGCTGGATATTGATCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGATTGgtgagtatggggccaataaaagttcggatgattatagttattgttatcct Alignment from Pairagon AT------TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG catgtaagggaaaggtgtaaatagtgtgctctctctttcatgctttctagACAGTTTGTATGTATGTGTGCTGGATATTGATCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGATTGgtgagtatggggccaataaaagttcggatgattatagttattgttatcct Alignment from Exonerate_protein2genome AT------TATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG catgtaagggaaaggtgtaaatagtgtgctctctctttcatgctttctagACAGTTTGTATGTATGTGTGCTGGATATTGATCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGATTGgtgagtatggggccaataaaagttcggatgattatagttattgttatcct Alignment from Exonerate_coding2genome catgtaagggaaaggtgtaaatagtgtgctctctctttcatgctttctagacagtttgtatgtatgtgtgctggatattgatctcctggagcttatcatcaggacctggaagggcagcactgagggcagattggtgagtatggggccaataaaagttcggatgattatagttattgttatcct Alignment from GeneWise -----GATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG catgtaagggaaaggtgtaaatagtgtgctctctctttcatgctttctagACAGTTTGTATGTATGTGTGCTGGATATTGATCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGATTGgtgagtatggggccaataaaagttcggatgattatagttattgttatcct #### Atg2a_ID1538_27 --> 0 - 1 Original Alignment ------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGg agctggagctatccctgcctccattgctatccattcttcaacttttgcagCCGATTCTTTCAGAGAGTCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACTTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAggtagaggagagcaccccaagggcatcgagctaatcaggtccccatagcca Alignment from CESAR ------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGg agctggagctatccctgcctccattgctatccattcttcaacttttgcagCCGATTCTTTCAGAGAGTCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACTTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAggtagaggagagcaccccaagggcatcgagctaatcaggtccccatagcca Alignment from Spaln_aa2Genome CTTTCGGAGAGCCCT------GCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatccctgcctccattgctatccattcttcaacttttgcagCCGATTCTTTCAGAGAGTCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACTTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtagaggagagcaccccaagggcatcgagctaatcaggtccccatagcca Alignment from Spaln_nt2Genome C------TTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatccctgcctccattgctatccattcttcaacttttgcagCCGATTCTTTCAGAGAGTCCTGCCTCTCTGCCTTCGTGCCTAC---TGGAGACAGCCCTCATCAACCAACGAGACTTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtagaggagagcaccccaagggcatcgagctaatcaggtccccatagcca Alignment from Pairagon ------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatccctgcctccattgctatccattcttcaacttttgcagCCGATTCTTTCAGAGAGTCCTGCCTCTCTGCCTTCGTGCCTAC---TGGAGACAGCCCTCATCAACCAACGAGACTTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtagaggagagcaccccaagggcatcgagctaatcaggtccccatagcca Alignment from Exonerate_protein2genome ------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatccctgcctccattgctatccattcttcaacttttgcagCCGATTCTTTCAGAGAGTCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACTTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtagaggagagcaccccaagggcatcgagctaatcaggtccccatagcca Alignment from Exonerate_coding2genome ------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatccctgcctccattgctatccattcttcaacttttgcagCCGATTCTTTCAGAGAGTCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACTTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtagaggagagcaccccaagggcatcgagctaatcaggtccccatagcca Alignment from GeneWise ------CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG agctggagctatccctgcctccattgctatccattcttcaacttttgcagCCGATTCTTTCAGAGAGTCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACTTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtagaggagagcaccccaagggcatcgagctaatcaggtccccatagcca #### Atg2a_ID1540_29 --> 0 - 2 Original Alignment CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------------ag tgcatggctaaagatcttgtcaccacctttctctcttgtttctttcgcagCCTCAAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACAATCAAATAATTaggtgagtggcatgtaggcagcagctggttgtgttgagccgcaggcatggct Alignment from CESAR CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------------ag tgcatggctaaagatcttgtcaccacctttctctcttgtttctttcgcagCCTCAAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACAATCAAATAATTaggtgagtggcatgtaggcagcagctggttgtgttgagccgcaggcatggct Alignment from Spaln_aa2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAGA----------- tgcatggctaaagatcttgtcaccacctttctctcttgtttctttcgcagCCTCAAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACAATCAAATAATTAGgtgagtggcatgtaggcagcagctggttgtgttgagccgcaggcatggct Alignment from Spaln_nt2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACA------------G tgcatggctaaagatcttgtcaccacctttctctcttgtttctttcgcagCCTCAAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACAATCAAATAATTAGgtgagtggcatgtaggcagcagctggttgtgttgagccgcaggcatggct Alignment from Pairagon CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------------AG tgcatggctaaagatcttgtcaccacctttctctcttgtttctttcgcagCCTCAAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACAATCAAATAATTAGgtgagtggcatgtaggcagcagctggttgtgttgagccgcaggcatggct Alignment from Exonerate_protein2genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAG tgcatggctaaagatcttgtcaccacctttctctcttgtttctttcgcagCCTCAAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACAAtcaaataattaggtgagtggcatgtaggcagcagctggttgtgttgagccgcaggcatggct Alignment from Exonerate_coding2genome tgcatggctaaagatcttgtcaccacctttctctcttgtttctttcgcagcctcaagatggggagcccattgtgacacagctgcacccaggacccatcattgtgcatgacagtcacttctcccagcccctggggagcactgacctactgcgtgcacctgctcacttcccagtacccagcagccgtgtggtactatgggaggtttccttcatctggcacctctatggtggcagagactttggccttcaccctacttacaatcaaataattaggtgagtggcatgtaggcagcagctggttgtgttgagccgcaggcatggct Alignment from GeneWise CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------------AG tgcatggctaaagatcttgtcaccacctttctctcttgtttctttcgcagCCTCAAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGTGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACAATCAAATAATTAGgtgagtggcatgtaggcagcagctggttgtgttgagccgcaggcatggct #### Atg2a_ID1543_32 --> 0 - 0 Original Alignment CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cttgaggcccactaggcaccttttttttcatctgccctatgtccctgcag---------AAGGCACTGCATGTGGCTCCCACCTGCAGTGTTGGG---CCGAAGTGTTGTCTTCTAGTGTCCATGATGCCTCTGAGGCTCAATGTGGACCAAgtacgtatattattaagggcagtggcaagtggaggcccttctccacagcc Alignment from CESAR CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG agtggggctcttgaggcccactaggtttcatctgccctatgtccctgcag---------AAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCGAAGTGTTGTCTTCTAGTGTCCATGATGCCTCTGAGGCTCAATGTGGACCAAgtacgtatattattaagggcagtggcaagtggaggcccttctccacagcc Alignment from Spaln_aa2Genome AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cttgaggcccactaggcaccttttttttcatctgccctatgtccctgcagAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCGAAGTGTTGTCTTCTAGTGTCCATGATGCCTCTGAGGCTCAATGTGGACCAAgtacgtatattattaagggcagtggcaagtggaggcccttctccacagcc Alignment from Spaln_nt2Genome AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cttgaggcccactaggcaccttttttttcatctgccctatgtccctgcagAAGGCACTGCATGTGGCTCCCACCTGCAGTGT---TGGGCCGAAGTGTTGTCTTCTAGTGTCCATGATGCCTCTGAGGCTCAATGTGGACCAAgtacgtatattattaagggcagtggcaagtggaggcccttctccacagcc Alignment from Pairagon CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cttgaggcccactaggcaccttttttttcatctgccctatgtccctgcag---------AAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCGAAGTGTTGTCTTCTAGTGTCCATGATGCCTCTGAGGCTCAATGTGGACCAAgtacgtatattattaagggcagtggcaagtggaggcccttctccacagcc Alignment from Exonerate_protein2genome AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cttgaggcccactaggcaccttttttttcatctgccctatgtccctgcagAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCGAAGTGTTGTCTTCTAGTGTCCATGATGCCTCTGAGGCTCAATGTGGACCAAgtacgtatattattaagggcagtggcaagtggaggcccttctccacagcc Alignment from Exonerate_coding2genome AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cttgaggcccactaggcaccttttttttcatctgccctatgtccctgcagAAGGCACTGCATGTGGCTCCCACCTGCAGTGTT---GGGCCGAAGTGTTGTCTTCTAGTGTCCATGATGCCTCTGAGGCTCAATGTGGACCAAgtacgtatattattaagggcagtggcaagtggaggcccttctccacagcc Alignment from GeneWise AAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG cttgaggcccactaggcaccttttttttcatctgccctatgtccctgcagAAGGCACTGCATGTGGCTCCCACCTGCAGTGTTGGG---CCGAAGTGTTGTCTTCTAGTGTCCATGATGCCTCTGAGGCTCAATGTGGACCAAgtacgtatattattaagggcagtggcaagtggaggcccttctccacagcc #### Atg2a_ID1545_34 --> 2 - 2 Original Alignment ct------CCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTCag tgccataaatcctctgttccaatcttaatttcttttttgttttgttttagccCTCCTCCCTCGAGAGACCCACAGCTGGCCAGACAGCCCCCAAGAAGGACAGTCTGAGGACACAGAGACAGCCAGTAACCCACTGGAAGCTCCAGGCAGTAGCCACAGTTCATCTGACCAAGACCAACAGCCTGTCTACTTTaggtaatgtagaggggcattgggccgggctgtctaaaaacctggccaatggt Alignment from CESAR ct------CCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTCag tgccataaatcctctgttccaatcttaatttcttttttgttttgttttagccCTCCTCCCTCGAGAGACCCACAGCTGGCCAGACAGCCCCCAAGAAGGACAGTCTGAGGACACAGAGACAGCCAGTAACCCACTGGAAGCTCCAGGCAGTAGCCACAGTTCATCTGACCAAGACCAACAGCCTGTCTACTTTaggtaatgtagaggggcattgggccgggctgtctaaaaacctggccaatggt Alignment from Spaln_aa2Genome CT------CCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTCAG tgccataaatcctctgttccaatcttaatttcttttttgttttgttttagCCCTCCTCCCTCGAGAGACCCACAGCTGGCCAGACAGCCCCCAAGAAGGACAGTCTGAGGACACAGAGACAGCCAGTAACCCACTGGAAGCTCCAGGCAGTAGCCACAGTTCATCTGACCAAGACCAACAGCCTGTCTACTTTAGgtaatgtagaggggcattgggccgggctgtctaaaaacctggccaatggt Alignment from Spaln_nt2Genome C-----TCCC-CGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAG------CAGCCTATCTACTTCAG tgccataaatcctctgttccaatcttaatttcttttttgttttgttttagCCCTCCTCCCTCGAGAGACCCACAGCTGGCCAGACAGCCCCCAAGAAGGACAGTCTGAGGACACAGAGACAGCCAGTAACCCACTGGAAGCTCCAGGCAGTAGCCACAGTTCATCTGACCAAGACCAACAGCCTGTCTACTTTAGgtaatgtagaggggcattgggccgggctgtctaaaaacctggccaatggt Alignment from Pairagon ----------------------------------------------------------CCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTCAG TGCCATAAATCCTCTGTTCCAATCTTAATTTCTTTTTTGTTTTGTTTTAGCCCTCCTCCCTCGAGAGACCCACAGCTGGCCAGACAGCCCCCAAGAAGGACAGTCTGAGGACACAGAGACAGCCAGTAACCCACTGGAAGCTCCAGGCAGTAGCCACAGTTCATCTGACCAAGACCAACAGCCTGTCTACTTTAGgtaatgtagaggggcattgggccgggctgtctaaaaacctggccaatggt Alignment from Exonerate_protein2genome CTGAGGCTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTCAG tgccataaatcctctgttccaatcttaatttcttttttgttttgttttagCCCTCCTCCCTCGAGAGACCCACAGCTGGCCAGACAGCCCCCAAGAAGGACAGTCTGAGGACACAGAGACAGCCAGTAACCCACTGGAAGCTCCAGGCAGTAGCCACAGTTCATCTGACCAAGACCAACAGCCTGTCTACTTTAGgtaatgtagaggggcattgggccgggctgtctaaaaacctggccaatggt Alignment from Exonerate_coding2genome CTGAGGCTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCT------GACCAGCAGCCTATCTACTTCAG tgccataaatcctctgttccaatcttaatttcttttttgttttgttttagCCCTCCTCCCTCGAGAGACCCACAGCTGGCCAGACAGCCCCCAAGAAGGACAGTCTGAGGACACAGAGACAGCCAGTAACCCACTGGAAGCTCCAGGCAGTAGCCACAGTTCATCTGACCAAGACCAACAGCCTGTCTACTTTAGgtaatgtagaggggcattgggccgggctgtctaaaaacctggccaatggt Alignment from GeneWise -----GCTCCCCGAGAGACCCACAGCCGGCCCGGCAGCCCCCAGGAAGGGCAGTCTGAGGACACAGAGACAGCCAGCAACCCACCGGAAGCTCCAGGCAGTAGCCACAGCTCCTCTGACCAG------CAGCCTATCTACTTCAG tgccataaatcctctgttccaatcttaatttcttttttgttttgttttagCCCTCCTCCCTCGAGAGACCCACAGCTGGCCAGACAGCCCCCAAGAAGGACAGTCTGAGGACACAGAGACAGCCAGTAACCCACTGGAAGCTCCAGGCAGTAGCCACAGTTCATCTGACCAAGACCAACAGCCTGTCTACTTTAGgtaatgtagaggggcattgggccgggctgtctaaaaacctggccaatggt #### Atg2a_ID1547_36 --> 0 - 2 Original Alignment GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---gg tccagtgattgtccttacacatggccacaccaaccacctcttccccacagGGCACTTTTACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATCTGgggtgagatcccaggccctgcaggaagagtcaactgccttccctctgccttt Alignment from CESAR GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---gg tccagtgattgtccttacacatggccacaccaaccacctcttccccacagGGCACTTTTACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATCTGgggtgagatcccaggccctgcaggaagagtcaactgccttccctctgccttt Alignment from Spaln_aa2Genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGGG-- tccagtgattgtccttacacatggccacaccaaccacctcttccccacagGGCACTTTTACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATCTGGGgtgagatcccaggccctgcaggaagagtcaactgccttccctctgccttt Alignment from Spaln_nt2Genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---GG tccagtgattgtccttacacatggccacaccaaccacctcttccccacagGGCACTTTTACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATCTGGGgtgagatcccaggccctgcaggaagagtcaactgccttccctctgccttt Alignment from Pairagon GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---GG tccagtgattgtccttacacatggccacaccaaccacctcttccccacagGGCACTTTTACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATCTGGGgtgagatcccaggccctgcaggaagagtcaactgccttccctctgccttt Alignment from Exonerate_protein2genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---GG tccagtgattgtccttacacatggccacaccaaccacctcttccccacagGGCACTTTTACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATCTGGGgtgagatcccaggccctgcaggaagagtcaactgccttccctctgccttt Alignment from Exonerate_coding2genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---GG tccagtgattgtccttacacatggccacaccaaccacctcttccccacagGGCACTTTTACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATCTGGGgtgagatcccaggccctgcaggaagagtcaactgccttccctctgccttt Alignment from GeneWise GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGGG-- tccagtgattgtccttacacatggccacaccaaccacctcttccccacagGGCACTTTTACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATCTGGGgtgagatcccaggccctgcaggaagagtcaactgccttccctctgccttt #### B3gat3_ID2492_4 --> 0 - 0 Original Alignment ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG gaccaaccttctctgtcaacattctctgtcagcctcactcctctccctagATGCGCTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGTCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGTCACCTGGAAAGTAGCCTTCTAAGCCACCTTGTAGATCCCAAGGACTTGGAGTCGCGGGCTGCCAAT---------gtaggtgcacctagcattagggagagggtctaggttgagcaagtcaccca Alignment from CESAR ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGTACTCAG gaccaaccttctctgtcaacattctctgtcagcctcactcctctccctagATGCGCTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGTCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGTCACCTGGAAAGTAGCCTTCTAAGCCACCTTGTAGATCCCAAGGACTTGGAGTCGCGGGCTGCCAAT---------gtaggtgcacctagcattagggagagggtctaggttgagca Alignment from Spaln_aa2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAAT gaccaaccttctctgtcaacattctctgtcagcctcactcctctccctagATGCGCTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGTCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGTCACCTGGAAAGTAGCCTTCTAAGCCACCTTGTAGATCCCAAGGACTTGGAGTCGCGGGCTGCCAATgtaggtgcacctagcattagggagagggtctaggttgagcaagtcaccca Alignment from Spaln_nt2Genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAAT gaccaaccttctctgtcaacattctctgtcagcctcactcctctccctagATGCGCTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGTCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGTCACCTGGAAAGTAGCCTTCTAAGCCACCTTGTAGATCCCAAGGACTTGGAGTCGCGGGCTGCCAATgtaggtgcacctagcattagggagagggtctaggttgagcaagtcaccca Alignment from Pairagon ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAAT gaccaaccttctctgtcaacattctctgtcagcctcactcctctccctagATGCGCTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGTCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGTCACCTGGAAAGTAGCCTTCTAAGCCACCTTGTAGATCCCAAGGACTTGGAGTCGCGGGCTGCCAATgtaggtgcacctagcattagggagagggtctaggttgagcaagtcaccca Alignment from Exonerate_protein2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAAT gaccaaccttctctgtcaacattctctgtcagcctcactcctctccctagATGCGCTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGTCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGTCACCTGGAAAGTAGCCTTCTAAGCCACCTTGTAGATCCCAAGGACTTGGAGTCGCGGGCTGCCAATgtaggtgcacctagcattagggagagggtctaggttgagcaagtcaccca Alignment from Exonerate_coding2genome ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAAT gaccaaccttctctgtcaacattctctgtcagcctcactcctctccctagATGCGCTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGTCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGTCACCTGGAAAGTAGCCTTCTAAGCCACCTTGTAGATCCCAAGGACTTGGAGTCGCGGGCTGCCAATgtaggtgcacctagcattagggagagggtctaggttgagcaagtcaccca Alignment from GeneWise ATGCGTTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGGCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAGGATGGCCGCGTTGTGGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGGTTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCAGTTTGATGCTACTGCACCCCGGGGCCACCTGGAAAGTAGTCTCCTGAGCCACCTTGTAGATCCCAAGGACCTGGAGCCACGGGCTGCCAATTGT- gaccaaccttctctgtcaacattctctgtcagcctcactcctctccctagATGCGCTGGACTCGCGGTGTCTCAGTGTGGCCTGTGGGTCTGGTGGGTGGCCTGCGATTTGAAGGTCCTCAGGTACAAGATGGTCGTGTTGTTGGTTTCCACACAGCATGGGAACCCAACAGGCCCTTTCCCTTGGACATGGCGGGATTTGCGATTGCCCTGCCCTTGCTATTGGCTAAGCCCAATGCCCGGTTTGATGCTACTGCACCCCGGGGTCACCTGGAAAGTAGCCTTCTAAGCCACCTTGTAGATCCCAAGGACTTGGAGTCGCGGGCTGCCAATGTAGgtgcacctagcattagggagagggtctaggttgagcaagtcaccca #### BC049760_ID1437_2 --> 0 - 2 Original Alignment CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGac tacatgcctcgtgctgttcagggttttcttcttttatcccttctttatag---TCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTAAACACACCAGTGCCAATAGATGATGAGACAacgtcagtctaactgaaaagttgctcgaataatgcatatcagtgaggaattg Alignment from CESAR CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGac ttttacatgcctcgtgctgttcaggttcttcttttatcccttctttatag---TCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTAAACACACCAGTGCCAATAGATGATGAGACAacgtcagtctaactgaaaagttgctcgaataatgcatatcagtgaggaattg Alignment from Spaln_aa2Genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGAC tacatgcctcgtgctgttcagggttttcttcttttatcccttctttatag---TCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTAAACACACCAGTGCCAATAGATGATGAGACAACgtcagtctaactgaaaagttgctcgaataatgcatatcagtgaggaattg Alignment from Spaln_nt2Genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGAC tacatgcctcgtgctgttcagggttttcttcttttatcccttctttatag---TCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTAAACACACCAGTGCCAATAGATGATGAGACAACgtcagtctaactgaaaagttgctcgaataatgcatatcagtgaggaattg Alignment from Pairagon CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGAC tacatgcctcgtgctgttcagggttttcttcttttatcccttctttatag---TCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTAAACACACCAGTGCCAATAGATGATGAGACAACgtcagtctaactgaaaagttgctcgaataatgcatatcagtgaggaattg Alignment from Exonerate_protein2genome TCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGAC tacatgcctcgtgctgttcagggttttcttcttttatcccttctttatagTCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTAAACACACCAGTGCCAATAGATGATGAGACAACgtcagtctaactgaaaagttgctcgaataatgcatatcagtgaggaattg Alignment from Exonerate_coding2genome TCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGAC tacatgcctcgtgctgttcagggttttcttcttttatcccttctttatagTCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTAAACACACCAGTGCCAATAGATGATGAGACAACgtcagtctaactgaaaagttgctcgaataatgcatatcagtgaggaattg Alignment from GeneWise CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGAC tacatgcctcgtgctgttcagggttttcttcttttatcccttctttatagTCTTCC---GAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTAAACACACCAGTGCCAATAGATGATGAGACAACgtcagtctaactgaaaagttgctcgaataatgcatatcagtgaggaattg #### Bbs1_ID729_5 --> 0 - 2 Original Alignment GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCag ccagtgctcccaaactcacttccattcttgagccctctccttcctcccag---------GACCCCTTGACCCTGAAAGATATGCTGGAAGATATCaggtgcgtgttcacctttcctccttggtgcccctacatctgaaaactctcct Alignment from CESAR GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCag tggctgctgccagtgctcccaaacttcttgagccctctccttcctcccag---------GACCCCTTGACCCTGAAAGATATGCTGGAAGATATCaggtgcgtgttcacctttcctccttggtgcccctacatctgaaaactctcct Alignment from Spaln_aa2Genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG ccagtgctcccaaactcacttccattcttgagccctctccttcctcccag---------GACCCCTTGACCCTGAAAGATATGCTGGAAGATATCAGgtgcgtgttcacctttcctccttggtgcccctacatctgaaaactctcct Alignment from Spaln_nt2Genome GACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG ccagtgctcccaaactcacttccattcttgagccctctccttcctcccagGACCCCTTGACCCTGAAAGATATGCTGGAAGATATCAGgtgcgtgttcacctttcctccttggtgcccctacatctgaaaactctcct Alignment from Pairagon GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG ccagtgctcccaaactcacttccattcttgagccctctccttcctcccag---------GACCCCTTGACCCTGAAAGATATGCTGGAAGATATCAGgtgcgtgttcacctttcctccttggtgcccctacatctgaaaactctcct Alignment from Exonerate_protein2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG ccagtgctcccaaactcacttccattcttgagccctctcctTCCTCCCAGGACCCCTTGACCCTGAAAGATATGCTGGAAGATATCAGgtgcgtgttcacctttcctccttggtgcccctacatctgaaaactctcct Alignment from Exonerate_coding2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAG ccagtgctcccaaactcacttccattcttgagccctctcctTCCTCCCAGGACCCCTTGACCCTGAAAGATATGCTGGAAGATATCAGgtgcgtgttcacctttcctccttggtgcccctacatctgaaaactctcct Alignment from GeneWise ---------GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAGGGAA ccagtgctcccaaactcacttccattcttgagCCCTCTCCTTCCTCCCAGGACCCCTTGACCCTGAAAGATATGCTGGAAGATATCAGGTGCgtgttcacctttcctccttggtgcccctacatctgaaaactctcct #### Bbs1_ID732_2 --> 1 - 1 Original Alignment cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt aatttatttcatcatggggcatatcttctggctgccctcattctctctagcAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACTTTCTCCTCCTGT---tgtgaggagtctccatgaatgacttgggacatccggattctaaggggatga Alignment from CESAR cAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt aatttatttcatcatggggcatatcttctggctgccctcattctctctagcAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACTTTCTCCTCCTGT---tgtgaggagtctccatgaatgacttgggacatccggattctaaggggatga Alignment from Spaln_aa2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGC- aatttatttcatcatggggcatatcttctggctgccctcattctctctagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACTTTCTCCTCCTGTTgtgaggagtctccatgaatgacttgggacatccggattctaaggggatga Alignment from Spaln_nt2Genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT aatttatttcatcatggggcatatcttctggctgccctcattctctctagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACTTTCTCCTCCTG---TTgtgaggagtctccatgaatgacttgggacatccggattctaaggggatga Alignment from Pairagon CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT aatttatttcatcatggggcatatcttctggctgccctcattctctctagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACTTTCTCCTCCTGT---Tgtgaggagtctccatgaatgacttgggacatccggattctaaggggatga Alignment from Exonerate_protein2genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT aatttatttcatcatggggcatatcttctggctgccctcattctctctagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACTTTCTCCTCCTGTTGTGaggagtctccatgaatgacttgggacatccggattctaaggggatga Alignment from Exonerate_coding2genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT aatttatttcatcatggggcatatcttctggctgccctcattctctctagCAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACTTTCTCCTCCTGTTGTGaggagtctccatgaatgacttgggacatccggattctaaggggatga Alignment from GeneWise AGCAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCC aatttatttcatcatggggcatatcttctggctgccctcattctctctAGCAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACTTTCTCCTCCTGTTgtgaggagtctccatgaatgacttgggacatccggattctaaggggatga #### Btaf1_ID7248_27 --> 0 - 2 Original Alignment GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG------ag tgctccacttacattttacataaatttcaaacgcactgactctcttacagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGATTGATaggtatgtgaagacaaaacttgaaaatgatggccctaaatcctgatcaatgt Alignment from CESAR GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG------ag tgctccacttacattttacataaatttcaaacgcactgactctcttacagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGATTGATaggtatgtgaagacaaaacttgaaaatgatggccctaaatcctgatcaatgt Alignment from Spaln_aa2Genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGAGG----- tgctccacttacattttacataaatttcaaacgcactgactctcttacagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGATTGATAGgtatgtgaagacaaaacttgaaaatgatggccctaaatcctgatcaatgt Alignment from Spaln_nt2Genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGA------G tgctccacttacattttacataaatttcaaacgcactgactctcttacagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGATTGATAGgtatgtgaagacaaaacttgaaaatgatggccctaaatcctgatcaatgt Alignment from Pairagon GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG---------------------------------------------------------- tgctccacttacattttacataaatttcaaacgcactgactctcttacagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGATTGATAGGTATGTGAAGACAAAACTTGAAAATGATGGCCCTAAATCCTGATCAATGT Alignment from Exonerate_protein2genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG------AG tgctccacttacattttacataaatttcaaacgcactgactctcttacagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGATTGATAGgtatgtgaagacaaaacttgaaaatgatggccctaaatcctgatcaatgt Alignment from Exonerate_coding2genome GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG------AG tgctccacttacattttacataaatttcaaacgcactgactctcttacagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGATTGATAGgtatgtgaagacaaaacttgaaaatgatggccctaaatcctgatcaatgt Alignment from GeneWise GATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAG------AG tgctccacttacattttacataaatttcaaacgcactgactctcttacagGATGGTGTGAACTGGTTAGCCTTTCTCAATAAGTATAAGCTTCATGGAATTCTGTGTGATGACATGGGCTTAGGAAAAACATTACAGTCCATCTGCATTCTAGCAGGAGATCACTGTCAGATTGATAGgtatgtgaagacaaaacttgaaaatgatggccctaaatcctgatcaatgt #### C030046E11Rik_ID6307_21 --> 0 - 2 Original Alignment GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag caaagcatctttgattagaactcttcaaagcttctcctgtctattgccag------AGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAaggtatgggaatagagagaagttatggctccagagctttcctacacttttca Alignment from CESAR GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAag cagcctcaaagcatctttgattagacaaagcttctcctgtctattgccag------AGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAaggtatgggaatagagagaagttatggctccagagctttcctacacttttca Alignment from Spaln_aa2Genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagcatctttgattagaactcttcaaagcttctcctgtctattgccag------AGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAAGgtatgggaatagagagaagttatggctccagagctttcctacacttttca Alignment from Spaln_nt2Genome CAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagcatctttgattagaactcttcaaagcttctcctgtctattgccag-AGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAAGgtatgggaatagagagaagttatggctccagagctttcctacacttttca Alignment from Pairagon GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagcatctttgattagaactcttcaaagcttctcctgtctattgccag------AGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAAGgtatgggaatagagagaagttatggctccagagctttcctacacttttca Alignment from Exonerate_protein2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagcatctttgattagaactcttcaaagcttctcctgtctatTGCCAGAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAAGgtatgggaatagagagaagttatggctccagagctttcctacacttttca Alignment from Exonerate_coding2genome GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagcatctttgattagaactcttcaaagcttctcctgtctatTGCCAGAGTTCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAAGgtatgggaatagagagaagttatggctccagagctttcctacacttttca Alignment from GeneWise GAGCCCAGTTCAAGTGGTGGGTTTGAGTTCTTCAGGAATCGGAGCATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGTAAATTCGGCTTACAGAAAACACTAAGTATGCCAACTGGTCCTTCTGGGAAAAG caaagcatctttgattagaactcttcaaagcttctcctgtctattgccagAGT------TCAAGTGGGGGGTTTGAGTTCTTCAGGAATCGGAGTATCAGTTTATCCCAGTCAGCTGAGAATGTTCCTCCTGGCAAATTTGGCTTACAAAAAACATTAAGTATGCCAACTGGTCCTTCTGGGAAAAGgtatgggaatagagagaagttatggctccagagctttcctacacttttca #### Capn1_ID1359_17 --> 0 - 0 Original Alignment ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacacaaatgctttaggccaagtaggtccatattcccctccattacagCTCCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAATTCAACATCCTATGGAACCATATCCGAAATTATCTGgtgagcggcaggatgttctctggcgtgttccctgggacctcatatggaaa Alignment from CESAR ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacacaaatgctttaggccaagtaggtccatattcccctccattacagCTCCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAATTCAACATCCTATGGAACCATATCCGAAATTATCTGgtgagcggcaggatgttctctggcgtgttccctgggacctcatatggaaa Alignment from Spaln_aa2Genome CGAGATGGCAAC---GGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacacaaatgctttaggccaagtaggtccatattcccctccattacagCTCCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAATTCAACATCCTATGGAACCATATCCGAAATTATCTGgtgagcggcaggatgttctctggcgtgttccctgggacctcatatggaaa Alignment from Spaln_nt2Genome CGAGATGGCAA---CGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacacaaatgctttaggccaagtaggtccatattcccctccattacagCTCCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAATTCAACATCCTATGGAACCATATCCGAAATTATCTGgtgagcggcaggatgttctctggcgtgttccctgggacctcatatggaaa Alignment from Pairagon ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacacaaatgctttaggccaagtaggtccatattcccctccattacagCTCCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAATTCAACATCCTATGGAACCATATCCGAAATTATCTGgtgagcggcaggatgttctctggcgtgttccctgggacctcatatggaaa Alignment from Exonerate_protein2genome ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacacaaatgctttaggccaagtaggtccatattcccctccattacagCTCCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAATTCAACATCCTATGGAACCATATCCGAAATTATCTGgtgagcggcaggatgttctctggcgtgttccctgggacctcatatggaaa Alignment from Exonerate_coding2genome ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacacaaatgctttaggccaagtaggtccatattcccctccattacagCTCCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAATTCAACATCCTATGGAACCATATCCGAAATTATCTGgtgagcggcaggatgttctctggcgtgttccctgggacctcatatggaaa Alignment from GeneWise ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacacaaatgctttaggccaagtaggtccatattcccctccattacagCTCCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAATTCAACATCCTATGGAACCATATCCGAAATTATCTGgtgagcggcaggatgttctctggcgtgttccctgggacctcatatggaaa #### Capn1_ID1363_13 --> 1 - 0 Original Alignment gGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG ctccctatgtccctaggccgctttgactctaaatctctctccttcaccaggGAACTAGATGACCAGATTCAGGCTAACCTCCCT------gtaaaaacggggggttcctttgtctcccttgatactcaaataggacgtga Alignment from CESAR gGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG ctccctatgtccctaggccgctttgactctaaatctctctccttcaccaggGAACTAGATGACCAGATTCAGGCTAACCTCCCT------gtaaaaacggggggttcctttgtctcccttgatactcaaatagg Alignment from Spaln_aa2Genome GGAACTAGATGACCAGATCCAGGCCAACCTCCCT ctccctatgtccctaggccgctttgactctaaatctctctccttcaccagGGAACTAGATGACCAGATTCAGGCTAACCTCCCTgtaaaaacggggggttcctttgtctcccttgatactcaaataggacgtga Alignment from Spaln_nt2Genome GGAACTAGATGACCAGATCCAGGCCAACCTCCCT GAT ctccctatgtccctaggccgctttgactctaaatctctctccttcaccagGGAACTAGATGACCAGATTCAGGCTAACCTCCCTgtaaaaacggggggttcctttgtctcccttgatactcaaatagGACgtga Alignment from Pairagon GGAACTAGATGACCAGATCCAGGCCAACCTCCCT ctccctatgtccctaggccgctttgactctaaatctctctccttcaccagGGAACTAGATGACCAGATTCAGGCTAACCTCCCTgtaaaaacggggggttcctttgtctcccttgatactcaaataggacgtga Alignment from Exonerate_protein2genome GGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG ctccctatgtccctaggccgctttgactctaaatctctctccttcaccagGGAACTAGATGACCAGATTCAGGCTAACCTCCCTGTAAAAacggggggttcctttgtctcccttgatactcaaataggacgtga Alignment from Exonerate_coding2genome GGAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAG ctccctatgtccctaggccgctttgactctaaatctctctccttcaccagGGAACTAGATGACCAGATTCAGGCTAACCTCCCTGTAAAAacggggggttcctttgtctcccttgatactcaaataggacgtga Alignment from GeneWise ---------------------------------------------------GAACTAGATGACCAGATCCAGGCCAACCTCCCTGATGAGAAAGTT- CTCCCTATGTCCCTAGGCCGCTTTGACTCTAAATCTCTCTCCTTCACCAGGGAACTAGATGACCAGATTCAGGCTAACCTCCCTGTAAAAACGGGGGgttcctttgtctcccttgatactcaaataggacgtga #### Capn1_ID1376_2 --> 0 - 1 Original Alignment GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ttctgaggcacctcaaacaagggccaagaatgctgttttttgtgatttagGAACTGATGTCAAACCCCCAATTCATCGTAGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCA---ggtaaatagtccctgggggtggggtgctgggtgtttgatctatgttctctg Alignment from CESAR GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGg ttctgaggcacctcaaacaagggccaagaatgctgttttttgtgatttagGAACTGATGTCAAACCCCCAATTCATCGTAGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCA---ggtaaatagtccctgggggtggggtgctgggtgtttgatctatgttctctg Alignment from Spaln_aa2Genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCA- ttctgaggcacctcaaacaagggccaagaatgctgttttttgtgatttagGAACTGATGTCAAACCCCCAATTCATCGTAGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCAGgtaaatagtccctgggggtggggtgctgggtgtttgatctatgttctctg Alignment from Spaln_nt2Genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ttctgaggcacctcaaacaagggccaagaatgctgttttttgtgatttagGAACTGATGTCAAACCCCCAATTCATCGTAGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCA---Ggtaaatagtccctgggggtggggtgctgggtgtttgatctatgttctctg Alignment from Pairagon GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCA--------------------------CTGG ttctgaggcacctcaaacaagggccaagaatgctgttttttgtgatttagGAACTGATGTCAAACCCCCAATTCATCGTAGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCAGGTAAATAGTCCCTGGGGGTGGGGTGCTGGgtgtttgatctatgttctctg Alignment from Exonerate_protein2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ttctgaggcacctcaaacaagggccaagaatgctgttttttgtgatttagGAACTGATGTCAAACCCCCAATTCATCGTAGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCA---Ggtaaatagtccctgggggtggggtgctgggtgtttgatctatgttctctg Alignment from Exonerate_coding2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ttctgaggcacctcaaacaagggccaagaatgctgttttttgtgatttagGAACTGATGTCAAACCCCCAATTCATCGTAGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCA---Ggtaaatagtccctgggggtggggtgctgggtgtttgatctatgttctctg Alignment from GeneWise GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCAC ttctgaggcacctcaaacaagggccaagaatgctgttttttgtgatttagGAACTGATGTCAAACCCCCAATTCATCGTAGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCAGgtaaatagtccctgggggtggggtgctgggtgtttgatctatgttctctg #### Ccdc88b_ID1826_23 --> 1 - 2 Original Alignment GAGTACct gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa GAGTATctgtaagaatgctcagggtcaggtctctttcccttccccactaggGACCAACTTAACGCCTTGCACCAGGAGAAACAGAAGCTGGTTGAG---ATCATGGACCAGTACCGTGTACTAGAA---------------------aagttgtacagtaccttgcagaaagactgacggacgaatcgacgccaggctc Alignment from CESAR GAGTACct gGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCaa GAGTATctgttagtatgctcagggtcaggtctctttcccttccccactaggGACCAACTTAACGCCTTGCACCAGGAGAAACAGAAGCTGGTTGAG---ATCATGGACCAGTACCGTGTACTAGAA------------------AAGttgtacagtaccttgcagaaagactgacggacgaatcgacgccaggctc Alignment from Spaln_aa2Genome GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACC GAGTATCTgtaagaatgctcagggtcaggtctctttcccttccccactagGGACCAACTTAACGCCTTGCACCAGGAGAAACAGAAGCTGGTTGAG---ATCATGGACCAGTACCGTGTACTAGAAAAgttgtacagtaccttgcagaaagactgacggacgaatcgacgccaggctc Alignment from Spaln_nt2Genome GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCC GAGTATCTgtaagaatgctcagggtcaggtctctttcccttccccactagGGACCAACTTAACGCCTTGCACCAGGAGAAACAGAAGCTGGTTGAG---ATCATGGACCAGTACCGTGTACTAGAAAAGTTGTACAgtaccttgcagaaagactgacggacgaatcgacgccaggctc Alignment from Pairagon GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAA GAGTATCTgtaagaatgctcagggtcaggtctctttcccttccccactagGGACCAACTTAACGCCTTGCACCAGGAGAAACAGAAGCTGGTTGAG---ATCATGGACCAGTACCGTGTACTAGAA---------------------AAgttgtacagtaccttgcagaaagactgacggacgaatcgacgccaggctc Alignment from Exonerate_protein2genome GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGG GAGTATCTgtaagaatgctcagggtcaggtctctttcccttccccactagGGACCAACTTAACGCCTTGCACCAGGAGAAACAGAAGCTGGTTGAG---ATCATGGACCAGTACCGTGTACTAGAAAAGTTGtacagtaccttgcagaaagactgacggacgaatcgacgccaggctc Alignment from Exonerate_coding2genome GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGG GAGTATCTgtaagaatgctcagggtcaggtctctttcccttccccactagGGACCAACTTAACGCCTTGCACCAGGAGAAACAGAAGCTGGTTGAG---ATCATGGACCAGTACCGTGTACTAGAAAAGTTGtacagtaccttgcagaaagactgacggacgaatcgacgccaggctc Alignment from GeneWise GAGTACCT GGACCAGCTTAATGCCTTGCGCCGGGAGAAACAGAAGCTGGTGGAGAAAATCATGGACCAGTACCGTGTGCTAGAACCTGGGCCCCTACCCCGTACCAAG-- GAGTATCTgtaagaatgctcagggtcaggtctctttcccttccccactagGGACCAACTTAACGCCTTGCACCAGGAGAAACAGAAGCTGGTTGAG---ATCATGGACCAGTACCGTGTACTAGAA---------------------AAGTTgtacagtaccttgcagaaagactgacggacgaatcgacgccaggctc #### Ccdc88b_ID1827_22 --> 0 - 2 Original Alignment CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTAC------------------------ct gGACCAGC ctggacagtccagggcctggtattcaacagtgactgttctttgtttctagCTTCTGACCCAGCTCCGCAGTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTCAAGGCCTTAAGTCGGACGAACAGGGAGCTGCTGGAGCGTAGTTTGGAGAGT---GACCCTCTGCATCGTGAGCAGCCAGAGTATGTATTTGGACCTGAAACTTCACAActgtaagtatgctcagggtcagttcccaatgtcttaacttacaggGACCAAC Alignment from CESAR CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACct gGACCAGC ctggacagtccagggcctggtattcaacagtgactgttctttgtttctagCTTCTGACCCAGCTCCGCAGTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTCAAGGCCTTAAGTCGGACGAACAGGGAGCTGCTGGAGCGTAGTTTGGAGAGT---GACCCTCTGCATCGTGAGCAGCCAGAGT--atgtatttggacctgaaacttcacaactgtaagtatgctcagggtcaggtctctttcccttccccactaggGACCAAC Alignment from Spaln_aa2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT GGACCAGC ctggacagtccagggcctggtattcaacagtgactgttctttgtttctagCTTCTGACCCAGCTCCGCAGTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTCAAGGCCTTAAGTCGGACGAACAGGGAGCTGCTGGAGCGTAGTTTGGAGAGT---GACCCTCTGCATCGTGAGCAGCCAGAGTATGTatttggacctgaaacttcacaactgtaagtatgctcagggtcagttcccaatgtcttaacttacagGGACCAAC Alignment from Spaln_nt2Genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT GGACCAGC ctggacagtccagggcctggtattcaacagtgactgttctttgtttctagCTTCTGACCCAGCTCCGCAGTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTCAAGGCCTTAAGTCGGACGAACAGGGAGCTGCTGGAGCGTAGTTTGGAGA---GTGACCCTCTGCATCGTGAGCAGCCAGAGTA--TgtatttggacctgaaacttcacaactgtaagtatgctcagggtcagttcccaatgtcttaacttacagGGACCAAC Alignment from Pairagon CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTAC------------------------CT GGACCAGC ctggacagtccagggcctggtattcaacagtgactgttctttgtttctagCTTCTGACCCAGCTCCGCAGTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTCAAGGCCTTAAGTCGGACGAACAGGGAGCTGCTGGAGCGTAGTTTGGAGA---GTGACCCTCTGCATCGTGAGCAGCCAGAGTATGTATTTGGACCTGAAACTTCACAACTgtaagtatgctcagggtcagttcccaatgtcttaacttacagGGACCAAC Alignment from Exonerate_protein2genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT GGACCAGC ctggacagtccagggcctggtattcaacagtgactgttctttgtttctagCTTCTGACCCAGCTCCGCAGTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTCAAGGCCTTAAGTCGGACGAACAGGGAGCTGCTGGAGCGTAGTTTGGAGAGT---GACCCTCTGCATCGTGAGCAGCCAGAGTATGTatttggacctgaaacttcacaactgtaagtatgctcagggtcagttcccaatgtcttaacttacagGGACCAAC Alignment from Exonerate_coding2genome CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTACCT GGACCAGC ctggacagtccagggcctggtattcaacagtgactgttctttgtttctagCTTCTGACCCAGCTCCGCAGTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTCAAGGCCTTAAGTCGGACGAACAGGGAGCTGCTGGAGCGTAGTTTGGAGAGT---GACCCTCTGCATCGTGAGCAGCCAGAGTATGTatttggacctgaaacttcacaactgtaagtatgctcagggtcagttcccaatgtcttaacttacagGGACCAAC Alignment from GeneWise CTTCTGACCCAGCTTCGCAGCGCGCAGGAGGAGGAGAACAGGCAGCTGTTAGCCGAGGTCCAGGCCCTGAGCCGGGAGAACAGGGAGCTGCTGGAGCGCAGCCTGGAGAGCCGCGACCATCTGCATCGAGAGCAGCGAGAGTAC------------------------CT GGACCAGC ctggacagtccagggcctggtattcaacagtgactgttctttgtttctagCTTCTGACCCAGCTCCGCAGTGTACAAGAGGAGGAGAACAGGCAGCTTTTAGCAGAGGTCAAGGCCTTAAGTCGGACGAACAGGGAGCTGCTGGAGCGTAGTTTGGAGAGT---GACCCTCTGCATCGTGAGCAGCCAGAGTATGTATTTGGACCTGAAACTTCACAACTgtaagtatgctcagggtcagttcccaatgtcttaacttacagGGACCAAC #### Ccdc88b_ID1829_20 --> 1 - 2 Original Alignment gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---ag ctcaaaaagctggtgagcataggctcccttctagctttttttttttctaggCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAAGAGCTGCGCAGACTTCAGAATGAGCATCAGGTGaggtgagcactttggttcagccctgcccccccacccccactcctggcttagc Alignment from CESAR gCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---ag ctcaaaaagctggtgagcataggctcccttctagctttttttttttctaggCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAAGAGCTGCGCAGACTTCAGAATGAGCATCAGGTGaggtgagcactttggttcagccctgcccccccacccccactcctggcttagc Alignment from Spaln_aa2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAGA-- ctcaaaaagctggtgagcataggctcccttctagctttttttttttctagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAAGAGCTGCGCAGACTTCAGAATGAGCATCAGGTGAGgtgagcactttggttcagccctgcccccccacccccactcctggcttagc Alignment from Spaln_nt2Genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---AG ctcaaaaagctggtgagcataggctcccttctagctttttttttttctagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAAGAGCTGCGCAGACTTCAGAATGAGCATCAGGTGAGgtgagcactttggttcagccctgcccccccacccccactcctggcttagc Alignment from Pairagon GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG ctcaaaaagctggtgagcataggctcccttctagctttttttttttctagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAAGAGCTGCGCAGACTTCAGAATGAGCATCAGgtgaggtgagcactttggttcagccctgcccccccacccccactcctggcttagc Alignment from Exonerate_protein2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---AG ctcaaaaagctggtgagcataggctcccttctagctttttttttttctagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAAGAGCTGCGCAGACTTCAGAATGAGCATCAGGTGAGgtgagcactttggttcagccctgcccccccacccccactcctggcttagc Alignment from Exonerate_coding2genome GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAG---AG ctcaaaaagctggtgagcataggctcccttctagctttttttttttctagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAAGAGCTGCGCAGACTTCAGAATGAGCATCAGGTGAGgtgagcactttggttcagccctgcccccccacccccactcctggcttagc Alignment from GeneWise GCATGAGCAGTTGCAGGCCCAACGGGCCAATGTGGAAGCACAAGAGGTAGCCCTACTGGCAGAGCGTGAGCGCCTGATGCAGGATGGACATCGGCAGCGCGGCCTGGAGGAGGAGCTGCGGAGACTTCAGAATGAGCACGAGAGA-- ctcaaaaagctggtgagcataggctcccttctagctttttttttttctagGCGTGAGCAGTTGCATGCCCAGCGGGCCAATGTTGAGGCTCAAGAGGTAGCCCTACTGGCAGAGCGTGAACACTTGATGCAGGATGGGCATCGGCAGCGTGGTCTGGATGAAGAGCTGCGCAGACTTCAGAATGAGCATCAGGTGAGgtgagcactttggttcagccctgcccccccacccccactcctggcttagc #### Ccdc88b_ID1833_16 --> 1 - 0 Original Alignment g------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagtagtaaggactgggtgttaagtcctgtttttattctcattttgacaggTTTTTCTACCGGCATCTGGAGCAGCGTCTAGAAGCCGAGCTGCAGGCAACATCTGCCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGTACGAGCCTTGCAGTTGGAGGAGGAGCTCATCGAGgtaagtctgcctgatacaaaagggctggcaaccttctacaatccatcaag Alignment from CESAR g------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagtagtaaggactgggtgttaagtcctgtttttattctcattttgacaggTTTTTCTACCGGCATCTGGAGCAGCGTCTAGAAGCCGAGCTGCAGGCAACATCTGCCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGTACGAGCCTTGCAGTTGGAGGAGGAGCTCATCGAGgtaagtctgcctgatacaaaagggctggcaaccttctacaatccatcaag Alignment from Spaln_aa2Genome GTACCGGCAT------CTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagtagtaaggactgggtgttaagtcctgtttttattctcattttgacagGTTTTTCTACCGGCATCTGGAGCAGCGTCTAGAAGCCGAGCTGCAGGCAACATCTGCCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGTACGAGCCTTGCAGTTGGAGGAGGAGCTCATCGAGgtaagtctgcctgatacaaaagggctggcaaccttctacaatccatcaag Alignment from Spaln_nt2Genome GTACCGGCATC------TGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagtagtaaggactgggtgttaagtcctgtttttattctcattttgacagGTTTTTCTACCGGCATCTGGAGCAGCGTCTAGAAGCCGAGCTGCAGGCAACATCTGCCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGTACGAGCCTTGCAGTTGGAGGAGGAGCTCATCGAGgtaagtctgcctgatacaaaagggctggcaaccttctacaatccatcaag Alignment from Pairagon ---------------------------------------------------------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG GAGTAGTAAGGACTGGGTGTTAAGTCCTGTTTTTATTCTCATTTTGACAGGTTTTTCTACCGGCATCTGGAGCAGCGTCTAGAAGCCGAGCTGCAGGCAACATCTGCCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGTACGAGCCTTGCAGTTGGAGGAGGAGCTCATCGAGgtaagtctgcctgatacaaaagggctggcaaccttctacaatccatcaag Alignment from Exonerate_protein2genome G------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagtagtaaggactgggtgttaagtcctgtttttattctcattttgacagGTTTTTCTACCGGCATCTGGAGCAGCGTCTAGAAGCCGAGCTGCAGGCAACATCTGCCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGTACGAGCCTTGCAGTTGGAGGAGGAGCTCATCGAGgtaagtctgcctgatacaaaagggctggcaaccttctacaatccatcaag Alignment from Exonerate_coding2genome G------TACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagtagtaaggactgggtgttaagtcctgtttttattctcattttgacagGTTTTTCTACCGGCATCTGGAGCAGCGTCTAGAAGCCGAGCTGCAGGCAACATCTGCCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGTACGAGCCTTGCAGTTGGAGGAGGAGCTCATCGAGgtaagtctgcctgatacaaaagggctggcaaccttctacaatccatcaag Alignment from GeneWise ----AGGTACCGGCATCTGGAGCAGCGTCTGGAAGCTGAGCTGCAGGCAGCGTCTACCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGCTCGAGCCCTGCAGCTGGAGGAGGAGCTGATTCAG gagtagtaaggactgggtgttaagtcctgtttttattctcattttgacagGTTTTTCTACCGGCATCTGGAGCAGCGTCTAGAAGCCGAGCTGCAGGCAACATCTGCCAGTAAGGAGGAGGCACTGATGGAGCTCAAGGTACGAGCCTTGCAGTTGGAGGAGGAGCTCATCGAGgtaagtctgcctgatacaaaagggctggcaaccttctacaatccatcaag #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg ggttaagcaagcttaatgaacaggacacctcatcttcccatttcttgaagGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCA---------------------ggtaaggtaggtctagggtaagaatatctccgctaacgatcacggcaagga Alignment from CESAR GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg ggttaagcaagcttaatgaacaggacacctcatcttcccatttcttgaagGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCA---------------------ggtaaggtaggtctagggtaagaatatctccgctaacgatcacggcaagga Alignment from Spaln_aa2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCAC ggttaagcaagcttaatgaacaggacacctcatcttcccatttcttgaagGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCAGgtaaggtaggtctagggtaagaatatctccgctaacgatcacggcaagga Alignment from Spaln_nt2Genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggttaagcaagcttaatgaacaggacacctcatcttcccatttcttgaagGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCA-GGTAAGGTAGGTCT----AGGgtaagaatatctccgctaacgatcacggca Alignment from Pairagon GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggttaagcaagcttaatgaacaggacacctcatcttcccatttcttgaagGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCA---------------------Ggtaaggtaggtctagggtaagaatatctccgctaacgatcacggcaagga Alignment from Exonerate_protein2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGG ggttaagcaagcttaatgaacaggacacctcatcttcccatttcttgaagGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCAGGTAAGGTAGGTCTAGGgtaagaatatctccgctaacgatcacggcaagga Alignment from Exonerate_coding2genome GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGG ggttaagcaagcttaatgaacaggacacctcatcttcccatttcttgaagGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCAGGTAAGGTAGGTCTAGGgtaagaatatctccgctaacgatcacggcaagga Alignment from GeneWise GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGGCC- ggttaagcaagcttaatgaacaggacacctcatcttcccatttcttgaagGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCA---------------GGTAAGGTAGgtctagggtaagaatatctccgctaacgatcacggcaagga #### Ccdc88b_ID1844_5 --> 2 - 0 Original Alignment aaGAGGCAGTGGAC------------------------------------------------------GAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG------ ttgttctctgccctatatccttattttggatcttatctccacctctttagagGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGCTGGGGGCTTCAATACAGGTGAAGAGGGAGCTAGAAAGCATCCTTAGGTTGTTGCTAGGGGCTTCAGTGCGGATGTTGgtaagttcaggatggggaaaaggaatggagttcagacaggaagtgggacc Alignment from CESAR aaGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgttctctgccctatatccttattttggatcttatctccacctctttagagGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGCTGGGGGCTTCAATACAGgtgaagagggagctagaaagcatccttaggttgttgctaggggcttcagtgcggatgttggtaagttcaggatggggaaaaggaatggagttcagacaggaagtgggacc Alignment from Spaln_aa2Genome AAGAG GCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG------ ttgttctctgccctatatccttattttggatcttatctccacctctttagAGGAGgcagtggatgagctagagagcatcctgcggttgttgctgggggcttcaatacagGTGAAGAGGGAGCTAGAAAGCATCCTTAGGTTGTTGCTAGGGGCTTCAGTGCGGATGTTGgtaagttcaggatggggaaaaggaatggagttcagacaggaagtgggacc Alignment from Spaln_nt2Genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgttctctgccctatatccttattttggatcttatctccacctctttagAGGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGCTGGGGGCTTCAATACAGgtgaagagggagctagaaagcatccttaggttgttgctaggggcttcagtgcggatgttggtaagttcaggatggggaaaaggaatggagttcagacaggaagtgggacc Alignment from Pairagon AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgttctctgccctatatccttattttggatcttatctccacctctttagAGGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGCTGGGGGCTTCAATACAGgtgaagagggagctagaaagcatccttaggttgttgctaggggcttcagtgcggatgttggtaagttcaggatggggaaaaggaatggagttcagacaggaagtgggacc Alignment from Exonerate_protein2genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgttctctgccctatatccttattttggatcttatctccacctctttagAGGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGCTGGGGGCTTCAATACAGgtgaagagggagctagaaagcatccttaggttgttgctaggggcttcagtgcggatgttggtaagttcaggatggggaaaaggaatggagttcagacaggaagtgggacc Alignment from Exonerate_coding2genome AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgttctctgccctatatccttattttggatcttatctccacctctttagAGGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGCTGGGGGCTTCAATACAGgtgaagagggagctagaaagcatccttaggttgttgctaggggcttcagtgcggatgttggtaagttcaggatggggaaaaggaatggagttcagacaggaagtgggacc Alignment from GeneWise AAGAGGCAGTGGACGAGCTGGAAAGCATCCTTCGGCTGTTGCTGGGGGCCTCAGTGCAG ttgttctctgccctatatccttattttggatcttatctccacctctttagAGGAGGCAGTGGATGAGCTAGAGAGCATCCTGCGGTTGTTGCTGGGGGCTTCAATACAGgtgaagagggagctagaaagcatccttaggttgttgctaggggcttcagtgcggatgttggtaagttcaggatggggaaaaggaatggagttcagacaggaagtgggacc #### Ccdc88b_ID1846_3 --> 1 - 0 Original Alignment t------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG gggccaatggacccaggcttacacccatagcactgtccttctctccacagtTTTGAAGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCTGCTTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTATCAGgtaagttatcaggatggtgaagtgtgaggcccagaagcacctattatgat Alignment from CESAR t------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG gggccaatggacccaggcttacacccatagcactgtccttctctccacagtTTTGAAGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCTGCTTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTATCAGgtaagttatcaggatggtgaagtgtgaggcccagaagcacctattatgat Alignment from Spaln_aa2Genome T------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCA gggccaatggacccaggcttacacccatagcactgtccttctctccacagTTTTGAAGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCTGCTTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTATCAGgtaagttatcaggatggtgaagtgtgaggcccagaagcacctattatgat Alignment from Spaln_nt2Genome T------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG gggccaatggacccaggcttacacccatagcactgtccttctctccacagTTTTGAAGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCTGCTTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTATCAGgtaagttatcaggatggtgaagtgtgaggcccagaagcacctattatgat Alignment from Pairagon T------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG gggccaatggacccaggcttacacccatagcactgtccttctctccacagTTTTGAAGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCTGCTTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTATCAGgtaagttatcaggatggtgaagtgtgaggcccagaagcacctattatgat Alignment from Exonerate_protein2genome T------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG gggccaatggacccaggcttacacccatagcactgtccttctctccacagTTTTGAAGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCTGCTTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTATCAGgtaagttatcaggatggtgaagtgtgaggcccagaagcacctattatgat Alignment from Exonerate_coding2genome T------GCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG gggccaatggacccaggcttacacccatagcactgtccttctctccacagTTTTGAAGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCTGCTTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTATCAGgtaagttatcaggatggtgaagtgtgaggcccagaagcacctattatgat Alignment from GeneWise ----ATTGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG gggccaatggacccaggcttacacccatagcactgtccttctctccacagTTTTGAAGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCTGCTTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTATCAGgtaagttatcaggatggtgaagtgtgaggcccagaagcacctattatgat #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gagcagtcacaggaggctgatggcactgcgtgagtgttttctccttacagGTTTGGGATGTGATTGGCCGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAG---------------------aggtacctcacatatccaccaactcagaggacactggcccgcgaagaggcag Alignment from CESAR GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGag gagcagtcacaggaggctgatggcactgcgtgagtgttttctccttacagGTTTGGGATGTGATTGGCCGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCC---------------------AAGaggtacctcacatatccaccaactcagaggacactggcccgcgaagaggcag Alignment from Spaln_aa2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAG-- gagcagtcacaggaggctgatggcactgcgtgagtgttttctccttacagGTTTGGGATGTGATTGGCCGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGAGgtacctcacatatccaccaactcagaggacactggcccgcgaagaggcag Alignment from Spaln_nt2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGAT gagcagtcacaggaggctgatggcactgcgtgagtgttttctccttacagGTTTGGGATGTGATTGGCCGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGAGgtacctcacatatccaccaactcagaggacactggcccgcgaagaggcag Alignment from Pairagon GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAGAG gagcagtcacaggaggctgatggcactgcgtgagtgttttctccttacagGTTTGGGATGTGATTGGCCGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCC---------------------AAGAGgtacctcacatatccaccaactcagaggacactggcccgcgaagaggcag Alignment from Exonerate_protein2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAA gagcagtcacaggaggctgatggcactgcgtgagtgttttctccttacagGTTTGGGATGTGATTGGCCGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAgaggtacctcacatatccaccaactcagaggacactggcccgcgaagaggcag Alignment from Exonerate_coding2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAA gagcagtcacaggaggctgatggcactgcgtgagtgttttctccttacagGTTTGGGATGTGATTGGCCGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAgaggtacctcacatatccaccaactcagaggacactggcccgcgaagaggcag Alignment from GeneWise GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAG-- gagcagtcacaggaggctgatggcactgcgtgagtgttttctccttacagGTTTGGGATGTGATTGGCCGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCTTTATCCAAGAGgtacctcacatatccaccaactcagaggacactggcccgcgaagaggcag #### Cd6_ID3012_12 --> 2 - 1 Original Alignment ggCCCTCAGCCGATGACAGCTCCAGCACCTCATCCGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGCAGAACAGTTTGAATGTCCA---g atgtgcagttgggttcctggcaaagaattgtaagcgttgctcttgagcagggCCCTCAGCTGATGACAGCTCCAGCACCTCATCTGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCACCGGCAGAGCAGTTTGAATGTCCAGGAggtaggagcgttcagggatgggtcacagagaatgtgggtatgaaggaaatc Alignment from CESAR ggCCCTCAGCCGATGACAGCTCCAGCACCTCATCCGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGCAGAACAGTTTGAATGTCCA---g atgtgcagttgggttcctggcaaagaattgtaagcgttgctcttgagcagggCCCTCAGCTGATGACAGCTCCAGCACCTCATCTGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCACCGGCAGAGCAGTTTGAATGTCCAGGAggtaggagcgttcagggatgggtcacagagaatgtgggtatgaaggaaatc Alignment from Spaln_aa2Genome GGCCCTCAGCCGATGACAGCTCCAGCACCTCATCCGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGCAGAACAGTTTGAATGTCCA---G atgtgcagttgggttcctggcaaagaattgtaagcgttgctcttgagcagGGCCCTCAGCTGATGACAGCTCCAGCACCTCATCTGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCACCGGCAGAGCAGTTTGAATGTCCAGGAGgtaggagcgttcagggatgggtcacagagaatgtgggtatgaaggaaatc Alignment from Spaln_nt2Genome GGCCCTCAGCCGATGACAGCTCCAGCACCTCATCCGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGCAGAACAGTTTGAATGTCCAG--- atgtgcagttgggttcctggcaaagaattgtaagcgttgctcttgagcagGGCCCTCAGCTGATGACAGCTCCAGCACCTCATCTGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCACCGGCAGAGCAGTTTGAATGTCCAGGAGgtaggagcgttcagggatgggtcacagagaatgtgggtatgaaggaaatc Alignment from Pairagon GGCCCTCAGCCGATGACAGCTCCAGCACCTCATCCGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGCAGAACAGTTTGAATGTCCAG--- atgtgcagttgggttcctggcaaagaattgtaagcgttgctcttgagcagGGCCCTCAGCTGATGACAGCTCCAGCACCTCATCTGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCACCGGCAGAGCAGTTTGAATGTCCAGGAGgtaggagcgttcagggatgggtcacagagaatgtgggtatgaaggaaatc Alignment from Exonerate_protein2genome GGCCCTCAGCCGATGACAGCTCCAGCACCTCATCCGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGCAGAACAGTTTGAATGTCCAG atgtgcagttgggttcctggcaaagaattgtaagcgttgctcttgagcagGGCCCTCAGCTGATGACAGCTCCAGCACCTCATCTGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCACCGGCAGAGCAGTTTGAATGTCCAGgaggtaggagcgttcagggatgggtcacagagaatgtgggtatgaaggaaatc Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise --GGGCCCTCAGCCGATGACAGCTCCAGCACCTCATCCGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCTCCAGCAGAACAGTTTGAATGTCCAGGA- atgtgcagttgggttcctggcaaagaattgtaagcgttgctcttgagCAGGGCCCTCAGCTGATGACAGCTCCAGCACCTCATCTGGAGAGTGGTACCAGAACTTCCAGCCACCACCCCAGCATCCACCGGCAGAGCAGTTTGAATGTCCAGGAGgtaggagcgttcagggatgggtcacagagaatgtgggtatgaaggaaatc #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--- cgggctttcctgttggtttggtctcgtctattttccttctttatggttagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGCATgtgcgtttgtgggcaattgccctccactaattgatagaagaagatatgct Alignment from CESAR GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--- cgggctttcctgttggtttggtctcgtctattttccttctttatggttagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGCATgtgcgtttgtgggcaattgccctccactaattgatagaagaagatatgct Alignment from Spaln_aa2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--- cgggctttcctgttggtttggtctcgtctattttccttctttatggttagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGCATgtgcgtttgtgggcaattgccctccactaattgatagaagaagatatgct Alignment from Spaln_nt2Genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--- cgggctttcctgttggtttggtctcgtctattttccttctttatggttagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGCATgtgcgtttgtgggcaattgccctccactaattgatagaagaagatatgct Alignment from Pairagon GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--- cgggctttcctgttggtttggtctcgtctattttccttctttatggttagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGCATgtgcgtttgtgggcaattgccctccactaattgatagaagaagatatgct Alignment from Exonerate_protein2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--- cgggctttcctgttggtttggtctcgtctattttccttctttatggttagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGCATgtgcgtttgtgggcaattgccctccactaattgatagaagaagatatgct Alignment from Exonerate_coding2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG--- cgggctttcctgttggtttggtctcgtctattttccttctttatggttagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGCATgtgcgtttgtgggcaattgccctccactaattgatagaagaagatatgct Alignment from GeneWise GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGACG cgggctttcctgttggtttggtctcgtctattttccttctttatggttagGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGCATgtgcgtttgtgggcaattgccctccactaattgatagaagaagatatgct #### Cdc42bpg_ID1575_5 --> 0 - 2 Original Alignment TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC---ag gttgtcattagctgtaggattggatctagaattatttttttcttttccagTACCTGCTGATGGACTACTATGCTGGTGGCGACCTTCTAACATTGCTGAGCCGCTTTGAAGACCGACTCCCACCTGAGCTGGCCCAGATCTATTTGGCTGAGATGGTGCTGGCCATTCACTCCCTGCACCAGCTGGGCTATGTCCACCTCaggtatccaagattgcgtgtctttgggattctcggactcatggcttctcatt Alignment from CESAR TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC---ag gttgtcattagctgtaggattggatctagaattatttttttcttttccagTACCTGCTGATGGACTACTATGCTGGTGGCGACCTTCTAACATTGCTGAGCCGCTTTGAAGACCGACTCCCACCTGAGCTGGCCCAGATCTATTTGGCTGAGATGGTGCTGGCCATTCACTCCCTGCACCAGCTGGGCTATGTCCACCTCaggtatccaagattgcgtgtctttgggattctcggactcatggcttctcatt Alignment from Spaln_aa2Genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGG-- gttgtcattagctgtaggattggatctagaattatttttttcttttccagTACCTGCTGATGGACTACTATGCTGGTGGCGACCTTCTAACATTGCTGAGCCGCTTTGAAGACCGACTCCCACCTGAGCTGGCCCAGATCTATTTGGCTGAGATGGTGCTGGCCATTCACTCCCTGCACCAGCTGGGCTATGTCCACCTCAGgtatccaagattgcgtgtctttgggattctcggactcatggcttctcatt Alignment from Spaln_nt2Genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC---AG gttgtcattagctgtaggattggatctagaattatttttttcttttccagTACCTGCTGATGGACTACTATGCTGGTGGCGACCTTCTAACATTGCTGAGCCGCTTTGAAGACCGACTCCCACCTGAGCTGGCCCAGATCTATTTGGCTGAGATGGTGCTGGCCATTCACTCCCTGCACCAGCTGGGCTATGTCCACCTCAGgtatccaagattgcgtgtctttgggattctcggactcatggcttctcatt Alignment from Pairagon TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCA---CAG gttgtcattagctgtaggattggatctagaattatttttttcttttccagTACCTGCTGATGGACTACTATGCTGGTGGCGACCTTCTAACATTGCTGAGCCGCTTTGAAGACCGACTCCCACCTGAGCTGGCCCAGATCTATTTGGCTGAGATGGTGCTGGCCATTCACTCCCTGCACCAGCTGGGCTATGTCCACCTCAGgtatccaagattgcgtgtctttgggattctcggactcatggcttctcatt Alignment from Exonerate_protein2genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC---AG gttgtcattagctgtaggattggatctagaattatttttttcttttccagTACCTGCTGATGGACTACTATGCTGGTGGCGACCTTCTAACATTGCTGAGCCGCTTTGAAGACCGACTCCCACCTGAGCTGGCCCAGATCTATTTGGCTGAGATGGTGCTGGCCATTCACTCCCTGCACCAGCTGGGCTATGTCCACCTCAGgtatccaagattgcgtgtctttgggattctcggactcatggcttctcatt Alignment from Exonerate_coding2genome TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCAC---AG gttgtcattagctgtaggattggatctagaattatttttttcttttccagTACCTGCTGATGGACTACTATGCTGGTGGCGACCTTCTAACATTGCTGAGCCGCTTTGAAGACCGACTCCCACCTGAGCTGGCCCAGATCTATTTGGCTGAGATGGTGCTGGCCATTCACTCCCTGCACCAGCTGGGCTATGTCCACCTCAGgtatccaagattgcgtgtctttgggattctcggactcatggcttctcatt Alignment from GeneWise TACCTGGTGATGGACTACTATGCTGGCGGGGACCTTCTCACGCTGCTGAGCCGCTTTGAGGACCGCCTCCCACCTGAGCTGGCCCAGTTCTATCTGGCTGAGATGGTTCTGGCCATCCACTCACTGCACCAGCTGGGCTATGTCCACAGG-- gttgtcattagctgtaggattggatctagaattatttttttcttttccagTACCTGCTGATGGACTACTATGCTGGTGGCGACCTTCTAACATTGCTGAGCCGCTTTGAAGACCGACTCCCACCTGAGCTGGCCCAGATCTATTTGGCTGAGATGGTGCTGGCCATTCACTCCCTGCACCAGCTGGGCTATGTCCACCTCAGgtatccaagattgcgtgtctttgggattctcggactcatggcttctcatt #### Cdc42bpg_ID1577_7 --> 0 - 0 Original Alignment GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtgctgtggcctcacgatgtgacctgttacctgtctctattcatttcag---------TCAGTTGCTGTAGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGCAAGGGCCACTACGGACCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACTTACGGGAAGATCATGAACCATGAGgtgagcctgtatggcccagggaccccttcattgtggcattgctggttact Alignment from CESAR GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG cgctggcccagtgctgtggcctcactgttacctgtctctattcatttcag---------TCAGTTGCTGTAGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGCAAGGGCCACTACGGACCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACTTACGGGAAGATCATGAACCATGAGgtgagcctgtatggcccagggaccccttcattgtggcattgctggttact Alignment from Spaln_aa2Genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtgctgtggcctcacgatgtgacctgttacctgtctctattcatttcag---------TCAGTTGCTGTAGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGCAAGGGCCACTACGGACCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACTTACGGGAAGATCATGAACCATGAGgtgagcctgtatggcccagggaccccttcattgtggcattgctggttact Alignment from Spaln_nt2Genome TCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtgctgtggcctcacgatgtgacctgttacctgtctctattcatttcagTCAGTTGCTGTAGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGCAAGGGCCACTACGGACCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACTTACGGGAAGATCATGAACCATGAGgtgagcctgtatggcccagggaccccttcattgtggcattgctggttact Alignment from Pairagon GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtgctgtggcctcacgatgtgacctgttacctgtctctattcatttcag---------TCAGTTGCTGTAGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGCAAGGGCCACTACGGACCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACTTACGGGAAGATCATGAACCATGAGgtgagcctgtatggcccagggaccccttcattgtggcattgctggttact Alignment from Exonerate_protein2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtgctgtggcctcacgatgtgacctgttacctgtctctatTCATTTCAGTCAGTTGCTGTAGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGCAAGGGCCACTACGGACCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACTTACGGGAAGATCATGAACCATGAGgtgagcctgtatggcccagggaccccttcattgtggcattgctggttact Alignment from Exonerate_coding2genome GTGGATTCATCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtgctgtggcctcacgatgtgacctgttacctgtctctatTCATTTCAGTCAGTTGCTGTAGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGCAAGGGCCACTACGGACCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACTTACGGGAAGATCATGAACCATGAGgtgagcctgtatggcccagggaccccttcattgtggcattgctggttact Alignment from GeneWise TCAGTCGCAGTTGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCCATGGAGGAAGGCAAGGGCCACTACGGCCCACAGTGTGACTGGTGGTCACTGGGAGTCTGCGCCTATGAGCTGCTCTTTGGGGAAACACCCTTTTATGCAGAATCTCTGGTAGAAACCTACGGCAAGATCATGAACCACGAG agtgctgtggcctcacgatgtgacctgttacctgtctctattcatttcagTCAGTTGCTGTAGGGACCCCGGACTACATCTCTCCTGAGATCCTACAGGCTATGGAGGAAGGCAAGGGCCACTACGGACCACAATGTGACTGGTGGTCACTGGGAGTCTGTGCTTATGAGCTGCTGTTTGGGGAAACACCCTTTTATGCTGAATCTCTGGTAGAAACTTACGGGAAGATCATGAACCATGAGgtgagcctgtatggcccagggaccccttcattgtggcattgctggttact #### Cdc42bpg_ID1583_13 --> 0 - 0 Original Alignment GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG aggtgagcactctgacttggctttgagctcctccatccccctccactcag---CTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCAGGCCAGCTTCAGACCCTGAATACTCAGCTTGAGGAGGCCTGGGTTGTCCGGAGGGAGgtaagaggtgagacattcgaagggtccagggcatcgggcaccccatgttg Alignment from CESAR GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG tagaggtgagcactctgacttggctagctcctccatccccctccactcag---CTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCAGGCCAGCTTCAGACCCTGAATACTCAGCTTGAGGAGGCCTGGGTTGTCCGGAGGGAGgtaagaggtgagacattcgaagggtccagggcatcgggcaccccatgttg Alignment from Spaln_aa2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG aggtgagcactctgacttggctttgagctcctccatccccctccactcag---CTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCAGGCCAGCTTCAGACCCTGAATACTCAGCTTGAGGAGGCCTGGGTTGTCCGGAGGGAGgtaagaggtgagacattcgaagggtccagggcatcgggcaccccatgttg Alignment from Spaln_nt2Genome ACTG---AAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG aggtgagcactctgacttggctttgagctcctccatccccctccactcagCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGC---AAACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCAGGCCAGCTTCAGACCCTGAATACTCAGCTTGAGGAGGCCTGGGTTGTCCGGAGGGAGgtaagaggtgagacattcgaagggtccagggcatcgggcaccccatgttg Alignment from Pairagon GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG aggtgagcactctgacttggctttgagctcctccatccccctccactcag---CTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGC---AAACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCAGGCCAGCTTCAGACCCTGAATACTCAGCTTGAGGAGGCCTGGGTTGTCCGGAGGGAGgtaagaggtgagacattcgaagggtccagggcatcgggcaccccatgttg Alignment from Exonerate_protein2genome CTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG aggtgagcactctgacttggctttgagctcctccatccccctccactcagCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCAGGCCAGCTTCAGACCCTGAATACTCAGCTTGAGGAGGCCTGGGTTGTCCGGAGGGAGgtaagaggtgagacattcgaagggtccagggcatcgggcaccccatgttg Alignment from Exonerate_coding2genome CTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG aggtgagcactctgacttggctttgagctcctccatccccctccactcagCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCAGGCCAGCTTCAGACCCTGAATACTCAGCTTGAGGAGGCCTGGGTTGTCCGGAGGGAGgtaagaggtgagacattcgaagggtccagggcatcgggcaccccatgttg Alignment from GeneWise CTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG aggtgagcactctgacttggctttgagctcctccatccccctccactcagCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCA---AACCGGCAGGAAGAAGTCTTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCAGGCCAGCTTCAGACCCTGAATACTCAGCTTGAGGAGGCCTGGGTTGTCCGGAGGGAGgtaagaggtgagacattcgaagggtccagggcatcgggcaccccatgttg #### Cdc42bpg_ID1584_14 --> 0 - 0 Original Alignment CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG ggtggacatttcctagtcccacattccctgacttttcttatttcatacagCTTGAAGGTCAGGTGACCACTCTGAGTCAGGAGGTGACACGGCTGCAGGGACAATGTAAAGAAGAA---------------gtgaggttagtagctttcgggcgtcatagtactctccactcagcacatct Alignment from CESAR CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG ggtggacatttcctagtcccacattccctgacttttcttatttcatacagCTTGAAGGTCAGGTGACCACTCTGAGTCAGGAGGTGACACGGCTGCAGGGACAATGTAAAGAAGAA---------------gtgaggttagtagctttcgggcgtcatagtactct Alignment from Spaln_aa2Genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAG ggtggacatttcctagtcccacattccctgacttttcttatttcatacagCTTGAAGGTCAGGTGACCACTCTGAGTCAGGAGGTGACACGGCTGCAGGGACAATGTAAAGAAGAAGTGAGGTTAgtagctttcgggcgtcatagtactctccactcagcacatct Alignment from Spaln_nt2Genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAA ggtggacatttcctagtcccacattccctgacttttcttatttcatacagCTTGAAGGTCAGGTGACCACTCTGAGTCAGGAGGTGACACGGCTGCAGGGACAATGTAAAGAAGAAgtgaggttagtagctttcgggcgtcatagtactctccactcagcacatct Alignment from Pairagon CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAA ggtggacatttcctagtcccacattccctgacttttcttatttcatacagCTTGAAGGTCAGGTGACCACTCTGAGTCAGGAGGTGACACGGCTGCAGGGACAATGTAAAGAAGAAgtgaggttagtagctttcgggcgtcatagtactctccactcagcacatct Alignment from Exonerate_protein2genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTC ggtggacatttcctagtcccacattccctgacttttcttatttcatacagCTTGAAGGTCAGGTGACCACTCTGAGTCAGGAGGTGACACGGCTGCAGGGACAATGTAAAGAAGAAGTGAGgttagtagctttcgggcgtcatagtactctccactcagcacatct Alignment from Exonerate_coding2genome CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTC ggtggacatttcctagtcccacattccctgacttttcttatttcatacagCTTGAAGGTCAGGTGACCACTCTGAGTCAGGAGGTGACACGGCTGCAGGGACAATGTAAAGAAGAAGTGAGgttagtagctttcgggcgtcatagtactctccactcagcacatct Alignment from GeneWise CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAGACC ggtggacatttcctagtcccacattccctgacttttcttatttcatacagCTTGAAGGTCAGGTGACCACTCTGAGTCAGGAGGTGACACGGCTGCAGGGACAATGTAAAGAAGAA---------GTGAGGTTAgtagctttcgggcgtcatagtactctccactc #### Cdc42bpg_ID1585_15 --> 0 - 2 Original Alignment ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg ccatggcttctcaaaccccaaccctgaccatacttgaaatatattcacag---GTCCATGCAGCCCCTGAGATGAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAACTGGAGCATGCCTGCAGCCAAgggtaggaacatggtagttgcagccaggaagggacagggcaaggtcagcctg Alignment from CESAR ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg aggccatggcttctcaaaccccaacgaccatacttgaaatatattcacag---GTCCATGCAGCCCCTGAGATGAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAACTGGAGCATGCCTGCAGCCAAgggtaggaacatggtagttgcagccaggaagggacagggcaaggtcagcctg Alignment from Spaln_aa2Genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG ccatggcttctcaaaccccaaccctgaccatacttgaaatatattcacag---GTCCATGCAGCCCCTGAGATGAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAACTGGAGCATGCCTGCAGCCAAGGgtaggaacatggtagttgcagccaggaagggacagggcaaggtcagcctg Alignment from Spaln_nt2Genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG ccatggcttctcaaaccccaaccctgaccatacttgaaatatattcacag---GTCCATGCAGCCCCTGAGATGAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAACTGGAGCATGCCTGCAGCCAAGGgtaggaacatggtagttgcagccaggaagggacagggcaaggtcagcctg Alignment from Pairagon ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG ccatggcttctcaaaccccaaccctgaccatacttgaaatatattcacag---GTCCATGCAGCCCCTGAGATGAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAACTGGAGCATGCCTGCAGCCAAGGgtaggaacatggtagttgcagccaggaagggacagggcaaggtcagcctg Alignment from Exonerate_protein2genome GTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG ccatggcttctcaaaccccaaccctgaccatacttgaaatatattcacagGTCCATGCAGCCCCTGAGATGAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAACTGGAGCATGCCTGCAGCCAAGGgtaggaacatggtagttgcagccaggaagggacagggcaaggtcagcctg Alignment from Exonerate_coding2genome GTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG ccatggcttctcaaaccccaaccctgaccatacttgaaatatattcacagGTCCATGCAGCCCCTGAGATGAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAACTGGAGCATGCCTGCAGCCAAGGgtaggaacatggtagttgcagccaggaagggacagggcaaggtcagcctg Alignment from GeneWise ---CATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG ccatggcttctcaaaccccaaccctgaccatacttgaaatatattcacagGTCCATGCAGCCCCTGAGATGAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAACTGGAGCATGCCTGCAGCCAAGGgtaggaacatggtagttgcagccaggaagggacagggcaaggtcagcctg #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment g---------------------------ATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG ggcaaggtcagcctgggattcagctctaagtaactgccttcctctcccagaCTATTAATATATTTAATCCGTACAAATATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtgtgtatgaaatatgacaaagcacaggttagttgccagccaggtgggtt Alignment from CESAR aagtgcaagagggtagaaggtggcaatagagtcatggttgggaagtgtaag Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG ggcaaggtcagcctgggattcagctctaagtaactgccttcctctcccagactattaatatatttaatccgtacaaatatcagT------GTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtgtgtatgaaatatgacaaagcacaggttagttgccagccaggtgggtt Alignment from Spaln_nt2Genome GTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG ggcaaggtcagcctgggattcagctctaagtaactgccttcctctcccagactattaatatatttaatccgtacaaatatcagTGTT-GGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtgtgtatgaaatatgacaaagcacaggttagttgccagccaggtgggtt Alignment from Pairagon ------------------------------------------------------------------------------ATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG GGCAAGGTCAGCCTGGGATTCAGCTCTAAGTAACTGCCTTCCTCTCCCAGACTATTAATATATTTAATCCGTACAAATATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtgtgtatgaaatatgacaaagcacaggttagttgccagccaggtgggtt Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG ggcaaggtcagcctgggattcagctctaagtaactgccttcctctcccagactattaatatatttaatccgtacaaaTATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtgtgtatgaaatatgacaaagcacaggttagttgccagccaggtgggtt Alignment from Exonerate_coding2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG ggcaaggtcagcctgggattcagctctaagtaactgccttcctctcccagactattaatatatttaatccgtacaaaTATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtgtgtatgaaatatgacaaagcacaggttagttgccagccaggtgggtt Alignment from GeneWise -------------------------GGGATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG ggcaaggtcagcctgggattcagctctaagtaactgccttcctctcccagACTATTAATATATTTAATCCGTACAAATATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGgtgtgtatgaaatatgacaaagcacaggttagttgccagccaggtgggtt #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment ------CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gggctataaggagcattgaggactaatctattgttgatgtttttgttaagGACTGCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtggtgagaatacacagccaggtggcacctctgatactgaggacccaggtcac Alignment from CESAR ------CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gggctataaggagcattgaggactaatctattgttgatgtttttgttaagGACTGCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtggtgagaatacacagccaggtggcacctctgatactgaggacccaggtcac Alignment from Spaln_aa2Genome ----CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gggctataaggagcattgaggactaatctattgttgatgtttttgttaagGACTGCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtgagaatacacagccaggtggcacctctgatactgaggacccaggtcac Alignment from Spaln_nt2Genome -ACGGCT-GGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gggctataaggagcattgaggactaatctattgttgatgtttttgttaagGACTGCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtgagaatacacagccaggtggcacctctgatactgaggacccaggtcac Alignment from Pairagon ------CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gggctataaggagcattgaggactaatctattgttgatgtttttgttaagGACTGCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtgagaatacacagccaggtggcacctctgatactgaggacccaggtcac Alignment from Exonerate_protein2genome GAACGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gggctataaggagcattgaggactaatctattgttgatgtttttgttaagGACTGCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtgagaatacacagccaggtggcacctctgatactgaggacccaggtcac Alignment from Exonerate_coding2genome GAACGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gggctataaggagcattgaggactaatctattgttgatgtttttgttaagGACTGCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtgagaatacacagccaggtggcacctctgatactgaggacccaggtcac Alignment from GeneWise ------CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG gggctataaggagcattgaggactaatctattgttgatgtttttgttaagGACTGCTTGGCAGGAGAGCTGGAACTGGAGCTTCAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtgagaatacacagccaggtggcacctctgatactgaggacccaggtcac #### Cdc42bpg_ID1589_19 --> 0 - 2 Original Alignment GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTG---------CAGGAGGCTCAGCGGCAGGCTGAA------cg taaggaagggtgggtaccctctaagatctcacgtcctgttctctgtgcagGATCACCAGTGGAAAGCTCGGAGGCTGCAGAAGATGGAGGCCTTAGCCCGGCTAGCACTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTTATGCAGGTGCAAGAGGCTCAAGAGGCTCAGCGGCAGGCCGAAGTACAAtggtaagggtgtgggcaggctggagtgaaacactttccaaggcctggcatgc Alignment from CESAR GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTGCAGGAGGCT---------CAGCGGCAGGCTGAA------cg taaggaagggtgggtaccctctaagatctcacgtcctgttctctgtgcagGATCACCAGTGGAAAGCTCGGAGGCTGCAGAAGATGGAGGCCTTAGCCCGGCTAGCACTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTTATGCAGGTGCAAGAGGCTCAAGAGGCTCAGCGGCAGGCCGAAGTACAAtggtaagggtgtgggcaggctggagtgaaacactttccaaggcctggcatgt Alignment from Spaln_aa2Genome GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTGCAGGAGGCTCAGCGGCAGGCTGAACG taaggaagggtgggtaccctctaagatctcacgtcctgttctctgtgcagGATCACCAGTGGAAAGCTCGGAGGCTGCAGAAGATGGAGGCCTTAGCCCGGCTAGCACTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTTATGCAGGTGCAAGAGGCTCAA---GAGGCTCAGCGgcaggccgaagtacaatggtaagggtgtgggcaggctggagtgaaacactttccaaggcctggcatgc Alignment from Spaln_nt2Genome GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTGCAG---------GAGGCTCAGCGGCAGGCTGAA taaggaagggtgggtaccctctaagatctcacgtcctgttctctgtgcagGATCACCAGTGGAAAGCTCGGAGGCTGCAGAAGATGGAGGCCTTAGCCCGGCTAGCACTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTTATGCAGGTGCAAGAGGCTCAAGAGGCTCAGCGGCAGGCCGAAgtacaatggtaagggtgtgggcaggctggagtgaaacactttccaaggcctggcatgc Alignment from Pairagon GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTGCAGGAGGCTC---------AGCGGCAGGCTGAAC--------------------------------------------------------- taaggaagggtgggtaccctctaagatctcacgtcctgttctctgtgcagGATCACCAGTGGAAAGCTCGGAGGCTGCAGAAGATGGAGGCCTTAGCCCGGCTAGCACTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTTATGCAGGTGCAAGAGGCTCAAGAGGCTCAGCGGCAGGCCGAAGTACAATGGTAAGGGTGTGGGCAGGCTGGAGTGAAACACTTTCCAAGGCCTGGCATGC Alignment from Exonerate_protein2genome GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTGCAGGAGGCTCAGCGGCAGGCTGAACG taaggaagggtgggtaccctctaagatctcacgtcctgttctctgtgcagGATCACCAGTGGAAAGCTCGGAGGCTGCAGAAGATGGAGGCCTTAGCCCGGCTAGCACTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTTATGCAGGTGCAAGAGGCTCAA---GAGGCTCAGCGgcaggccgaagtacaatggtaagggtgtgggcaggctggagtgaaacactttccaaggcctggcatgc Alignment from Exonerate_coding2genome GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTGCAGGAGGCTCAGCGGCAGGCTGAACG taaggaagggtgggtaccctctaagatctcacgtcctgttctctgtgcagGATCACCAGTGGAAAGCTCGGAGGCTGCAGAAGATGGAGGCCTTAGCCCGGCTAGCACTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTTATGCAGGTGCAAGAGGCTCAA---GAGGCTCAGCGgcaggccgaagtacaatggtaagggtgtgggcaggctggagtgaaacactttccaaggcctggcatgc Alignment from GeneWise GATCACCAGTGGAAGGCTCGGAGGCTGCAGAAGATGGAGGCCTCAGCCCGGCTAGAGCTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTGACGCAGGTGCAGGAGGCT---------CAGCGGCAGGCTGAA------CG taaggaagggtgggtaccctctaagatctcacgtcctgttctctgtgcagGATCACCAGTGGAAAGCTCGGAGGCTGCAGAAGATGGAGGCCTTAGCCCGGCTAGCACTTCAGTCAGCACTGGAAGCTGAGATCCGTGCCAAGCAGAGTCTGCAGGAGCAGCTTATGCAGGTGCAAGAGGCTCAAGAGGCTCAGCGGCAGGCCGAAGTACAATGgtaagggtgtgggcaggctggagtgaaacactttccaaggcctggcatgc #### Cdc42bpg_ID1596_26 --> 0 - 2 Original Alignment GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag gctgtgggaatgagtgccagtccagccctttcttgggggtggggaaacagGTGCGACAGCCATCATGCGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCACTCAGTGATTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTA------aggtgggtgatggagacagtcacacaggacatgagaagttcaagccagggtg Alignment from CESAR GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAag gctgtgggaatgagtgccagtccagccctttcttgggggtggggaaacagGTGCGACAGCCATCATGCGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCACTCAGTGATTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTA------aggtgggtgatggagacagtcacacaggacatgagaagttcaagccagggct Alignment from Spaln_aa2Genome GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG gctgtgggaatgagtgccagtccagccctttcttgggggtggggaaacagGTGCGACAGCCATCATGCGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCACTCAGTGATTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCC------TTAAGgtgggtgatggagacagtcacacaggacatgagaagttcaagccagggtg Alignment from Spaln_nt2Genome GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG gctgtgggaatgagtgccagtccagccctttcttgggggtggggaaacagGTGCGACAGCCATCATGCGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCACTCAGTGATTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCT------TAAGgtgggtgatggagacagtcacacaggacatgagaagttcaagccagggtg Alignment from Pairagon GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG gctgtgggaatgagtgccagtccagccctttcttgggggtggggaaacagGTGCGACAGCCATCATGCGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCACTCAGTGATTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCT------TAAGgtgggtgatggagacagtcacacaggacatgagaagttcaagccagggtg Alignment from Exonerate_protein2genome GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGA gctgtgggaatgagtgccagtccagccctttcttgggggtggggaaacagGTGCGACAGCCATCATGCGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCACTCAGTGATTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTAAGgtgggtgatggagacagtcacacaggacatgagaagttcaagccagggtg Alignment from Exonerate_coding2genome GTGCCGCGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGA gctgtgggaatgagtgccagtccagccctttcttgggggtggggaaacagGTGCGACAGCCATCATGCGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCACTCAGTGATTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCCTTAAGgtgggtgatggagacagtcacacaggacatgagaagttcaagccagggtg Alignment from GeneWise --------------------------------------------------------CGGCCCTCAGGTGTCCGTCGGGGCTGGCAGCGGGTGTACGCCGCTCTCAGTGACTCCCGCCTGTTGTTGTTTGATGCTCCTGACCCTCGAGGCAGCCTGGCCAGTGGGGTCCTCCTGCAGGCCTTGGATCTAAG GCTGTGGGAATGAGTGCCAGTCCAGCCCTTTCTTGGGGGTGGGGAAACAGGTGCGACAGCCATCATGCGTTCGTTGGGACTGGCAGCGGGTGTATGCTGCACTCAGTGATTCCCGTTTGTTATTGTTTGATGCTCCTGACCCTCGTGGAAGCCTGGCCAGTGGGATCCTCCTGCAGGCC------TTAAGgtgggtgatggagacagtcacacaggacatgagaagttcaagccagggtg #### Cdc42bpg_ID1602_32 --> 0 - 1 Original Alignment GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAg taggtgcagtgggtgacgcgggtggcagatctctgtgctcttcttcatag---AGACCCCTTAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAAAAACTCCGCCTGACCTACCTCAGAAATCCATTGGCAggtaagggtacataacccccatctgtgcatattcacctgtgtacaagtgtg Alignment from CESAR GTGAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAg ggctaggtgcagtgggtgacgcgggcagatctctgtgctcttcttcatag---AGACCCCTTAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAAAAACTCCGCCTGACCTACCTCAGAAATCCATTGGCAggtaagggtacataacccccatctgtgcatattcacctgtgtacaagtgtg Alignment from Spaln_aa2Genome AGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG taggtgcagtgggtgacgcgggtggcagatctctgtgctcttcttcatagAGACCCCTTAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAAAAACTCCGCCTGACCTACCTCAGAAATCCATTGGCAGgtaagggtacataacccccatctgtgcatattcacctgtgtacaagtgtg Alignment from Spaln_nt2Genome AGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG taggtgcagtgggtgacgcgggtggcagatctctgtgctcttcttcatagAGACCCCTTAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAAAAACTCCGCCTGACCTACCTCAGAAATCCATTGGCAGgtaagggtacataacccccatctgtgcatattcacctgtgtacaagtgtg Alignment from Pairagon -------------------------------------------------GAGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG TAGGTGCAGTGGGTGACGCGGGTGGCAGATCTCTGTGCTCTTCTTCATAGAGACCCCTTAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAAAAACTCCGCCTGACCTACCTCAGAAATCCATTGGCAGgtaagggtacataacccccatctgtgcatattcacctgtgtacaagtgtg Alignment from Exonerate_protein2genome AGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG taggtgcagtgggtgacgcgggtggcagatctctgtgctcttcttcatagAGACCCCTTAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAAAAACTCCGCCTGACCTACCTCAGAAATCCATTGGCAGgtaagggtacataacccccatctgtgcatattcacctgtgtacaagtgtg Alignment from Exonerate_coding2genome AGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG taggtgcagtgggtgacgcgggtggcagatctctgtgctcttcttcatagAGACCCCTTAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAAAAACTCCGCCTGACCTACCTCAGAAATCCATTGGCAGgtaagggtacataacccccatctgtgcatattcacctgtgtacaagtgtg Alignment from GeneWise AGACCCCTGAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAGAAGGTCCGCCTGACCTACCTCAGGAATCCATTGGCAG taggtgcagtgggtgacgcgggtggcagatctctgtgctcttcttcatagAGACCCCTTAATCCAGAAGGCTCCTTGTTCCTTTATGGCACCGAAAAACTCCGCCTGACCTACCTCAGAAATCCATTGGCAGgtaagggtacataacccccatctgtgcatattcacctgtgtacaagtgtg #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment g---GAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG atgtgaagcctgtatgctggcccagcactaccctttccatgcctccttaggGGAGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGgtgagtcttgcgcaggtgattgcagaacatgccacagggttccaatcatt Alignment from CESAR g---GAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG atgtgaagcctgtatgctggcccagcactaccctttccatgcctccttaggGGAGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGgtgagtcttgcgcaggtgattgcagaacatgccacagggttccaatcatt Alignment from Spaln_aa2Genome GGAGATGCTG---AAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG atgtgaagcctgtatgctggcccagcactaccctttccatgcctccttagGGGAGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGgtgagtcttgcgcaggtgattgcagaacatgccacagggttccaatcatt Alignment from Spaln_nt2Genome GGAGATGCTG---AAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG atgtgaagcctgtatgctggcccagcactaccctttccatgcctccttagGGGAGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGgtgagtcttgcgcaggtgattgcagaacatgccacagggttccaatcatt Alignment from Pairagon ------------------------------------------------------GAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG ATGTGAAGCCTGTATGCTGGCCCAGCACTACCCTTTCCATGCCTCCTTAGGGGAGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGgtgagtcttgcgcaggtgattgcagaacatgccacagggttccaatcatt Alignment from Exonerate_protein2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG atgtgaagcctgtatgctggcccagcactaccctttccatgcctccttaggggAGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGgtgagtcttgcgcaggtgattgcagaacatgccacagggttccaatcatt Alignment from Exonerate_coding2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG atgtgaagcctgtatgctggcccagcactaccctttccatgcctccttaggggAGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGgtgagtcttgcgcaggtgattgcagaacatgccacagggttccaatcatt Alignment from GeneWise -AGGGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG atgtgaagcctgtatgctggcccagcactaccctttccatgcctccttagGGGAGAGATGCTGAAGGACCCCTTTGTGCGCTTCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGgtgagtcttgcgcaggtgattgcagaacatgccacagggttccaatcatt #### Cdc42bpg_ID1605_35 --> 0 - 1 Original Alignment GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA---t tccaatgtcggagctttacagtcccgtgctcatttcctctctcctgctagGCCCAAGAACAGAAGAGCAGTGGTGCCCGCAGCTCTGGGCCGCAGCGGCCTCACAGCTTCTTAGAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATGGTCTCCCAGGCCGAACAGACCCAGGAtgtaagtatagggatagctctcactctgccagttcttgcatgcttcctctt Alignment from CESAR GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA---t tccaatgtcggagctttacagtcccgtgctcatttcctctctcctgctagGCCCAAGAACAGAAGAGCAGTGGTGCCCGCAGCTCTGGGCCGCAGCGGCCTCACAGCTTCTTAGAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATGGTCTCCCAGGCCGAACAGACCCAGGAtgtaagtatagggatagctctcactctgccagttcttgcatgcttcctctt Alignment from Spaln_aa2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCATTAG tccaatgtcggagctttacagtcccgtgctcatttcctctctcctgctagGCCCAAGAACAGAAGAGCAGTGGTGCCCGCAGCTCTGGGCCGCAGCGGCCTCACAGCTTCTTAGAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATGGTCTCCCAGGCCGAACAGACCCAGGATgtaagtatagggatagctctcactctgccagttcttgcatgcttcctctt Alignment from Spaln_nt2Genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA---T tccaatgtcggagctttacagtcccgtgctcatttcctctctcctgctagGCCCAAGAACAGAAGAGCAGTGGTGCCCGCAGCTCTGGGCCGCAGCGGCCTCACAGCTTCTTAGAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATGGTCTCCCAGGCCGAACAGACCCAGGATgtaagtatagggatagctctcactctgccagttcttgcatgcttcctctt Alignment from Pairagon GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCC---AT tccaatgtcggagctttacagtcccgtgctcatttcctctctcctgctagGCCCAAGAACAGAAGAGCAGTGGTGCCCGCAGCTCTGGGCCGCAGCGGCCTCACAGCTTCTTAGAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATGGTCTCCCAGGCCGAACAGACCCAGGATgtaagtatagggatagctctcactctgccagttcttgcatgcttcctctt Alignment from Exonerate_protein2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA---T tccaatgtcggagctttacagtcccgtgctcatttcctctctcctgctagGCCCAAGAACAGAAGAGCAGTGGTGCCCGCAGCTCTGGGCCGCAGCGGCCTCACAGCTTCTTAGAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATGGTCTCCCAGGCCGAACAGACCCAGGATgtaagtatagggatagctctcactctgccagttcttgcatgcttcctctt Alignment from Exonerate_coding2genome GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCA---T tccaatgtcggagctttacagtcccgtgctcatttcctctctcctgctagGCCCAAGAACAGAAGAGCAGTGGTGCCCGCAGCTCTGGGCCGCAGCGGCCTCACAGCTTCTTAGAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATGGTCTCCCAGGCCGAACAGACCCAGGATgtaagtatagggatagctctcactctgccagttcttgcatgcttcctctt Alignment from GeneWise GCTCAGGAACAGAAGAGCAGAGGTGCCCGCAGCTCCGGGCCGCAGCGGCCCCACAGCTTCTCAGAGGCATTTCGGCGGCCAGTGTCCACGGGCAGTGATGGTCTCCCTGGAGAAACAGACCCATTA- tccaatgtcggagctttacagtcccgtgctcatttcctctctcctgctagGCCCAAGAACAGAAGAGCAGTGGTGCCCGCAGCTCTGGGCCGCAGCGGCCTCACAGCTTCTTAGAGGCATTGCGGCGGCCAGTGTCAACAGACAGTGATGGTCTCCCAGGCCGAACAGACCCAGGATgtaagtatagggatagctctcactctgccagttcttgcatgcttcctctt #### Cdca5_ID1428_2 --> 2 - 0 Original Alignment ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gagcaaaggtacgttcacttgaatttttcatccatgtttgcaacctgcaggg---------TTGCTAACTAAGCCTTCAAAGTCATCCAAGCGTAAATCTGGTTCAGACCTCCCAAATTCATTCTCTGAAACCTGGCAAAGGgtaggtacttggtcccccaggtgctggggttggatttgtgtactgtggct Alignment from CESAR ggCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG cttttctttgagcaaaggtacgttctttcatccatgtttgcaacctgcaggg---------TTGCTAACTAAGCCTTCAAAGTCATCCAAGCGTAAATCTGGTTCAGACCTCCCAAATTCATTCTCTGAAACCTGGCAAAGGgtaggtacttggtcccccaggtgctggggttggatttgtgtactgtggct Alignment from Spaln_aa2Genome GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gagcaaaggtacgttcacttgaatttttcatccatgtttgcaacctgcagGGTTG---------CTAACTAAGCCTTCAAAGTCATCCAAGCGTAAATCTGGTTCAGACCTCCCAAATTCATTCTCTGAAACCTGGCAAAGGgtaggtacttggtcccccaggtgctggggttggatttgtgtactgtggct Alignment from Spaln_nt2Genome GGCCCAG GACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG g--CAAAGgtacgttcacttgaatttttcatccatgtttgcaacctgcagG--GTTGCTAACTAAGCCTTCAAAGTCATCCAAGCGTAAATCTGGTTCAGACCTCCCAAATTCATTCTCTGAAACCTGGCAAAGGgtaggtacttggtcccccaggtgctggggttggatttgtgtactgtggct Alignment from Pairagon GGCCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gagcaaaggtacgttcacttgaatttttcatccatgtttgcaacctgcagGG---------TTGCTAACTAAGCCTTCAAAGTCATCCAAGCGTAAATCTGGTTCAGACCTCCCAAATTCATTCTCTGAAACCTGGCAAAGGgtaggtacttggtcccccaggtgctggggttggatttgtgtactgtggct Alignment from Exonerate_protein2genome CTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gagcaaaggtacgttcacttgaatttttcatccatgtttgcaacctgcagGGTTGCTAACTAAGCCTTCAAAGTCATCCAAGCGTAAATCTGGTTCAGACCTCCCAAATTCATTCTCTGAAACCTGGCAAAGGgtaggtacttggtcccccaggtgctggggttggatttgtgtactgtggct Alignment from Exonerate_coding2genome gagcaaaggtacgttcacttgaatttttcatccatgtttgcaacctgcagggttgctaactaagccttcaaagtcatccaagcgtaaatctggttcagacctcccaaattcattctctgaaacctggcaaagggtaggtacttggtcccccaggtgctggggttggatttgtgtactgtggct Alignment from GeneWise CCCAGGACTTCACTTACTAAGCCTTCGAAGTCGTCCAAGCGGAAATCTGGCTCAGATCTCCCGAACTCGTTCTCTGAAATCTGGCCGAGG gagcaaaggtacgttcacttgaatttttcatccatgtttgcaaCCTGCAGGGTTGCTAACTAAGCCTTCAAAGTCATCCAAGCGTAAATCTGGTTCAGACCTCCCAAATTCATTCTCTGAAACCTGGCAAAGGgtaggtacttggtcccccaggtgctggggttggatttgtgtactgtggct #### Cdk2ap2_ID298_2 --> 2 - 0 Original Alignment ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG ctgtgatgaggcccttgtcgcaccctggttttttccttttgttaatccagctGGAAGTGTCCCATTGCCATCGGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAATGACTTTGGTCCACCCTCCATGGGTTATGTA---gtaaaaagactgaccaagagcttgctcatggccagagggacggggccccc Alignment from CESAR ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG ctgtgatgaggcccttgtcgcaccctggttttttccttttgttaatccagctGGAAGTGTCCCATTGCCATCGGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAATGACTTTGGTCCACCCTCCATGGGTTATGTA---gtaaaaagactgaccaagagcttgctcatggccagagggacggggcc Alignment from Spaln_aa2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTA ctgtgatgaggcccttgtcgcaccctggttttttccttttgttaatccagCTGGAAGTGTCCCATTGCCATCGGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAATGACTTTGGTCCACCCTCCATGGGTTATGTAgtaaaaagactgaccaagagcttgctcatggccagagggacggggccccc Alignment from Spaln_nt2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTAC---------------AG- ctgtgatgaggcccttgtcgcaccctggttttttccttttgttaatccagCTGGAAGTGTCCCATTGCCATCGGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAATGACTTTGGTCCACCCTCCATGGGTTATGTAGTAAAAAGACTGACCAAGAgcttgctcatggccagagggacggggccccc Alignment from Pairagon CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTAC------------------------------------------------- ctgtgatgaggcccttgtcgcaccctggttttttccttttgttaatccagCTGGAAGTGTCCCATTGCCATCGGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAATGACTTTGGTCCACCCTCCATGGGTTATGTAGTAAAAAGACTGACCAAGAGCTTGCTCATGGCCAGAGGGACGGGGCCCCC Alignment from Exonerate_protein2genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG ctgtgatgaggcccttgtcgcaccctggttttttccttttgttaatccagCTGGAAGTGTCCCATTGCCATCGGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAATGACTTTGGTCCACCCTCCATGGGTTATGTAGTAaaaagactgaccaagagcttgctcatggccagagggacggggccccc Alignment from Exonerate_coding2genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTA ctgtgatgaggcccttgtcgcaccctggttttttccttttgttaatccagCTGGAAGTGTCCCATTGCCATCGGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAATGACTTTGGTCCACCCTCCATGGGTTATGTAgtaaaaagactgaccaagagcttgctcatggccagagggacggggccccc Alignment from GeneWise CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTA ctgtgatgaggcccttgtcgcaccctggttttttccttttgttaatccagCTGGAAGTGTCCCATTGCCATCGGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAATGACTTTGGTCCACCCTCCATGGGTTATGTAgtaaaaagactgaccaagagcttgctcatggccagagggacggggccccc #### Cdk2ap2_ID299_3 --> 0 - 1 Original Alignment GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg ggggcccccattggggtcctatatcaagttccttccatttgtttttgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGC---------ggtaagtgaacagatcgacgccatgggtaaactataacagaacagtgcagt Alignment from CESAR GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAg ggggcccccattggggtcctatatcaagttccttccatttgtttttgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGC---------ggtaagtgaacagatcgacgccatgggtaaactataacagaacagtgcagt Alignment from Spaln_aa2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGC- ggggcccccattggggtcctatatcaagttccttccatttgtttttgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCGgtaagtgaacagatcgacgccatgggtaaactataacagaacagtgcagt Alignment from Spaln_nt2Genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTG ggggcccccattggggtcctatatcaagttccttccatttgtttttgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGC--Ggtaagtgaacagatcgacgccatgggtaaactataacagaacagtgcagt Alignment from Pairagon GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCCTGAAGAGAG ggggcccccattggggtcctatatcaagttccttccatttgtttttgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGC---------Ggtaagtgaacagatcgacgccatgggtaaactataacagaacagtgcagt Alignment from Exonerate_protein2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCC ggggcccccattggggtcctatatcaagttccttccatttgtttttgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCGgtaagtgaacagatcgacgccatgggtaaactataacagaacagtgcagt Alignment from Exonerate_coding2genome GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCC ggggcccccattggggtcctatatcaagttccttccatttgtttttgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCGgtaagtgaacagatcgacgccatgggtaaactataacagaacagtgcagt Alignment from GeneWise GCGATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTACACGGACCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAGAGTGCCATGGAGCGCC ggggcccccattggggtcctatatcaagttccttccatttgtttttgcagGCAATGAAGCCACCTGGTTCCCAGGGCTCTCAGAGCACCTTCACCGATCTGCTGTCTGTCATAGAGGAGATGGGCAAAGAGATCCGGCCCACCTATGCTGGTAGCAAAAGTTCCATGGAGCGCGgtaagtgaacagatcgacgccatgggtaaactataacagaacagtgcagt #### Cfl1_ID1061_3 --> 1 - 1 Original Alignment gGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACA---------g ttgagactattctggatgtagttgcagcatctgtttgaaaactatctcaggGCCCCTGAAAATGCACCCCTAAAGAGCAAAATGATCTATGCAAGCTCCAAGGATGCCATCAAGAGGAAGCTGACAATCATTATCggtgagtatccccccttccaacaaaaacaattggtgtagtctccctgctag Alignment from CESAR gGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACA---------g ttgagactattctggatgtagttgcagcatctgtttgaaaactatctcaggGCCCCTGAAAATGCACCCCTAAAGAGCAAAATGATCTATGCAAGCTCCAAGGATGCCATCAAGAGGAAGCTGACAATCATTATCggtgagtatccccccttccaacaaaaacaattggtgtagtctccctgctag Alignment from Spaln_aa2Genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACA---------G ttgagactattctggatgtagttgcagcatctgtttgaaaactatctcagGGCCCCTGAAAATGCACCCCTAAAGAGCAAAATGATCTATGCAAGCTCCAAGGATGCCATCAAGAGGAAGCTGACAATCATTATCGgtgagtatccccccttccaacaaaaacaattggtgtagtctccctgctag Alignment from Spaln_nt2Genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACA---------G ttgagactattctggatgtagttgcagcatctgtttgaaaactatctcagGGCCCCTGAAAATGCACCCCTAAAGAGCAAAATGATCTATGCAAGCTCCAAGGATGCCATCAAGAGGAAGCTGACAATCATTATCGgtgagtatccccccttccaacaaaaacaattggtgtagtctccctgctag Alignment from Pairagon GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACA---------G ttgagactattctggatgtagttgcagcatctgtttgaaaactatctcagGGCCCCTGAAAATGCACCCCTAAAGAGCAAAATGATCTATGCAAGCTCCAAGGATGCCATCAAGAGGAAGCTGACAATCATTATCGgtgagtatccccccttccaacaaaaacaattggtgtagtctccctgctag Alignment from Exonerate_protein2genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG ttgagactattctggatgtagttgcagcatctgtttgaaaactatctcagGGCCCCTGAAAATGCACCCCTAAAGAGCAAAATGATCTATGCAAGCTCCAAGGATGCCATCAAGAGGAAGCTGACAAtcattatcggtgagtatccccccttccaacaaaaacaattggtgtagtctccctgctag Alignment from Exonerate_coding2genome GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACAG ttgagactattctggatgtagttgcagcatctgtttgaaaactatctcagGGCCCCTGAAAATGCACCCCTAAAGAGCAAAATGATCTATGCAAGCTCCAAGGATGCCATCAAGAGGAAGCTGACAAtcattatcggtgagtatccccccttccaacaaaaacaattggtgtagtctccctgctag Alignment from GeneWise GGCCCCCGAGAATGCACCCCTCAAGAGCAAAATGATCTATGCCAGCTCCAAGGATGCCATCAAGAAGAAGCTGACA---------G ttgagactattctggatgtagttgcagcatctgtttgaaaactatctcagGGCCCCTGAAAATGCACCCCTAAAGAGCAAAATGATCTATGCAAGCTCCAAGGATGCCATCAAGAGGAAGCTGACAATCATTATCGgtgagtatccccccttccaacaaaaacaattggtgtagtctccctgctag #### Chuk_ID8920_8 --> 1 - 2 Original Alignment gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTag tttgtatgaatcaggctgtcaaaccggaccccaccatgtctgtttcaaagg------AAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGCaggtgagtgaagattagataagttttgggagtaggtccttttatctactcat Alignment from CESAR gCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTag gaggtatttgtatgaatcaggctgtggaccccaccatgtctgtttcaaagg------AAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGCaggtgagtgaagattagataagttttgggagtaggtccttttatctactcat Alignment from Spaln_aa2Genome GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG tttgtatgaatcaggctgtcaaaccggaccccaccatgtctgtttcaaagG------AAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGCAGgtgagtgaagattagataagttttgggagtaggtccttttatctactcat Alignment from Spaln_nt2Genome GAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG tttgtatgaatcaggctgtcaaaccggaccccaccatgtctgtttcaaagGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGCAGgtgagtgaagattagataagttttgggagtaggtccttttatctactcat Alignment from Pairagon GAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG tttgtatgaatcaggctgtcaaaccggaccccaccatgtctgtttcaaagGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGCAGgtgagtgaagattagataagttttgggagtaggtccttttatctactcat Alignment from Exonerate_protein2genome GAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG tttgtatgaatcaggctgtcaaaccggaccccaccatgtctgtttcaaAGGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGCAGgtgagtgaagattagataagttttgggagtaggtccttttatctactcat Alignment from Exonerate_coding2genome GAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG tttgtatgaatcaggctgtcaaaccggaccccaccatgtctgtttcaaAGGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGCAGgtgagtgaagattagataagttttgggagtaggtccttttatctactcat Alignment from GeneWise GCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG tttgtatgaatcaggctgtcaaaccggaccccaccatgtctgtttcaaagG------AAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGCAGgtgagtgaagattagataagttttgggagtaggtccttttatctactcat #### Chuk_ID8921_7 --> 0 - 2 Original Alignment GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg ttggatcttaatacaatttctattttatgtcttcttttgttataatgcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCT---------------------------tggtgagtcatggtgagagctttagcgtaacctgtcccggaccccagatggg Alignment from CESAR GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCtg ttggatcttaatacaatttctattttatgtcttcttttgttataatgcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCT---------------------------tggtgagtcatggtgagagctttagcgtaacctgtcccggaccccagatggg Alignment from Spaln_aa2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTT ttggatcttaatacaatttctattttatgtcttcttttgttataatgcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTGgtgagtcatggtgagagctttagcgtaacctgtcccggaccccagatggg Alignment from Spaln_nt2Genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATC TGCAG ttggatcttaatacaatttctattttatgtcttcttttgttataatgcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCC-TTGGTGAGTCATGgtgagagctttagcgtaacctgtcccggaccccagATGGG Alignment from Pairagon GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTG ttggatcttaatacaatttctattttatgtcttcttttgttataatgcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCT---------------------------TGgtgagtcatggtgagagctttagcgtaacctgtcccggaccccagatggg Alignment from Exonerate_protein2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTAC ttggatcttaatacaatttctattttatgtcttcttttgttataatgcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTGGTGAGTCATGGTGAGAGCTTTAGCgtaacctgtcccggaccccagatggg Alignment from Exonerate_coding2genome GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTAC ttggatcttaatacaatttctattttatgtcttcttttgttataatgcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTGGTGAGTCATGGTGAGAGCTTTAGCgtaacctgtcccggaccccagatggg Alignment from GeneWise GCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTT ttggatcttaatacaatttctattttatgtcttcttttgttataatgcagGCCCCAGACCTCTTTGAAAATAAGCCATACACAGCCACTGTGGATTATTGGAGCTTTGGTACCATGGTCTTTGAATGTATTGCTGGATATAGGCCTTGgtgagtcatggtgagagctttagcgtaacctgtcccggaccccagatggg #### Col17a1_ID10271_51 --> 2 - 1 Original Alignment gt---------GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAg ctttacctcttactcattcttggatgtcttcatttttttttttcctgtaggtTCAAACACTGACAGGGGCCCAGCTGGGCCACGAGGCCCTCCAGGGCAACCTGGTCCCAGAGGGAACAAAGGAGAGAAGGGGGACAAAggtaagaagtggagtgtgattactggggtgctggggctcaggttctgaaaa Alignment from CESAR gt---------GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAg ctttacctcttactcattcttggatgtcttcatttttttttttcctgtaggtTCAAACACTGACAGGGGCCCAGCTGGGCCACGAGGCCCTCCAGGGCAACCTGGTCCCAGAGGGAACAAAGGAGAGAAGGGGGACAAAggtaagaagtggagtgtgattactggggtgctggggctcaggttctgaaaa Alignment from Spaln_aa2Genome GTGACAGGGGCCCTGCT---------GGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttacctcttactcattcttggatgtcttcatttttttttttcctgtagGTTCAAACACTGACAGGGGCCCAGCTGGGCCACGAGGCCCTCCAGGGCAACCTGGTCCCAGAGGGAACAAAGGAGAGAAGGGGGACAAAGgtaagaagtggagtgtgattactggggtgctggggctcaggttctgaaaa Alignment from Spaln_nt2Genome GTGACAGGGGCCC---------TGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttacctcttactcattcttggatgtcttcatttttttttttcctgtagGTTCAAACACTGACAGGGGCCCAGCTGGGCCACGAGGCCCTCCAGGGCAACCTGGTCCCAGAGGGAACAAAGGAGAGAAGGGGGACAAAGgtaagaagtggagtgtgattactggggtgctggggctcaggttctgaaaa Alignment from Pairagon G---------TGACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttacctcttactcattcttggatgtcttcatttttttttttcctgtagGTTCAAACACTGACAGGGGCCCAGCTGGGCCACGAGGCCCTCCAGGGCAACCTGGTCCCAGAGGGAACAAAGGAGAGAAGGGGGACAAAGgtaagaagtggagtgtgattactggggtgctggggctcaggttctgaaaa Alignment from Exonerate_protein2genome GT---------GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttacctcttactcattcttggatgtcttcatttttttttttcctgtagGTTCAAACACTGACAGGGGCCCAGCTGGGCCACGAGGCCCTCCAGGGCAACCTGGTCCCAGAGGGAACAAAGGAGAGAAGGGGGACAAAGgtaagaagtggagtgtgattactggggtgctggggctcaggttctgaaaa Alignment from Exonerate_coding2genome GT---------GACAGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttacctcttactcattcttggatgtcttcatttttttttttcctgtagGTTCAAACACTGACAGGGGCCCAGCTGGGCCACGAGGCCCTCCAGGGCAACCTGGTCCCAGAGGGAACAAAGGAGAGAAGGGGGACAAAGgtaagaagtggagtgtgattactggggtgctggggctcaggttctgaaaa Alignment from GeneWise --------------AGGGGCCCTGCTGGACCACGAGGTCCTCCAGGGCCACCCGGCCCCAGAGGGAACAAAGGAGAGAAAGGAGACAAAG ctttacctcttactcattcttggatgtcttcatttttttttttcctgtagGTTCAAACACTGACAGGGGCCCAGCTGGGCCACGAGGCCCTCCAGGGCAACCTGGTCCCAGAGGGAACAAAGGAGAGAAGGGGGACAAAGgtaagaagtggagtgtgattactggggtgctggggctcaggttctgaaaa #### Col17a1_ID10272_50 --> 2 - 1 Original Alignment cc---------TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAg ccagagcgttgggctctgagtcttgaggacagctcttctctctttcgtagccCACGCCTGGTATGGTACTATTCCAGGGCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAggtactggtgcataatccataggttaattgataatgccctagtaccctact Alignment from CESAR cc---------TACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAg ccagagcgttgggctctgagtcttgaggacagctcttctctctttcgtagccCACGCCTGGTATGGTACTATTCCAGGGCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAggtactggtgcataatccataggttaattgataatgccctagtaccctact Alignment from Spaln_aa2Genome CCTACGGCACTATC---------CCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG ccagagcgttgggctctgagtcttgaggacagctcttctctctttcgtagCCCACGCCTGGTATGGTACTATTCCAGGGCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtactggtgcataatccataggttaattgataatgccctagtaccctact Alignment from Spaln_nt2Genome CCTACGGC---------ACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG ccagagcgttgggctctgagtcttgaggacagctcttctctctttcgtagCCCACGCCTGGTATGGTACTATTCCAGGGCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtactggtgcataatccataggttaattgataatgccctagtaccctact Alignment from Pairagon CCTAC---------GGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG ccagagcgttgggctctgagtcttgaggacagctcttctctctttcgtagCCCACGCCTGGTATGGTACTATTCCAGGGCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtactggtgcataatccataggttaattgataatgccctagtaccctact Alignment from Exonerate_protein2genome CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG ccagagcgttgggctctgagtcttgaggacagctcttctctctttcgtagcccacgcctGGTATGGTACTATTCCAGGGCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtactggtgcataatccataggttaattgataatgccctagtaccctact Alignment from Exonerate_coding2genome CCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG ccagagcgttgggctctgagtcttgaggacagctcttctctctttcgtagcccacgcctGGTATGGTACTATTCCAGGGCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtactggtgcataatccataggttaattgataatgccctagtaccctact Alignment from GeneWise --------ACCTACGGCACTATCCCGGGACCACCTGGGCAGAAGGGAGATGTGGGAACCCCAGGCCCCAAAG ccagagcgttgggctctgagtcttgaggacagctcttctctctttcgtagCCCACGCCTGGTATGGTACTATTCCAGGGCCACCTGGCCAGAAAGGAGATGTAGGGACCCCAGGCCCCAAAGgtactggtgcataatccataggttaattgataatgccctagtaccctact #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa ttctgtccaggctcctgtcctttctttcagtgtctttcttttggtgttagcc---GGTTTGTCCTCCATCCCAGGCCCAGCAGGCCCACCAGGACCACCGGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCTACCTATGCAGCTGAGAACAGCGATAACTTCCGGAGTGAGCTGATTAGCTACCTCACAagttggtacccttgatgtgtgccccctgtgcccctcccatagacttccaca Alignment from CESAR ccGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa agcttctgtccaggctcctgtccttttcagtgtctttcttttggtgttagcc---GGTTTGTCCTCCATCCCAGGCCCAGCAGGCCCACCAGGACCACCGGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCTACCTATGCAGCTGAGAACAGCGATAACTTCCGGAGTGAGCTGATTAGCTACCTCACAagttggtacccttgatgtgtgccccctgtgcccctcccatagacttccaca Alignment from Spaln_aa2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA ttctgtccaggctcctgtcctttctttcagtgtctttcttttggtgttagCC---GGTTTGTCCTCCATCCCAGGCCCAGCAGGCCCACCAGGACCACCGGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCTACCTATGCAGCTGAGAACAGCGATAACTTCCGGAGTGAGCTGATTAGCTACCTCACAAgttggtacccttgatgtgtgccccctgtgcccctcccatagacttccaca Alignment from Spaln_nt2Genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA ttctgtccaggctcctgtcctttctttcagtgtctttcttttggtgttagCC---GGTTTGTCCTCCATCCCAGGCCCAGCAGGCCCACCAGGACCACCGGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCTACCTATGCAGCTGAGAACAGCGATAACTTCCGGAGTGAGCTGATTAGCTACCTCACAAgttggtacccttgatgtgtgccccctgtgcccctcccatagacttccaca Alignment from Pairagon CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA ttctgtccaggctcctgtcctttctttcagtgtctttcttttggtgttagCC---GGTTTGTCCTCCATCCCAGGCCCAGCAGGCCCACCAGGACCACCGGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCTACCTATGCAGCTGAGAACAGCGATAACTTCCGGAGTGAGCTGATTAGCTACCTCACAAgttggtacccttgatgtgtgccccctgtgcccctcccatagacttccaca Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA ttctgtccaggctcctgtcctttctttcagtgtctttcttttggtgtTAGCCGGTTTGTCCTCCATCCCAGGCCCAGCAGGCCCACCAGGACCACCGGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCTACCTATGCAGCTGAGAACAGCGATAACTTCCGGAGTGAGCTGATTAGCTACCTCACAAgttggtacccttgatgtgtgccccctgtgcccctcccatagacttccaca Alignment from Exonerate_coding2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA ttctgtccaggctcctgtcctttctttcagtgtctttcttttggtgtTAGCCGGTTTGTCCTCCATCCCAGGCCCAGCAGGCCCACCAGGACCACCGGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCTACCTATGCAGCTGAGAACAGCGATAACTTCCGGAGTGAGCTGATTAGCTACCTCACAAgttggtacccttgatgtgtgccccctgtgcccctcccatagacttccaca Alignment from GeneWise CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA ttctgtccaggctcctgtcctttctttcagtgtctttcttttggtgttagCC---GGTTTGTCCTCCATCCCAGGCCCAGCAGGCCCACCAGGACCACCGGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCTACCTATGCAGCTGAGAACAGCGATAACTTCCGGAGTGAGCTGATTAGCTACCTCACAAgttggtacccttgatgtgtgccccctgtgcccctcccatagacttccaca #### Col17a1_ID10276_46 --> 2 - 1 Original Alignment gtTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAg aaacaagttgagcctaaaactatgccaggtggggtcctgggctcttgcaggt---GGCATCAGCTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTACCTGGAACATCCTATGAAGAGTTACTGTCCATGCTCCAAggtcagtcaaaagcaaaatgtccatcagctcaggatggaaactgaaacctg Alignment from CESAR gtTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAg cctaaacaagttgagcctaaaactacaggtggggtcctgggctcttgcaggt---GGCATCAGCTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTACCTGGAACATCCTATGAAGAGTTACTGTCCATGCTCCAAggtcagtcaaaagcaaaatgtccatcagctcaggatggaaactgaaacctg Alignment from Spaln_aa2Genome CTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG aaacaagttgagcctaaaactatgccaggtggggtcctgggctcttgcagGTGGCATCAGCTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTACCTGGAACATCCTATGAAGAGTTACTGTCCATGCTCCAAGgtcagtcaaaagcaaaatgtccatcagctcaggatggaaactgaaacctg Alignment from Spaln_nt2Genome GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG aaacaagttgagcctaaaactatgccaggtggggtcctgggctcttgcagG---TGGCATCAGCTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTACCTGGAACATCCTATGAAGAGTTACTGTCCATGCTCCAAGgtcagtcaaaagcaaaatgtccatcagctcaggatggaaactgaaacctg Alignment from Pairagon GTTCTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG aaacaagttgagcctaaaactatgccaggtggggtcctgggctcttgcagG---TGGCATCAGCTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTACCTGGAACATCCTATGAAGAGTTACTGTCCATGCTCCAAGgtcagtcaaaagcaaaatgtccatcagctcaggatggaaactgaaacctg Alignment from Exonerate_protein2genome CTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG aaacaagttgagcctaaaactatgccaggtggggtcctgggctcttgcagGTGGCATCAGCTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTACCTGGAACATCCTATGAAGAGTTACTGTCCATGCTCCAAGgtcagtcaaaagcaaaatgtccatcagctcaggatggaaactgaaacctg Alignment from Exonerate_coding2genome CTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG aaacaagttgagcctaaaactatgccaggtggggtcctgggctcttgcagGTGGCATCAGCTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTACCTGGAACATCCTATGAAGAGTTACTGTCCATGCTCCAAGgtcagtcaaaagcaaaatgtccatcagctcaggatggaaactgaaacctg Alignment from GeneWise CTGGGATCAGCTTTGGGCATCCTGGCCCACCGGGACCCCCTGGCCTGCCAGGAACATCCTACGAGGAGCTACTGACCATGCTCCGAG aaacaagttgagcctaaaactatgccaggtggggtcctgggctcttgcagGTGGCATCAGCTTTGGACATCCTGGCCCACCTGGACCTCCTGGACTACCTGGAACATCCTATGAAGAGTTACTGTCCATGCTCCAAGgtcagtcaaaagcaaaatgtccatcagctcaggatggaaactgaaacctg #### Col17a1_ID10278_44 --> 2 - 1 Original Alignment caTCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAc tgggggttattagccaaagtcccctcctgtctgttctttgttccaatcagca---GGATACAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAcgtaatgatcctccaacaggcaggaatagggtcttttacctccctcctgtc Alignment from CESAR caTCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAc ccatgggggttattagccaaagtcccctgtctgttctttgttccaatcagca---GGATACAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAcgtaatgatcctccaacaggcaggaatagggtcttttacctccctcctgtc Alignment from Spaln_aa2Genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC tgggggttattagccaaagtcccctcctgtctgttctttgttccaatcagCA---GGATACAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCTGCGACgtaatgatcctccaacaggcaggaatagggtcttttacctccctcctgtc Alignment from Spaln_nt2Genome CAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC tgggggttattagccaaagtcccctcctgtctgttctttgttccaatcagCAGGATACAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCTGCGACgtaatgatcctccaacaggcaggaatagggtcttttacctccctcctgtc Alignment from Pairagon CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC tgggggttattagccaaagtcccctcctgtctgttctttgttccaatcag---CAGGATACAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCTGCGACgtaatgatcctccaacaggcaggaatagggtcttttacctccctcctgtc Alignment from Exonerate_protein2genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC tgggggttattagccaaagtcccctcctgtctgttctttgttccaatCAGCAGGATACAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCTGCGACgtaatgatcctccaacaggcaggaatagggtcttttacctccctcctgtc Alignment from Exonerate_coding2genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC tgggggttattagccaaagtcccctcctgtctgttctttgttccaatCAGCAGGATACAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCTGCGACgtaatgatcctccaacaggcaggaatagggtcttttacctccctcctgtc Alignment from GeneWise CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC tgggggttattagccaaagtcccctcctgtctgttctttgttccaatcagCA---GGATACAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCTGCGACgtaatgatcctccaacaggcaggaatagggtcttttacctccctcctgtc #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt ttctggccgcaggcttgatcatgtcatcgctcttttcctttccttcccaggtGGCAATATCAGGACATATCTCCTAGGGGTTCAGGGTCCCCCTGGACCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTG---tgtaagtagtccatgacaattcctatgttgttcccctcaatacctttggag Alignment from CESAR gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGt ttctggccgcaggcttgatcatgtcatcgctcttttcctttccttcccaggtGGCAATATCAGGACATATCTCCTAGGGGTTCAGGGTCCCCCTGGACCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTG---tgtaagtagtccatgacaattcctatgttgttcccctcaatacctttggag Alignment from Spaln_aa2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTG- ttctggccgcaggcttgatcatgtcatcgctcttttcctttccttcccagGTGGCAATATCAGGACATATCTCCTAGGGGTTCAGGGTCCCCCTGGACCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGTgtaagtagtccatgacaattcctatgttgttcccctcaatacctttggag Alignment from Spaln_nt2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT ttctggccgcaggcttgatcatgtcatcgctcttttcctttccttcccagGTGGCAATATCAGGACATATCTCCTAGGGGTTCAGGGTCCCCCTGGACCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTTGTTAGCTAC---CTGTgtaagtagtccatgacaattcctatgttgttcccctcaatacctttggag Alignment from Pairagon GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT ttctggccgcaggcttgatcatgtcatcgctcttttcctttccttcccagGTGGCAATATCAGGACATATCTCCTAGGGGTTCAGGGTCCCCCTGGACCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCT---GTgtaagtagtccatgacaattcctatgttgttcccctcaatacctttggag Alignment from Exonerate_protein2genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT ttctggccgcaggcttgatcatgtcatcgctcttttcctttccttcccagGTGGCAATATCAGGACATATCTCCTAGGGGTTCAGGGTCCCCCTGGACCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTG---Tgtaagtagtccatgacaattcctatgttgttcccctcaatacctttggag Alignment from Exonerate_coding2genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT ttctggccgcaggcttgatcatgtcatcgctcttttcctttccttcccagGTGGCAATATCAGGACATATCTCCTAGGGGTTCAGGGTCCCCCTGGACCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTG---Tgtaagtagtccatgacaattcctatgttgttcccctcaatacctttggag Alignment from GeneWise GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGC ttctggccgcaggcttgatcatgtcatcgctcttttcctttccttcccagGTGGCAATATCAGGACATATCTCCTAGGGGTTCAGGGTCCCCCTGGACCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAGGGAGAGACTTTTGATTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGTgtaagtagtccatgacaattcctatgttgttcccctcaatacctttggag #### Col17a1_ID10280_42 --> 2 - 1 Original Alignment ggGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAa ttttggtgagataaggagctgagttgagtaaatgtgactttgtcttctaggg---TCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAATACATGCAAagtgggtgcttcgacatcccacaccatggacatgaggggaaaaaggagggt Alignment from CESAR ggGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAa tacttttggtgagataaggagctgagagtaaatgtgactttgtcttctaggg---TCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAATACATGCAAagtgggtgcttcgacatcccacaccatggacatgaggggaaaaaggagggt Alignment from Spaln_aa2Genome GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAA ttttggtgagataaggagctgagttgagtaaatgtgactttgtcttctagGG---TCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAATACATGCAAAgtgggtgcttcgacatcccacaccatggacatgaggggaaaaaggagggt Alignment from Spaln_nt2Genome GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAA ttttggtgagataaggagctgagttgagtaaatgtgactttgtcttctagG---GTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAATACATGCAAAgtgggtgcttcgacatcccacaccatggacatgaggggaaaaaggagggt Alignment from Pairagon GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAA ttttggtgagataaggagctgagttgagtaaatgtgactttgtcttctagG---GTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAATACATGCAAAgtgggtgcttcgacatcccacaccatggacatgaggggaaaaaggagggt Alignment from Exonerate_protein2genome GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAA ttttggtgagataaggagctgagttgagtaaatgtgactttgtcttctagGG---TCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAATACATGCAAAgtgggtgcttcgacatcccacaccatggacatgaggggaaaaaggagggt Alignment from Exonerate_coding2genome GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAA ttttggtgagataaggagctgagttgagtaaatgtgactttgtcttctagGG---TCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAATACATGCAAAgtgggtgcttcgacatcccacaccatggacatgaggggaaaaaggagggt Alignment from GeneWise GGGCGTCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCCGGCCAGGATATCCAGCACTACATCGCTGAATACATGCAAA ttttggtgagataaggagctgagttgagtaaatgtgactttgtcttctagGG---TCATCAAGCACTCTGTACATGCAGGGCCCCCCTGGCCCTCCAGGGCCCCCTGGGCCTCCGGGCTCCCTCAGCAGCTCTGGCCAGGATATACAGCACTACATTGCAGAATACATGCAAAgtgggtgcttcgacatcccacaccatggacatgaggggaaaaaggagggt #### Col17a1_ID10283_39 --> 2 - 1 Original Alignment ggGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA---------g atccactggtgaggttattgtctcgtaagcctctgtgtgtctgtccccaggcGAGGGTGTACCAGGCCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAACCCTTATCggtaagatggatccaatcacaccttttatatcaatccaactgcactgacca Alignment from CESAR ggGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA---------g atccactggtgaggttattgtctcgtaagcctctgtgtgtctgtccccaggcGAGGGTGTACCAGGCCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAACCCTTATCggtaagatggatccaatcacaccttttatatcaatccaactgcactgacca Alignment from Spaln_aa2Genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA---------G atccactggtgaggttattgtctcgtaagcctctgtgtgtctgtccccagGCGAGGGTGTACCAGGCCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAACCCTTATCGgtaagatggatccaatcacaccttttatatcaatccaactgcactgacca Alignment from Spaln_nt2Genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA---------G atccactggtgaggttattgtctcgtaagcctctgtgtgtctgtccccagGCGAGGGTGTACCAGGCCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAACCCTTATCGgtaagatggatccaatcacaccttttatatcaatccaactgcactgacca Alignment from Pairagon GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA---------G atccactggtgaggttattgtctcgtaagcctctgtgtgtctgtccccagGCGAGGGTGTACCAGGCCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAACCCTTATCGgtaagatggatccaatcacaccttttatatcaatccaactgcactgacca Alignment from Exonerate_protein2genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAGAAA atccactggtgaggttattgtctcgtaagcctctgtgtgtctgtccccagGCGAGGGTGTACCAGGCCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAACCCttatcggtaagatggatccaatcacaccttttatatcaatccaactgcactgacca Alignment from Exonerate_coding2genome GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCAGAAA atccactggtgaggttattgtctcgtaagcctctgtgtgtctgtccccagGCGAGGGTGTACCAGGCCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAACCCttatcggtaagatggatccaatcacaccttttatatcaatccaactgcactgacca Alignment from GeneWise GGGAAGGCGTACCAGGCCCACCCGGGCCACCAGGATCCTTCCTGACTGACTCA---------G atccactggtgaggttattgtctcgtaagcctctgtgtgtctgtccccagGCGAGGGTGTACCAGGCCCACCTGGGCCACCAGGATCTTTTTTGACTGACTCAACCCTTATCGgtaagatggatccaatcacaccttttatatcaatccaactgcactgacca #### Col17a1_ID10284_38 --> 2 - 1 Original Alignment gg---------CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg aagtggggagaatcagcctccaagggcatgcacatttccttctttcctagggATGGAGTCACCTTCCATTCCAGGCCCACCAGGACCCCGAAGTCCGCCGggtgagtgctgaactgttttcacataggagggggcaaggactggggtagca Alignment from CESAR gg---------CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAg aagtggggagaatcagcctccaagggcatgcacatttccttctttcctagggATGGAGTCACCTTCCATTCCAGGCCCACCAGGACCCCGAAGTCCGCCGggtgagtgctgaactgttttcacataggagggggcaaggactggggtagca Alignment from Spaln_aa2Genome GGCCTTCCATCCCA---------GGCCCGCCAGGACCCAGAGGTCCACCAG aagtggggagaatcagcctccaagggcatgcacatttccttctttcctagGGATGGAGTCACCTTCCATTCCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgagtgctgaactgttttcacataggagggggcaaggactggggtagca Alignment from Spaln_nt2Genome GGCCTTCCATCCC---------AGGCCCGCCAGGACCCAGAGGTCCACCAG aagtggggagaatcagcctccaagggcatgcacatttccttctttcctagGGATGGAGTCACCTTCCATTCCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgagtgctgaactgttttcacataggagggggcaaggactggggtagca Alignment from Pairagon GG---------CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG aagtggggagaatcagcctccaagggcatgcacatttccttctttcctagGGATGGAGTCACCTTCCATTCCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgagtgctgaactgttttcacataggagggggcaaggactggggtagca Alignment from Exonerate_protein2genome GG---------CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG aagtggggagaatcagcctccaagggcatgcacatttccttctttcctagGGATGGAGTCACCTTCCATTCCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgagtgctgaactgttttcacataggagggggcaaggactggggtagca Alignment from Exonerate_coding2genome GG---------CCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG aagtggggagaatcagcctccaagggcatgcacatttccttctttcctagGGATGGAGTCACCTTCCATTCCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgagtgctgaactgttttcacataggagggggcaaggactggggtagca Alignment from GeneWise --------GGGCCTTCCATCCCAGGCCCGCCAGGACCCAGAGGTCCACCAG aagtggggagaatcagcctccaagggcatgcacatttccttctttcctagGGATGGAGTCACCTTCCATTCCAGGCCCACCAGGACCCCGAAGTCCGCCGGgtgagtgctgaactgttttcacataggagggggcaaggactggggtagca #### Col17a1_ID10288_34 --> 2 - 1 Original Alignment agGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg tgggttatgataccttcacaggacatgttctcctttgtttctatttatagagGGATCATCAACAATCACTGTGCCTGGACCTCCAGGGCCTCCTGGTGCCATGGGTCCCCCGGGGCCTCCA---------ggtgagtctacaagggtctttctcattttctccgacaaatcagcagcaggc Alignment from CESAR agGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAg tgggttatgataccttcacaggacatgttctcctttgtttctatttatagagGGATCATCAACAATCACTGTGCCTGGACCTCCAGGGCCTCCTGGTGCCATGGGTCCCCCGGGGCCT---------CCAggtgagtctacaagggtctttctcattttctccgacaaatcagcagcaggc Alignment from Spaln_aa2Genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAG tgggttatgataccttcacaggacatgttctcctttgtttctatttatagAGGGATCATCAACAATCACTGTGCCTGGACCTCCAGGGCCTCCTGGTGCCATGGGTCCCCCGGGGCCTCCAGgtgagtctacaagggtctttctcattttctccgacaaatcagcagcaggc Alignment from Spaln_nt2Genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAG tgggttatgataccttcacaggacatgttctcctttgtttctatttatagAGGGATCATCAACAATCACTGTGCCTGGACCTCCAGGGCCTCCTGGTGCCATGGGTCCCCCGGGGCCTCCAGgtgagtctacaagggtctttctcattttctccgacaaatcagcagcaggc Alignment from Pairagon AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAG tgggttatgataccttcacaggacatgttctcctttgtttctatttatagAGGGATCATCAACAATCACTGTGCCTGGACCTCCAGGGCCTCCTGGTGCCATGGGTCCCCCGGGGCCTCCAGgtgagtctacaagggtctttctcattttctccgacaaatcagcagcaggc Alignment from Exonerate_protein2genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG tgggttatgataccttcacaggacatgttctcctttgtttctatttatagAGGGATCATCAACAATCACTGTGCCTGGACCTCCAGGGCCTCCTGGTGCCATGGGTCCCCCGGGGCCTCCAGGTGAGTCTAcaagggtctttctcattttctccgacaaatcagcagcaggc Alignment from Exonerate_coding2genome AGGGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCAGGGACGCCAG tgggttatgataccttcacaggacatgttctcctttgtttctatttatagAGGGATCATCAACAATCACTGTGCCTGGACCTCCAGGGCCTCCTGGTGCCATGGGTCCCCCGGGGCCTCCAGGTGAGTCTAcaagggtctttctcattttctccgacaaatcagcagcaggc Alignment from GeneWise GGATCATCAACAATCACTGTGCCCGGACCTCCCGGACCTCCTGGTGCCATGGGTCCCCCAGGACCTCCA- tgggttatgataccttcacaggacatgttctcctttgtttctatttatagagGGATCATCAACAATCACTGTGCCTGGACCTCCAGGGCCTCCTGGTGCCATGGGTCCCCCGGGGCCTCCAGgtgagtctacaagggtctttctcattttctccgacaaatcagcagcaggc #### Coro1b_ID352_2 --> 0 - 0 Original Alignment ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gggaagttaggagctttgggccttctttttgcacactctgctcctcgcagACAGGCCGTGTTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAA---------------gtaacaaaaaatctgagataagctccgtcgttcaagctgggctcaggatg Alignment from CESAR ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gggaagttaggagctttgggccttctttttgcacactctgctcctcgcagACAGGCCGTGTTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAA---------------gtaacaaaaaatctgagataagctccgtcgttcaa Alignment from Spaln_aa2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAG gggaagttaggagctttgggccttctttttgcacactctgctcctcgcagACAGGCCGTGTTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAgtaacaaaaaatctgagataagctccgtcgttcaagctgggctcaggatg Alignment from Spaln_nt2Genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAG GA-- gggaagttaggagctttgggccttctttttgcacactctgctcctcgcagACAGGCCGTGTTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAgtaacaaaaaatctgagataagctccgtcgttcaagctgggctcagGATG Alignment from Pairagon ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAG gggaagttaggagctttgggccttctttttgcacactctgctcctcgcagACAGGCCGTGTTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAAgtaacaaaaaatctgagataagctccgtcgttcaagctgggctcaggatg Alignment from Exonerate_protein2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gggaagttaggagctttgggccttctttttgcacactctgctcctcgcagACAGGCCGTGTTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAA---GTAACAAAAAATctgagataagctccgtcgttcaagctgggctcagg Alignment from Exonerate_coding2genome ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gggaagttaggagctttgggccttctttttgcacactctgctcctcgcagACAGGCCGTGTTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAA---GTAACAAAAAATctgagataagctccgtcgttcaagctgggctcagg Alignment from GeneWise ACGGGCCGCATTGACAAGGCCTACCCGACAGTGTGTGGGCACACGGGGCCTGTTCTGGATATTGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCAGAGGACTGCACTGTCATG gggaagttaggagctttgggccttctttttgcacactctgctcctcgcagACAGGCCGTGTTGACAAGGCATTCCCAACAGTGTGTGGGCACACAGGGCCTGTTCTGGATATAGACTGGTGTCCCCACAATGATGAAGTCATTGCCAGTGGATCA---------------GAAgtaacaaaaaatctgagataagctccgtcgttcaagctgggctcaggatg #### Coro1b_ID353_3 --> 0 - 1 Original Alignment ------GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg caacctccctcctgacagctggcctgtcagccctgtgtccctccttccagGAAATAGTATGGCAGATTCCAGAAAACGGGTTGACCTCCCCCCTGACAGAGCCAGTAGTTGTGCCTGAGGGGCATACAATTAAGCGACGTGTGGGCATTACTACCTGGCACCCTACAGCCCGGATTGTGCTTCTTGGTGCAggtaggtaccactccatacctacaccttgctctctacccttctccagaatg Alignment from CESAR ------GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC---AAG---CGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAg caacctccctcctgacagctggcctgtcagccctgtgtccctccttccagGAAATAGTATGGCAGATTCCAGAAAACGGGTTGACCTCCCCCCTGACAGAGCCAGTAGTTGTGCCTGAGGGGCATACAATTAAGCGACGTGTGGGCATTACTACCTGGCACCCTACAGCCCGGATTGTGCTTCTTGGTGCAggtaggtaccactccatacctacaccttgctctctacccttctccagaatg Alignment from Spaln_aa2Genome GTCATGGTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG caacctccctcctgacagctggcctgtcagccctgtgtccctccttccagGAAATAGTATGGCAGATTCCAGAAAACGGGTTGACCTCCCCCCTGACAGAGCCAGTAGTTGTGCCTGAGGGGCATACAATTAAGCGACGTGTGGGCATTACTACCTGGCACCCTACAGCCCGGATTGTGCTTCTTGGTGCAGgtaggtaccactccatacctacaccttgctctctacccttctccagaatg Alignment from Spaln_nt2Genome GTATGGCAGAT------TCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCA---AGCGC---GTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG caacctccctcctgacagctggcctgtcagccctgtgtccctccttccagGAAATAGTATGGCAGATTCCAGAAAACGGGTTGACCTCCCCCCTGACAGAGCCAGTAGTTGTGCCTGAGGGGCATACAATTAAGCGACGTGTGGGCATTACTACCTGGCACCCTACAGCCCGGATTGTGCTTCTTGGTGCAGgtaggtaccactccatacctacaccttgctctctacccttctccagaatg Alignment from Pairagon ------GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACCA------AGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG caacctccctcctgacagctggcctgtcagccctgtgtccctccttccagGAAATAGTATGGCAGATTCCAGAAAACGGGTTGACCTCCCCCCTGACAGAGCCAGTAGTTGTGCCTGAGGGGCATACAATTAAGCGACGTGTGGGCATTACTACCTGGCACCCTACAGCCCGGATTGTGCTTCTTGGTGCAGgtaggtaccactccatacctacaccttgctctctacccttctccagaatg Alignment from Exonerate_protein2genome ------GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG caacctccctcctgacagctggcctgtcagccctgtgtccctccttccagGAAATAGTATGGCAGATTCCAGAAAACGGGTTGACCTCCCCCCTGACAGAGCCAGTAGTTGTGCCTGAGGGGCATACAATTAAGCGACGTGTGGGCATTACTACCTGGCACCCTACAGCCCGGATTGTGCTTCTTGGTGCAGgtaggtaccactccatacctacaccttgctctctacccttctccagaatg Alignment from Exonerate_coding2genome ------GTATGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG caacctccctcctgacagctggcctgtcagccctgtgtccctccttccagGAAATAGTATGGCAGATTCCAGAAAACGGGTTGACCTCCCCCCTGACAGAGCCAGTAGTTGTGCCTGAGGGGCATACAATTAAGCGACGTGTGGGCATTACTACCTGGCACCCTACAGCCCGGATTGTGCTTCTTGGTGCAGgtaggtaccactccatacctacaccttgctctctacccttctccagaatg Alignment from GeneWise --TGGCAGATTCCAGAAAATGGGCTGACCTCCCCTCTGACAGAGCCAGTAGTGGTGCTCGAGGGGCATACC------AAGCGCGTGGGCATTATCACCTGGCACCCCACAGCCCGAAATGTGCTTCTCAGTGCAG caacctccctcctgacagctggcctgtcagccctgtgtccctccttccaggaaatagTATGGCAGATTCCAGAAAACGGGTTGACCTCCCCCCTGACAGAGCCAGTAGTTGTGCCTGAGGGGCATACAATTAAGCGACGTGTGGGCATTACTACCTGGCACCCTACAGCCCGGATTGTGCTTCTTGGTGCAGgtaggtaccactccatacctacaccttgctctctacccttctccagaatg #### Coro1b_ID355_5 --> 0 - 0 Original Alignment GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA--- aaattcagggccttgatccaccctgtacatattttattttttcctcccagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTGTAGCCGATGGAAAGGTGTTCTCCACAGGTTTCAGCCACATGAGTGAACGGCAGCTGGCACTCTGGGACCCACGCgtgagtgatacaggaagactattgcagggcaggtctgtgacctatgcctg Alignment from CESAR GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA--- aaattcagggccttgatccaccctgtacatattttattttttcctcccagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTGTAGCCGATGGAAAGGTGTTCTCCACAGGTTTCAGCCACATGAGTGAACGGCAGCTGGCACTCTGGGACCCACGCgtgagtgatacaggaagactattgcagggcaggtctgtgacctatgcctg Alignment from Spaln_aa2Genome GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA--- aaattcagggccttgatccaccctgtacatattttattttttcctcccagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTGTAGCCGATGGAAAGGTGTTCTCCACAGGTTTCAGCCACATGAGTGAACGGCAGCTGGCACTCTGGGACCCACGCgtgagtgatacaggaagactattgcagggcaggtctgtgacctatgcctg Alignment from Spaln_nt2Genome GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA--- aaattcagggccttgatccaccctgtacatattttattttttcctcccagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTGTAGCCGATGGAAAGGTGTTCTCCACAGGTTTCAGCCACATGAGTGAACGGCAGCTGGCACTCTGGGACCCACGCgtgagtgatacaggaagactattgcagggcaggtctgtgacctatgcctg Alignment from Pairagon GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA--- aaattcagggccttgatccaccctgtacatattttattttttcctcccagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTGTAGCCGATGGAAAGGTGTTCTCCACAGGTTTCAGCCACATGAGTGAACGGCAGCTGGCACTCTGGGACCCACGCgtgagtgatacaggaagactattgcagggcaggtctgtgacctatgcctg Alignment from Exonerate_protein2genome GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA--- aaattcagggccttgatccaccctgtacatattttattttttcctcccagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTGTAGCCGATGGAAAGGTGTTCTCCACAGGTTTCAGCCACATGAGTGAACGGCAGCTGGCACTCTGGGACCCACGCgtgagtgatacaggaagactattgcagggcaggtctgtgacctatgcctg Alignment from Exonerate_coding2genome GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCA--- aaattcagggccttgatccaccctgtacatattttattttttcctcccagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTGTAGCCGATGGAAAGGTGTTCTCCACAGGTTTCAGCCACATGAGTGAACGGCAGCTGGCACTCTGGGACCCACGCgtgagtgatacaggaagactattgcagggcaggtctgtgacctatgcctg Alignment from GeneWise GAACGTGAAAAGGCTCACGAGGGGGCCCGGCCCATGCGGGCCATCTTTCTAGCTGACGGGAAGGTGTTCACCACAGGTTTCAGCCGCATGAGTGAACGGCAGCTGGCGCTCTGGGACCCAGAA aaattcagggccttgatccaccctgtacatattttattttttcctcccagGAACGTGAAAAGGCTCATGAGGGGGCCCGGCCCATGCGGGCCATCTTTGTAGCCGATGGAAAGGTGTTCTCCACAGGTTTCAGCCACATGAGTGAACGGCAGCTGGCACTCTGGGACCCACGCgtgagtgatacaggaagactattgcagggcaggtctgtgacctatgcctg #### Coro1b_ID357_7 --> 0 - 2 Original Alignment GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag ataaaggaaagatttcattaaatgcacgttctctattttcccacctccag---GATTCTAGCATCCGATACTTTGAGAATACAGATGAGCCC---CACATCCACTTCCTGAATACATTTGCAAGTAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGCGGTCAGCAAGTGTGAAATAGCCaggtatgtacactcactggggtggtcgtatgtcagcatagtgtcttaggatg Alignment from CESAR GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag aacataaaggaaagatttcattaaaacgttctctattttcccacctccag---GATTCTAGCATCCGATACTTTGAGAATACAGATGAG---CCCCACATCCACTTCCTGAATACATTTGCAAGTAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGCGGTCAGCAAGTGTGAAATAGCCaggtatgtacactcactggggtggtcgtatgtcagcatagtgtcttaggatg Alignment from Spaln_aa2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataaaggaaagatttcattaaatgcacgttctctattttcccacctccag---GATTCTAGCATCCGATACTTTGAGAATACAGATGAG---CCCCACATCCACTTCCTGAATACATTTGCAAGTAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGCGGTCAGCAAGTGTGAAATAGCCAGgtatgtacactcactggggtggtcgtatgtcagcatagtgtcttaggatg Alignment from Spaln_nt2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataaaggaaagatttcattaaatgcacgttctctattttcccacctccag---GATTCTAGCATCCGATACTTTGAGAATACAGATGAGCCCC---ACATCCACTTCCTGAATACATTTGCAAGTAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGCGGTCAGCAAGTGTGAAATAGCCAGgtatgtacactcactggggtggtcgtatgtcagcatagtgtcttaggatg Alignment from Pairagon GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataaaggaaagatttcattaaatgcacgttctctattttcccacctccag---GATTCTAGCATCCGATACTTTGAGAATACAGATGAGCCCC---ACATCCACTTCCTGAATACATTTGCAAGTAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGCGGTCAGCAAGTGTGAAATAGCCAGgtatgtacactcactggggtggtcgtatgtcagcatagtgtcttaggatg Alignment from Exonerate_protein2genome GATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataaaggaaagatttcattaaatgcacgttctctattttcccacctccagGATTCTAGCATCCGATACTTTGAGAATACAGATGAG---CCCCACATCCACTTCCTGAATACATTTGCAAGTAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGCGGTCAGCAAGTGTGAAATAGCCAGgtatgtacactcactggggtggtcgtatgtcagcatagtgtcttaggatg Alignment from Exonerate_coding2genome GATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataaaggaaagatttcattaaatgcacgttctctattttcccacctccagGATTCTAGCATCCGATACTTTGAGAATACAGATGAG---CCCCACATCCACTTCCTGAATACATTTGCAAGTAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGCGGTCAGCAAGTGTGAAATAGCCAGgtatgtacactcactggggtggtcgtatgtcagcatagtgtcttaggatg Alignment from GeneWise -----------------------------------------------GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ATAAAGGAAAGATTTCATTAAATGCACGTTCTCTATTTTCCCACCTCCAGGATTCTAGCATCCGATACTTTGAGAATACAGATGAGCCC---CACATCCACTTCCTGAATACATTTGCAAGTAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGCGGTCAGCAAGTGTGAAATAGCCAGgtatgtacactcactggggtggtcgtatgtcagcatagtgtcttaggatg #### Csf2ra_ID13430_10 --> 1 - 0 Original Alignment gTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG--- gtggacacccaggtgcatgctactctgctctttaaacttatgtattataggTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGGCTgtcaggagtcacaggcactagtggtgggagtcgagcatgacacttgaccc Alignment from CESAR gTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG--- gtggacacccaggtgcatgctactctgctctttaaacttatgtattataggTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGGCTgtcaggagtcacaggcactagtggtgggagtcgagcatgacacttgaccc Alignment from Spaln_aa2Genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtggacacccaggtgcatgctactctgctctttaaacttatgtattatagGTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgctgtcaggagtcacaggcactagtggtgggagtcgagcatgacacttgaccc Alignment from Spaln_nt2Genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtggacacccaggtgcatgctactctgctctttaaacttatgtattatagGTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgctgtcaggagtcacaggcactagtggtgggagtcgagcatgacacttgaccc Alignment from Pairagon GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG--- gtggacacccaggtgcatgctactctgctctttaaacttatgtattatagGTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGGCTgtcaggagtcacaggcactagtggtgggagtcgagcatgacacttgaccc Alignment from Exonerate_protein2genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAG gtggacacccaggtgcatgctactctgctctttaaacttatgtattatagGTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGgctgtcaggagtcacaggcactagtggtgggagtcgagcatgacacttgaccc Alignment from Exonerate_coding2genome GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAGACCCTCAGG gtggacacccaggtgcatgctactctgctctttaaacttatgtattatagGTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGGCTGTCAGGagtcacaggcactagtggtgggagtcgagcatgacacttgaccc Alignment from GeneWise GTTCGAGGTGACGCGCCGACTCTTCCCGCCCATCCCAGGGATCAGGGACAAGGTGTCCGACGACGTGCGAGTGAACCCTGAGACCCTCAGG gtggacacccaggtgcatgctactctgctctttaaacttatgtattatagGTTGGAGGTGACACGCCGACTCTTCCCACCCATCCCAGGGATCAGGGACAAGGTGTCTGACGATGTGCGAGTGAACCCTGAGGCTGTCAGGagtcacaggcactagtggtgggagtcgagcatgacacttgaccc #### Csf2ra_ID13434_6 --> 2 - 0 Original Alignment agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG--------- aaggtgggacttgtacgtgatagctcttcatttccttttcatccctgcagagCGTCTTGGTCCCCCACGTGATGTCACGGCATCCTGCAACTCTTCCCATTGTACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGTGGCAACGCACGCCGgtatagagggcttctcctttttggaaaggcacaagggaggatatgccaag Alignment from CESAR agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG--------- aaggtgggacttgtacgtgatagctcttcatttccttttcatccctgcagagCGTCTTGGTCCCCCACGTGATGTCACGGCATCCTGCAACTCTTCCCATTGTACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGTGGCAACGCACGCCGgtatagagggcttctcctttttggaaaggcacaagggaggatatgccaag Alignment from Spaln_aa2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG--------- aaggtgggacttgtacgtgatagctcttcatttccttttcatccctgcagAGCGTCTTGGTCCCCCACGTGATGTCACGGCATCCTGCAACTCTTCCCATTGTACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGTGGCAACGCACGCCGgtatagagggcttctcctttttggaaaggcacaagggaggatatgccaag Alignment from Spaln_nt2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG- aaggtgggacttgtacgtgatagctcttcatttccttttcatccctgcagAGCGTCTTGGTCCCCCACGTGATGTCACGGCATCCTGCAACTCTTCCCATTGTACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGTGGCAACgcacgccggtatagagggcttctcctttttggaaaggcacaagggaggatatgccaag Alignment from Pairagon AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGG-------------------------------------------------------------- aaggtgggacttgtacgtgatagctcttcatttccttttcatccctgcagAGCGTCTTGGTCCCCCACGTGATGTCACGGCATCCTGCAACTCTTCCCATTGTACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGTGGCAACGCACGCCGGTATAGAGGGCTTCTCCTTTTTGGAAAGGCACAAGGGAGGATATGCCAAG Alignment from Exonerate_protein2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aaggtgggacttgtacgtgatagctcttcatttccttttcatccctgcagAGCGTCTTGGTCCCCCACGTGATGTCACGGCATCCTGCAACTCTTCCCATTGTACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAcgcacgccggtatagagggcttctcctttttggaaaggcacaagggaggatatgccaag Alignment from Exonerate_coding2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aaggtgggacttgtacgtgatagctcttcatttccttttcatccctgcagAGCGTCTTGGTCCCCCACGTGATGTCACGGCATCCTGCAACTCTTCCCATTGTACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGTGGCAAcgcacgccggtatagagggcttctcctttttggaaaggcacaagggaggatatgccaag Alignment from GeneWise AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAGAGCGCAGAGCCAGGAAGCACACCCCGGAAG aaggtgggacttgtacgtgatagctcttcatttccttttcatccctgcagAGCGTCTTGGTCCCCCACGTGATGTCACGGCATCCTGCAACTCTTCCCATTGTACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGTGGCAACGCACG---------------------CCGgtatagagggcttctcctttttggaaaggcacaagggaggatatgccaag #### Csf2ra_ID13435_5 --> 1 - 1 Original Alignment gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---------g actttctataacctcattgccgactctggctgctttggttttccttccagaGGTCACGATGTGGCACGTTGCATGGCTGATCCTGGGGACGATGTCATCACCCAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTCGTAACTGGTCGGAGTGGGGCAGGGCCAGTGTGGTTTCTAGACGATGTGGTGGCTACAAAGGCACTCTTTGAGATTggtaagattgcggttatgagtaggtgcggggcttctaagtggcaacctgga Alignment from CESAR gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---------g actttctataacctcattgccgactctggctgctttggttttccttccagaGGTCACGATGTGGCACGTTGCATGGCTGATCCTGGGGACGATGTCATCACCCAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTCGTAACTGGTCGGAGTGGGGCAGGGCCAGTGTGGTTTCTAGACGATGTGGTGGCTACAAAGGCACTCTTTGAGATTggtaagattgcggttatgagtaggtgcggggcttctaagtggcaacctgga Alignment from Spaln_aa2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---------G actttctataacctcattgccgactctggctgctttggttttccttccagAGGTCACGATGTGGCACGTTGCATGGCTGATCCTGGGGACGATGTCATCACCCAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTCGTAACTGGTCGGAGTGGGGCAGGGCCAGTGTGGTTTCTAGACGATGTGGTGGCTACAAAGGCACTCTTTGAGATTGgtaagattgcggttatgagtaggtgcggggcttctaagtggcaacctgga Alignment from Spaln_nt2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---------G actttctataacctcattgccgactctggctgctttggttttccttccagAGGTCACGATGTGGCACGTTGCATGGCTGATCCTGGGGACGATGTCATCACCCAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTCGTAACTGGTCGGAGTGGGGCAGGGCCAGTGTGGTTTCTAGACGATGTGGTGGCTACAAAGGCACTCTTTGAGATTGgtaagattgcggttatgagtaggtgcggggcttctaagtggcaacctgga Alignment from Pairagon GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---------G actttctataacctcattgccgactctggctgctttggttttccttccagAGGTCACGATGTGGCACGTTGCATGGCTGATCCTGGGGACGATGTCATCACCCAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTCGTAACTGGTCGGAGTGGGGCAGGGCCAGTGTGGTTTCTAGACGATGTGGTGGCTACAAAGGCACTCTTTGAGATTGgtaagattgcggttatgagtaggtgcggggcttctaagtggcaacctgga Alignment from Exonerate_protein2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG actttctataacctcattgccgactctggctgctttggttttccttccagAGGTCACGATGTGGCACGTTGCATGGCTGATCCTGGGGACGATGTCATCACCCAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTCGTAACTGGTCGGAGTGGGGCAGGGCCAGTGTGGTTTCTAGACGATGTGGTGGCTACAAAGGCACTCTttgagattggtaagattgcggttatgagtaggtgcggggcttctaagtggcaacctgga Alignment from Exonerate_coding2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCG actttctataacctcattgccgactctggctgctttggttttccttccagAGGTCACGATGTGGCACGTTGCATGGCTGATCCTGGGGACGATGTCATCACCCAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTCGTAACTGGTCGGAGTGGGGCAGGGCCAGTGTGGTTTCTAGACGATGTGGTGGCTACAAAGGCACTCTttgagattggtaagattgcggttatgagtaggtgcggggcttctaagtggcaacctgga Alignment from GeneWise GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---------G actttctataacctcattgccgactctggctgctttggttttccttccagAGGTCACGATGTGGCACGTTGCATGGCTGATCCTGGGGACGATGTCATCACCCAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTCGTAACTGGTCGGAGTGGGGCAGGGCCAGTGTGGTTTCTAGACGATGTGGTGGCTACAAAGGCACTCTTTGAGATTGgtaagattgcggttatgagtaggtgcggggcttctaagtggcaacctgga #### Csf2ra_ID13436_4 --> 2 - 2 Original Alignment gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC---ac ggacagggtgtggtgaattccagtcaaggtccatctgctcctgtctccaggcACAGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATCCGAGCTTCTCGCTTCCTTTCCTGTGCCTGGCGAGAGGGGCCAGCGGCACCTGCAGATGTCCGGCACTCGCTGCGAGTCCTCAACTCCGTCacgtgagatgtgatctcaggccgggccttcatccatccatcacattgctact Alignment from CESAR gcGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC---ac ggacagggtgtggtgaattccagtcaaggtccatctgctcctgtctccaggcACAGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATCCGAGCTTCTCGCTTCCTTTCCTGTGCCTGGCGAGAGGGGCCAGCGGCACCTGCAGATGTCCGGCACTCGCTGCGAGTCCTCAACTCCGTCacgtgagatgtgatctcaggccgggccttcatccatccatcacattgctact Alignment from Spaln_aa2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCACG-- ggacagggtgtggtgaattccagtcaaggtccatctgctcctgtctccagGCACAGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATCCGAGCTTCTCGCTTCCTTTCCTGTGCCTGGCGAGAGGGGCCAGCGGCACCTGCAGATGTCCGGCACTCGCTGCGAGTCCTCAACTCCGTCACgtgagatgtgatctcaggccgggccttcatccatccatcacattgctact Alignment from Spaln_nt2Genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC---AC ggacagggtgtggtgaattccagtcaaggtccatctgctcctgtctccagGCACAGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATCCGAGCTTCTCGCTTCCTTTCCTGTGCCTGGCGAGAGGGGCCAGCGGCACCTGCAGATGTCCGGCACTCGCTGCGAGTCCTCAACTCCGTCACgtgagatgtgatctcaggccgggccttcatccatccatcacattgctact Alignment from Pairagon GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTC---CAC ggacagggtgtggtgaattccagtcaaggtccatctgctcctgtctccagGCACAGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATCCGAGCTTCTCGCTTCCTTTCCTGTGCCTGGCGAGAGGGGCCAGCGGCACCTGCAGATGTCCGGCACTCGCTGCGAGTCCTCAACTCCGTCACgtgagatgtgatctcaggccgggccttcatccatccatcacattgctact Alignment from Exonerate_protein2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC---AC ggacagggtgtggtgaattccagtcaaggtccatctgctcctgtctccagGCACAGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATCCGAGCTTCTCGCTTCCTTTCCTGTGCCTGGCGAGAGGGGCCAGCGGCACCTGCAGATGTCCGGCACTCGCTGCGAGTCCTCAACTCCGTCACgtgagatgtgatctcaggccgggccttcatccatccatcacattgctact Alignment from Exonerate_coding2genome GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCC---AC ggacagggtgtggtgaattccagtcaaggtccatctgctcctgtctccagGCACAGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATCCGAGCTTCTCGCTTCCTTTCCTGTGCCTGGCGAGAGGGGCCAGCGGCACCTGCAGATGTCCGGCACTCGCTGCGAGTCCTCAACTCCGTCACgtgagatgtgatctcaggccgggccttcatccatccatcacattgctact Alignment from GeneWise GCGCGGCGGGCTCGGGGGCGGAGAACCTGACCTGCGAGATCCGAGCCGCGCGCTTCCTTTCCTGCGCGTGGCGGGAGGGGCCAGCGGCGCCCGCGGACGTCCGGTACTCGCTGCGAGTCCTCAACTCCACG-- ggacagggtgtggtgaattccagtcaaggtccatctgctcctgtctccagGCACAGCAGGCTCAGGGGCAGAGAATTTGATCTGTGAGATCCGAGCTTCTCGCTTCCTTTCCTGTGCCTGGCGAGAGGGGCCAGCGGCACCTGCAGATGTCCGGCACTCGCTGCGAGTCCTCAACTCCGTCACgtgagatgtgatctcaggccgggccttcatccatccatcacattgctact #### Csf2ra_ID13438_2 --> 2 - 0 Original Alignment ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--------------------- tgggcaaagccacttgctaccaaggcactttctgtgcttgtctctttaagctCCAACCACACCATATGTTGGCTCCGCCCTCAACCTGATCTTTGACCCCTGGACCCGGACACTGACATGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTCTCAGATGAGCAGGAATTTTTTGATgtaagcggggctagtatgagagggccatgccccataatgatgtcactccc Alignment from CESAR ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--------------------- tgggcaaagccacttgctaccaaggcactttctgtgcttgtctctttaagctCCAACCACACCATATGTTGGCTCCGCCCTCAACCTGATCTTTGACCCCTGGACCCGGACACTGACATGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTCTCAGATGAGCAGGAATTTTTTGATgtaagcggggctagtatgagagggccatgccccataatgatgtcactccc Alignment from Spaln_aa2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGA tgggcaaagccacttgctaccaaggcactttctgtgcttgtctctttaagCTCCAACCACACCATATGTTGGCTCCGCCCTCAACCTGATCTTTGACCCCTGGACCCGGACACTGACATGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAgtctcagatgagcaggaattttttgatgtaagcggggctagtatgagagggccatgccccataatgatgtcactccc Alignment from Spaln_nt2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG----- tgggcaaagccacttgctaccaaggcactttctgtgcttgtctctttaagCTCCAACCACACCATATGTTGGCTCCGCCCTCAACCTGATCTTTGACCCCTGGACCCGGACACTGACATGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTCTCAGATGAgcaggaattttttgatgtaagcggggctagtatgagagggccatgccccataatgatgtcactccc Alignment from Pairagon CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTC------------------------------------------------------------------------ tgggcaaagccacttgctaccaaggcactttctgtgcttgtctctttaagCTCCAACCACACCATATGTTGGCTCCGCCCTCAACCTGATCTTTGACCCCTGGACCCGGACACTGACATGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTCTCAGATGAGCAGGAATTTTTTGATGTAAGCGGGGCTAGTATGAGAGGGCCATGCCCCATAATGATGTCACTCCC Alignment from Exonerate_protein2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG tgggcaaagccacttgctaccaaggcactttctgtgcttgtctctttaagCTCCAACCACACCATATGTTGGCTCCGCCCTCAACCTGATCTTTGACCCCTGGACCCGGACACTGACATGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTCTCAgatgagcaggaattttttgatgtaagcggggctagtatgagagggccatgccccataatgatgtcactccc Alignment from Exonerate_coding2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG tgggcaaagccacttgctaccaaggcactttctgtgcttgtctctttaagCTCCAACCACACCATATGTTGGCTCCGCCCTCAACCTGATCTTTGACCCCTGGACCCGGACACTGACATGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTCTCAgatgagcaggaattttttgatgtaagcggggctagtatgagagggccatgccccataatgatgtcactccc Alignment from GeneWise CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--------------------- tgggcaaagccacttgctaccaaggcactttctgtgcttgtctctttaagCTCCAACCACACCATATGTTGGCTCCGCCCTCAACCTGATCTTTGACCCCTGGACCCGGACACTGACATGGGCCTGCGACACTGCTGCAGGGAATGTCATGGTGATGTCATGCACTGTGACTGTTACCTCACGGGAAGCATCAATACACCGGCGAGTCTCAGATGAGCAGGAATTTTTTGATgtaagcggggctagtatgagagggccatgccccataatgatgtcactccc #### Ctsf_ID674_2 --> 0 - 0 Original Alignment GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaagggaggcttggccagactctctctcttctacatgcagGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACT---gtaaaaggcaagtggtcacctattatgtaccctgggtagtaaataattat Alignment from CESAR GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaagggaggcttggccagactctctctcttctacatgcagGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACT---gtaaaaggcaagtggtcacctattatgtaccctgggtagtaaataat Alignment from Spaln_aa2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACA agtaaagggggaagggaggcttggccagactctctctcttctacatgcagGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTgtaaaaggcaagtggtcacctattatgtaccctgggtagtaaataattat Alignment from Spaln_nt2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGT----G agtaaagggggaagggaggcttggccagactctctctcttctacatgcagGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTAAAAGgcaagtggtcacctattatgtaccctgggtagtaaataattat Alignment from Pairagon GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAAC-----------AGTG agtaaagggggaagggaggcttggccagactctctctcttctacatgcagGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTAAAAGGCAAGTGgtcacctattatgtaccctgggtagtaaataattat Alignment from Exonerate_protein2genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaagggaggcttggccagactctctctcttctacatgcagGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTAaaaggcaagtggtcacctattatgtaccctgggtagtaaataattat Alignment from Exonerate_coding2genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaagggaggcttggccagactctctctcttctacatgcagGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTAaaaggcaagtggtcacctattatgtaccctgggtagtaaataattat Alignment from GeneWise GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACA agtaaagggggaagggaggcttggccagactctctctcttctacatgcagGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTgtaaaaggcaagtggtcacctattatgtaccctgggtagtaaataattat #### Ctsf_ID675_3 --> 0 - 1 Original Alignment CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAg tgatattgctgggatctggtccaagttttagtgtcttgtcttgtctccagCTCTGTAGTTTTGAAGCCCTTGAAGAACTCAAAGAACACTTGCTCCTGAGGAGGGACTGTAGCCCAGTGAATGCC---------ggtgcctgatgttgccccatactcaaggagactgggaagagcccagatcat Alignment from CESAR CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAg tgatattgctgggatctggtccaagttttagtgtcttgtcttgtctccagCTCTGTAGTTTTGAAGCCCTTGAAGAACTCAAAGAACACTTGCTCCTGAGGAGGGACTGTAGCCCAGTGAATGCC---------ggtgcctgatgttgccccatactcaaggagactgggaagagcccagatcat Alignment from Spaln_aa2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCC- tgatattgctgggatctggtccaagttttagtgtcttgtcttgtctccagCTCTGTAGTTTTGAAGCCCTTGAAGAACTCAAAGAACACTTGCTCCTGAGGAGGGACTGTAGCCCAGTGAATGCCGgtgcctgatgttgccccatactcaaggagactgggaagagcccagatcat Alignment from Spaln_nt2Genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tgatattgctgggatctggtccaagttttagtgtcttgtcttgtctccagCTCTGTAGTTTTGAAGCCCTTGAAGAACTCAAAGAACACTTGCTCCTGAGGAGGGACTGTAGCCCAGTGAATGCCGGTGCCTGATgttgccccatactcaaggagactgggaagagcccagatcat Alignment from Pairagon CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGC------------------------CAAGG----------------------- tgatattgctgggatctggtccaagttttagtgtcttgtcttgtctccagCTCTGTAGTTTTGAAGCCCTTGAAGAACTCAAAGAACACTTGCTCCTGAGGAGGGACTGTAGCCCAGTGAATGCCGGTGCCTGATGTTGCCCCATACTCAAGGAGACTGGGAAGAGCCCAGATCAT Alignment from Exonerate_protein2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tgatattgctgggatctggtccaagttttagtgtcttgtcttgtctccagCTCTGTAGTTTTGAAGCCCTTGAAGAACTCAAAGAACACTTGCTCCTGAGGAGGGACTGTAGCCCAGTGAATGCCGGTGCCTGATgttgccccatactcaaggagactgggaagagcccagatcat Alignment from Exonerate_coding2genome CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCAAGGTCACAG tgatattgctgggatctggtccaagttttagtgtcttgtcttgtctccagCTCTGTAGTTTTGAAGCCCTTGAAGAACTCAAAGAACACTTGCTCCTGAGGAGGGACTGTAGCCCAGTGAATGCCGGTGCCTGATgttgccccatactcaaggagactgggaagagcccagatcat Alignment from GeneWise CTCTGCAGTTTTGAAGTCCTGGAAGAGCTAAAAGAACACTTGCTGCTGAGGAGGGACTGTAGCCCAGTGAATGCCA tgatattgctgggatctggtccaagttttagtgtcttgtcttgtctccagCTCTGTAGTTTTGAAGCCCTTGAAGAACTCAAAGAACACTTGCTCCTGAGGAGGGACTGTAGCCCAGTGAATGCCGgtgcctgatgttgccccatactcaaggagactgggaagagcccagatcat #### Ctsf_ID679_7 --> 2 - 0 Original Alignment agGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTG------AAGAACCAG atgggtctggcttcaagtactcatctctcttccctcctgtttgcctgcagagGAAGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGAGCTTGCCCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAAGTG---------gtgagtgtagaggcgttgacttggaattggaagaggttgcaaggtattgg Alignment from CESAR agGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAACCAG atgggtctggcttcaagtactcatctctcttccctcctgtttgcctgcagagGAAGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGAGCTTGCCCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAA---GTGgtgagtgtagaggcgttgacttggaattggaagaggttgcaaggtattgg Alignment from Spaln_aa2Genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAAC atgggtctggcttcaagtactcatctctcttccctcctgtttgcctgcagAGGAAGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGAGCTTGCCCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAAGTGgtgagtgtagaggcgttgacttggaattggaagaggttgcaaggtattgg Alignment from Spaln_nt2Genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAACCA atgggtctggcttcaagtactcatctctcttccctcctgtttgcctgcagAGGAAGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGAGCTTGCCCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGT--TGAAGTGgtgagtgtagaggcgttgacttggaattggaagaggttgcaaggtattgg Alignment from Pairagon AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGT------- atgggtctggcttcaagtactcatctctcttccctcctgtttgcctgcagAGGAAGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGAGCTTGCCCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAAGTGgtgagtgtagaggcgttgacttggaattggaagaggttgcaaggtattgg Alignment from Exonerate_protein2genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAAC atgggtctggcttcaagtactcatctctcttccctcctgtttgcctgcagAGGAAGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGAGCTTGCCCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAAGTGgtgagtgtagaggcgttgacttggaattggaagaggttgcaaggtattgg Alignment from Exonerate_coding2genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAAC atgggtctggcttcaagtactcatctctcttccctcctgtttgcctgcagAGGAAGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGAGCTTGCCCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAAGTGgtgagtgtagaggcgttgacttggaattggaagaggttgcaaggtattgg Alignment from GeneWise AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAAC atgggtctggcttcaagtactcatctctcttccctcctgtttgcctgcagAGGAAGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGAGCTTGCCCCACCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTTGAAGTGgtgagtgtagaggcgttgacttggaattggaagaggttgcaaggtattgg #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg ctgcagagggccttaagagagagccctgtaactctttcttcatcttgtagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAG---ggtatgtagtatcctgatccatccccctttttccagaccaacccctccaga Alignment from CESAR GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg ctgcagagggccttaagagagagccctgtaactctttcttcatcttgtagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAG---ggtatgtagtatcctgatccatccccctttttccagaccaacccctccaga Alignment from Spaln_aa2Genome GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAG- ctgcagagggccttaagagagagccctgtaactctttcttcatcttgtagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGGgtatgtagtatcctgatccatccccctttttccagaccaacccctccaga Alignment from Spaln_nt2Genome GGCA---TGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG ctgcagagggccttaagagagagccctgtaactctttcttcatcttgtagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAG---AGGgtatgtagtatcctgatccatccccctttttccagaccaacccctccaga Alignment from Pairagon GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG ctgcagagggccttaagagagagccctgtaactctttcttcatcttgtagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAG---AGGgtatgtagtatcctgatccatccccctttttccagaccaacccctccaga Alignment from Exonerate_protein2genome GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG ctgcagagggccttaagagagagccctgtaactctttcttcatcttgtagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAG---Ggtatgtagtatcctgatccatccccctttttccagaccaacccctccaga Alignment from Exonerate_coding2genome GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGG ctgcagagggccttaagagagagccctgtaactctttcttcatcttgtagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAG---Ggtatgtagtatcctgatccatccccctttttccagaccaacccctccaga Alignment from GeneWise GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGC ctgcagagggccttaagagagagccctgtaactctttcttcatcttgtagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGAGGgtatgtagtatcctgatccatccccctttttccagaccaacccctccaga #### Ctsf_ID683_11 --> 2 - 0 Original Alignment ag---------ATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ggttaataccactgggccacagtaccatctaaagccaacttggcacttagagGAAAACCAAAGAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGgtgggtttccaacctctctgtgcctccccaactcatcagcaacatgatcc Alignment from CESAR ag---------ATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ggttaataccactgggccacagtaccatctaaagccaacttggcacttagagGAAAACCAAAGAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGgtgggtttccaacctctctgtgcctccccaactcatcagcaacatgatcc Alignment from Spaln_aa2Genome AG---------ATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ggttaataccactgggccacagtaccatctaaagccaacttggcacttagAGGAAAACCAAAGAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGgtgggtttccaacctctctgtgcctccccaactcatcagcaacatgatcc Alignment from Spaln_nt2Genome AG---------ATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ggttaataccactgggccacagtaccatctaaagccaacttggcacttagAGGAAAACCAAAGAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGgtgggtttccaacctctctgtgcctccccaactcatcagcaacatgatcc Alignment from Pairagon AGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ggttaataccactgggccacagtaccatctaaagccaacttggcacttagaggaaaaccaaag----AGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGgtgggtttccaacctctctgtgcctccccaactcatcagcaacatgatcc Alignment from Exonerate_protein2genome GAAAATAAGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ggttaataccactgggccacagtaccatctaaagccaacttggcacttagagGAAAACCAAAGAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGgtgggtttccaacctctctgtgcctccccaactcatcagcaacatgatcc Alignment from Exonerate_coding2genome GAAAATAAGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ggttaataccactgggccacagtaccatctaaagccaacttggcacttagagGAAAACCAAAGAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGgtgggtttccaacctctctgtgcctccccaactcatcagcaacatgatcc Alignment from GeneWise --------AAGATAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAACGCCTTCGGCATGCAG ggttaataccactgggccacagtaccatctaaagccaacttggcacttagAGGAAAACCAAAGAGCAGCCTGGCTGGCCCAGAAAGGACCTATCTCAGTTGCCATTAATGCCTTTGGAATGCAGgtgggtttccaacctctctgtgcctccccaactcatcagcaacatgatcc #### Ctsf_ID684_12 --> 0 - 1 Original Alignment ---------------TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc caacatgatcccacttttgatgctggccttctccaattttgtcttttcagCTTCTCGAAACAGCTTTCTACCATCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGCTCATTGATCATGCAGTGTTGCTAGTAGGCTATGGCAACcgtcagttctgttgtcttcctgcctcccttccctctgcctcaggctacggt Alignment from CESAR ---------------TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc caacatgatcccacttttgatgctggccttctccaattttgtcttttcagCTTCTCGAAACAGCTTTCTACCATCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGCTCATTGATCATGCAGTGTTGCTAGTAGGCTATGGCAACcgtcagttctgttgtcttcctgcctcccttccctctgcctcaggctacggt Alignment from Spaln_aa2Genome ---TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAAC caacatgatcccacttttgatgctggccttctccaattttgtcttttcagcttctcgaaacagCTTTCTACCATCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGCTCATTGATCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtcagttctgttgtcttcctgcctcccttccctctgcctcaggctacggt Alignment from Spaln_nt2Genome --TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC caacatgatcccacttttgatgctggccttctccaattttgtcttttcagcttctcgaaacagCTTTCTACCATCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGCTCATTGATCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtcagttctgttgtcttcctgcctcccttccctctgcctcaggctacggt Alignment from Pairagon ---------------TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC caacatgatcccacttttgatgctggccttctccaattttgtcttttcagCTTCTCGAAACAGCTTTCTACCATCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGCTCATTGATCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtcagttctgttgtcttcctgcctcccttccctctgcctcaggctacggt Alignment from Exonerate_protein2genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC caacatgatcccacttttgatgctggccttctccaattttgtcttttcagcttctcgaaacagctTTCTACCATCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGCTCATTGATCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtcagttctgttgtcttcctgcctcccttccctctgcctcaggctacggt Alignment from Exonerate_coding2genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC caacatgatcccacttttgatgctggccttctccaattttgtcttttcagcttctcgaaacagctTTCTACCATCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGCTCATTGATCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtcagttctgttgtcttcctgcctcccttccctctgcctcaggctacggt Alignment from GeneWise -----TATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC caacatgatcccacttttgatgctggccttctccaattttgtcttttcagcttctcgaaacagCTTTCTACCATCATGGAATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGCTCATTGATCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtcagttctgttgtcttcctgcctcccttccctctgcctcaggctacggt #### Ctsw_ID1017_9 --> 0 - 0 Original Alignment CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG------ acagagattttgttgtacaggactcagccctttacctctgttccctccagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTGTTGCTCTTGCTGGTGGGTTTTGGTAAGGAGGAAGAGGGCATGCAAACAGGGACAGTCTTGTCCCATTCTCAAAAACGTTGCCACTCCTTCTCATACTGGGTCTTGAAAAACTCATGGGGAGCCCACTGGGGTGAGAAGGGCTACgtatgtgtgtggaacagcaatgaggcagaccataatacctctttttggct Alignment from CESAR CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTG------CTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG------ acagagattttgttgtacaggactcagccctttacctctgttccctccagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTGTTGCTCTTGCTGGTGGGTTTTGGTAAGGAGGAAGAGGGCATGCAAACAGGGACAGTCTTGTCCCATTCTCAAAAACGTTGCCACTCCTTCTCATACTGGGTCTTGAAAAACTCATGGGGAGCCCACTGGGGTGAGAAGGGCTACgtatgtgtgtggaacagcaatgaggcagaccataatacctctttttggct Alignment from Spaln_aa2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTG------CTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG------ acagagattttgttgtacaggactcagccctttacctctgttccctccagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTGTTGCTCTTGCTGGTGGGTTTTGGTAAGGAGGAAGAGGGCATGCAAACAGGGACAGTCTTGTCCCATTCTCAAAAACGTTGCCACTCCTTCTCATACTGGGTCTTGAAAAACTCATGGGGAGCCCACTGGGGTGAGAAGGGCTACgtatgtgtgtggaacagcaatgaggcagaccataatacctctttttggct Alignment from Spaln_nt2Genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG------ acagagattttgttgtacaggactcagccctttacctctgttccctccagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTGTTGCTCTTGCTGGTGGGTTTTGGTAAGGAGGAAGAGGGCATGCAAACAGGGACAGTCTTGTCCCATTCTCAAAAACGTTGCCACTCCTTCTCATACTGGGTCTTGAAAAACTCATGGGGAGCCCACTGGGGTGAGAAGGGCTACgtatgtgtgtggaacagcaatgaggcagaccataatacctctttttggct Alignment from Pairagon CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTG------TCTTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG------ acagagattttgttgtacaggactcagccctttacctctgttccctccagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTGTTGCTCTTGCTGGTGGGTTTTGGTAAGGAGGAAGAGGGCATGCAAACAGGGACAGTCTTGTCCCATTCTCAAAAACGTTGCCACTCCTTCTCATACTGGGTCTTGAAAAACTCATGGGGAGCCCACTGGGGTGAGAAGGGCTACgtatgtgtgtggaacagcaatgaggcagaccataatacctctttttggct Alignment from Exonerate_protein2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG acagagattttgttgtacaggactcagccctttacctctgttccctccagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTGTTGCTCTTGCTGGTGGGTTTTGGTAAGGAGGAAGAGGGCATGCAAACAGGGACAGTCTTGTCCCATTCTCAAAAACGTTGCCACTCCTTCTCATACTGGGTCTTGAAAAACTCATGGGGAGCCCACTGGGGTGAGAAGggctacgtatgtgtgtggaacagcaatgaggcagaccataatacctctttttggct Alignment from Exonerate_coding2genome CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTC------TTGCTGGTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAG acagagattttgttgtacaggactcagccctttacctctgttccctccagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTGTTGCTCTTGCTGGTGGGTTTTGGTAAGGAGGAAGAGGGCATGCAAACAGGGACAGTCTTGTCCCATTCTCAAAAACGTTGCCACTCCTTCTCATACTGGGTCTTGAAAAACTCATGGGGAGCCCACTGGGGTGAGAAGggctacgtatgtgtgtggaacagcaatgaggcagaccataatacctctttttggct Alignment from GeneWise CATTACCAGAAGGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTCTTGCTG------GTGGGCTTTGGCAAGGAGAAAGAGGGCATGCAGACAGGGACAGTCTTGTCCCATTCTCGAAAACGTCGCCACTCCTCCCCATACTGGATCCTGAAGAACTCCTGGGGAGCTCACTGGGGCGAGAAGGGT--- acagagattttgttgtacaggactcagccctttacctctgttccctccagTATTATCAGAAAGGTGTCATCAAGGCTACACCCAGCTCCTGTGACCCTCGGCAAGTGGACCACTCTGTGTTGCTCTTGCTGGTGGGTTTTGGTAAGGAGGAAGAGGGCATGCAAACAGGGACAGTCTTGTCCCATTCTCAAAAACGTTGCCACTCCTTCTCATACTGGGTCTTGAAAAACTCATGGGGAGCCCACTGGGGTGAGAAGGGCTACgtatgtgtgtggaacagcaatgaggcagaccataatacctctttttggct #### Ctsw_ID1018_8 --> 2 - 0 Original Alignment ca---------ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaagtttctcattttcttcatagtaGGCAGCTGTATTGCCCACTATCTGGCTGCACATGGACCCATCACTGTGACCATCAATATGAAACTACTTCAGgtaaagagcaaagtaaggtgacaaggagaggtgccctggagaagctcttc Alignment from CESAR ca---------ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaagtttctcattttcttcatagtaGGCAGCTGTATTGCCCACTATCTGGCTGCACATGGACCCATCACTGTGACCATCAATATGAAACTACTTCAGgtaaagagcaaagtaaggtgacaaggagaggtgccctggagaagctcttc Alignment from Spaln_aa2Genome CA------ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaagtttctcattttcttcatagtagGCAGCTGTATTGCCCACTATCTGGCTGCACATGGACCCATCACTGTGACCATCAATATGAAACTACTTCAGgtaaagagcaaagtaaggtgacaaggagaggtgccctggagaagctcttc Alignment from Spaln_nt2Genome -CA-----ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaagtttctcattttcttcatagtagGCAGCTGTATTGCCCACTATCTGGCTGCACATGGACCCATCACTGTGACCATCAATATGAAACTACTTCAGgtaaagagcaaagtaaggtgacaaggagaggtgccctggagaagctcttc Alignment from Pairagon CA---------ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaagtttctcattttcttcatagTAGGCAGCTGTATTGCCCACTATCTGGCTGCACATGGACCCATCACTGTGACCATCAATATGAAACTACTTCAGgtaaagagcaaagtaaggtgacaaggagaggtgccctggagaagctcttc Alignment from Exonerate_protein2genome CA------ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaagtttctcattttcttcatagtagGCAGCTGTATTGCCCACTATCTGGCTGCACATGGACCCATCACTGTGACCATCAATATGAAACTACTTCAGgtaaagagcaaagtaaggtgacaaggagaggtgccctggagaagctcttc Alignment from Exonerate_coding2genome CA------ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaagtttctcattttcttcatagtagGCAGCTGTATTGCCCACTATCTGGCTGCACATGGACCCATCACTGTGACCATCAATATGAAACTACTTCAGgtaaagagcaaagtaaggtgacaaggagaggtgccctggagaagctcttc Alignment from GeneWise ----ATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaagtttctcattttcttcatagtaggcagCTGTATTGCCCACTATCTGGCTGCACATGGACCCATCACTGTGACCATCAATATGAAACTACTTCAGgtaaagagcaaagtaaggtgacaaggagaggtgccctggagaagctcttc #### Ctsw_ID1022_4 --> 2 - 0 Original Alignment agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tgatgccagcctgccacaatcttataccctggccttcttgttccccacagag---------------------GGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCGTCAATTAAGAACCAGgtaggagtcctgtccccacccagtttgggctaatccaaccaaggatatat Alignment from CESAR agGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG accactccttcactgtcctcttgataccctggccttcttgttccccacagag---------------------GGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCGTCAATTAAGAACCAGgtaggagtcctgtccccacccagtttgggctaatccaaccaaggatactt Alignment from Spaln_aa2Genome ACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tgatgccagcctgccacaatcttataccctggccttcttgttccccacagAGGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCGTCAATTAAGAACCAGgtaggagtcctgtccccacccagtttgggctaatccaaccaaggatatat Alignment from Spaln_nt2Genome ACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tgatgccagcctgccacaatcttataccctggccttcttgttccccacagAGGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCGTCAATTAAGAACCAGgtaggagtcctgtccccacccagtttgggctaatccaaccaaggatatat Alignment from Pairagon AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tgatgccagcctgccacaatcttataccctggccttcttgttccccacagAG---------------------GGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCGTCAATTAAGAACCAGgtaggagtcctgtccccacccagtttgggctaatccaaccaaggatatat Alignment from Exonerate_protein2genome GGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tgatgccagcctgccacaatcttataccctggccttcttgTTCCCCACAGAGGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCGTCAATTAAGAACCAGgtaggagtcctgtccccacccagtttgggctaatccaaccaaggatatat Alignment from Exonerate_coding2genome GGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tgatgccagcctgccacaatcttataccctggccttcttgTTCCCCACAGAGGGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCGTCAATTAAGAACCAGgtaggagtcctgtccccacccagtttgggctaatccaaccaaggatatat Alignment from GeneWise AGGAGGAGTTTGGCCAGTTATACGGGCAGGAGAGGTCACCAGAAAGGACCCCCAACATGACCAAAAAGGTAGAGTCTAACACGTGGGGGGAATCTGTGCCCCGCACCTGTGACTGGCGTAAAGCAAAGAACATCATCTCGTCGGTCAAGAACCAG tgatgccagcctgccacaatcttataccctggccttcttgttccccacagAG---------------------GGGCAGGAGAGGTCACCAGAAAGGACCCCTAATATGACCAAAAAGGTGGAGTCTAACACATGGGGGGAGTCTGTACCTCGAACCTGTGACTGGCGTGAAGCAAAGAACATCATCTCGTCAATTAAGAACCAGgtaggagtcctgtccccacccagtttgggctaatccaaccaaggatatat #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment ag---------TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tagtagccacttcctgtctcaagactgattcctcccatcccgtcccccagagAAACCAAACTACACTCACCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACCTCACCagtgaggaggtgggtgatcggcagatgtacaagggaaatttcccaccagaa Alignment from CESAR ag---------TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAg tagtagccacttcctgtctcaagactgattcctcccatcccgtcccccagagAAACCAAACTACACTCACCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACCTCACCagtgaggaggtgggtgatcggcagatgtacaagggaaatttcccaccagaa Alignment from Spaln_aa2Genome AG---------TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tagtagccacttcctgtctcaagactgattcctcccatcccgtcccccagAGAAACCAAACTACACTCACCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACCTCACCAgtgaggaggtgggtgatcggcagatgtacaagggaaatttcccaccagaa Alignment from Spaln_nt2Genome AG---------TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tagtagccacttcctgtctcaagactgattcctcccatcccgtcccccagAGAAACCAAACTACACTCACCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACCTCACCAgtgaggaggtgggtgatcggcagatgtacaagggaaatttcccaccagaa Alignment from Pairagon AG---------TACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tagtagccacttcctgtctcaagactgattcctcccatcccgtcccccagAGAAACCAAACTACACTCACCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACCTCACCAgtgaggaggtgggtgatcggcagatgtacaagggaaatttcccaccagaa Alignment from Exonerate_protein2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tagtagccacttcctgtctcaagactgattcctcccatcccgtcccccagagaaaccaaACTACACTCACCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACCTCACCAgtgaggaggtgggtgatcggcagatgtacaagggaaatttcccaccagaa Alignment from Exonerate_coding2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG tagtagccacttcctgtctcaagactgattcctcccatcccgtcccccagagaaaccaaACTACACTCACCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACCTCACCAgtgaggaggtgggtgatcggcagatgtacaagggaaatttcccaccagaa Alignment from GeneWise --------GAGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGAGGAGGAG tagtagccacttcctgtctcaagactgattcctcccatcccgtcccccagAGAAACCAAACTACACTCACCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACTGCTGAGCTTGGAGAGACCCCATTCAGTGACCTCACCAGTGAGGAGgtgggtgatcggcagatgtacaagggaaatttcccaccagaa #### Cyp26a1_ID7416_4 --> 0 - 0 Original Alignment GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG--------- tctgcacgggcaaaggcagttgactaactttttgacccctccccttacagGGTGTT---ACACGCAACCTTATACAGGCACGCATTGAGGAGAACATTCATGCAAATATCCGCCGGCTTCAGGCAACAGAGCCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATTGAGCACTCGTGGGAA---GGTGAGGAATTGGACACACAGATTCAACATgtaagtaggaatctcaaaaggtgtcaaaggccagctctgtattgtccagg Alignment from CESAR GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG--------- tctgcacgggcaaaggcagttgactaactttttgacccctccccttacagGGTGTT---ACACGCAACCTTATACAGGCACGCATTGAGGAGAACATTCATGCAAATATCCGCCGGCTTCAGGCAACAGAGCCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATTGAGCACTCGTGGGAA---GGTGAGGAATTGGACACACAGATTCAACATgtaagtaggaatctcaaaaggtgtcaaaggccagctctgtattgtccagg Alignment from Spaln_aa2Genome GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG--------- tctgcacgggcaaaggcagttgactaactttttgacccctccccttacagGGTGTT---ACACGCAACCTTATACAGGCACGCATTGAGGAGAACATTCATGCAAATATCCGCCGGCTTCAGGCAACAGAGCCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATTGAGCACTCGTGGGAA---GGTGAGGAATTGGACACACAGATTCAACATgtaagtaggaatctcaaaaggtgtcaaaggccagctctgtattgtccagg Alignment from Spaln_nt2Genome GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAG GGGAGAGAGGCTGGATATG-------CAG tctgcacgggcaaaggcagttgactaactttttgacccctccccttacagGGTGTTA---CACGCAACCTTATACAGGCACGCATTGAGGAGAACATTCATGCAAATATCCGCCGGCTTCAGGCAACAGAGCCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATTGAGCACTCGTGGGA-AGgtgaggaattggacacacagattcaacatgtaagtaggaatctcaaaagGTGTCAAAGGCCAGCTCTGTATTGTCCAGg Alignment from Pairagon GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG tctgcacgggcaaaggcagttgactaactttttgacccctccccttacagGGTGTTA---CACGCAACCTTATACAGGCACGCATTGAGGAGAACATTCATGCAAATATCCGCCGGCTTCAGGCAACAGAGCCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATTGAGCACTCGTGGGA-----------------------AGgtgaggaattggacacacagattcaacatgtaagtaggaatctcaaaaggtgtcaaaggccagctctgtattgtccagg Alignment from Exonerate_protein2genome GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG tctgcacgggcaaaggcagttgactaactttttgacccctccccttacagGGTGTT---ACACGCAACCTTATACAGGCACGCATTGAGGAGAACATTCATGCAAATATCCGCCGGCTTCAGGCAACAGAGCCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATTGAGCACTCGTGGGAA---GGTGAGGAATTGGACACACAGattcaacatgtaagtaggaatctcaaaaggtgtcaaaggccagctctgtattgtccagg Alignment from Exonerate_coding2genome GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG tctgcacgggcaaaggcagttgactaactttttgacccctccccttacagGGTGTT---ACACGCAACCTTATACAGGCACGCATTGAGGAGAACATTCATGCAAATATCCGCCGGCTTCAGGCAACAGAGCCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATTGAGCACTCGTGGGAA---GGTGAGGAATTGGACACACAGattcaacatgtaagtaggaatctcaaaaggtgtcaaaggccagctctgtattgtccagg Alignment from GeneWise GGCGTGAAGGCGCGGAACCTTATACACGCGCGCATCGAGGAGAACATTCGCGCCAAGATCCGCCGGCTTCAGGCTACAGAGCCGGATGGGGGTTGCAAGGACGCGCTGCAGCTCCTGATTGAGCACTCGTGGGAGAGGGGAGAGAGGCTGGATATGCAG--------- tctgcacgggcaaaggcagttgactaactttttgacccctccccttacagGGTGTT---ACACGCAACCTTATACAGGCACGCATTGAGGAGAACATTCATGCAAATATCCGCCGGCTTCAGGCAACAGAGCCAGATGGGGGTTGCAAAGATGCATTGCAGCTTCTGATTGAGCACTCGTGGGAA---GGTGAGGAATTGGACACACAGATTCAACATgtaagtaggaatctcaaaaggtgtcaaaggccagctctgtattgtccagg #### D19Bwg1357e_ID5846_6 --> 2 - 2 Original Alignment gcGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTAT---------gg ggcactgcagtgaggagcacagagtgattttttctttcttgtgtctccaggtGACTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATCGTTAAGAAATTTATCATGTATTGGATGAAAgggtaaaagctagagcaatagtgtcttgaggcattgttccttaaaatgataa Alignment from CESAR gcGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTAT---------gg ggcactgcagtgaggagcacagagtgattttttctttcttgtgtctccaggtGACTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATCGTTAAGAAATTTATCATGTATTGGATGAAAgggtaaaagctagagcaatagtgtcttgaggcattgttccttaaaatgataa Alignment from Spaln_aa2Genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGGA-------- ggcactgcagtgaggagcacagagtgattttttctttcttgtgtctccagGTGACTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATCGTTAAGAAATTTATCATGTATTGGATGAAAGGgtaaaagctagagcaatagtgtcttgaggcattgttccttaaaatgataa Alignment from Spaln_nt2Genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTAT---------GG ggcactgcagtgaggagcacagagtgattttttctttcttgtgtctccagGTGACTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATCGTTAAGAAATTTATCATGTATTGGATGAAAGGgtaaaagctagagcaatagtgtcttgaggcattgttccttaaaatgataa Alignment from Pairagon GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTAT---------GG ggcactgcagtgaggagcacagagtgattttttctttcttgtgtctccagGTGACTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATCGTTAAGAAATTTATCATGTATTGGATGAAAGGgtaaaagctagagcaatagtgtcttgaggcattgttccttaaaatgataa Alignment from Exonerate_protein2genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGGAAG ggcactgcagtgaggagcacagagtgattttttctttcttgtgtctccagGTGACTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATCGTTAAGAAATTTATCATGTATTGGATgaaagggtaaaagctagagcaatagtgtcttgaggcattgttccttaaaatgataa Alignment from Exonerate_coding2genome GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGGAAG ggcactgcagtgaggagcacagagtgattttttctttcttgtgtctccagGTGACTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATCGTTAAGAAATTTATCATGTATTGGATgaaagggtaaaagctagagcaatagtgtcttgaggcattgttccttaaaatgataa Alignment from GeneWise GCGACTTGGTTGAATTAAGTAAAGCCAAATATTCCAGGAATATCGTTAAGAAATTTCTCATGTATGGAAGTAAG-- ggcactgcagtgaggagcacagagtgattttttctttcttgtgtctccagGTGACTTAGTTGAGTTAAGTAGAGCAAAACATTCCCAGAATATCGTTAAGAAATTTATCATGTATTGGATGAAAGGgtaaaagctagagcaatagtgtcttgaggcattgttccttaaaatgataa #### Dagla_ID2758_12 --> 0 - 0 Original Alignment GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG--------- accttgcccttcccctgctagggctaccatcttatatttttaatcaacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGCGACTGAACgtaagttgtcaacaacattccatcctgaagaggtgggctggttgactgca Alignment from CESAR GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG--------- accttgcccttcccctgctagggctaccatcttatatttttaatcaacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGCGACTGAACgtaagttgtcaacaacattccatcctgaagaggtgggctggttgactgca Alignment from Spaln_aa2Genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG--------- accttgcccttcccctgctagggctaccatcttatatttttaatcaacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGCGACTGAACgtaagttgtcaacaacattccatcctgaagaggtgggctggttgactgca Alignment from Spaln_nt2Genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG--------- accttgcccttcccctgctagggctaccatcttatatttttaatcaacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGCGACTGAACgtaagttgtcaacaacattccatcctgaagaggtgggctggttgactgca Alignment from Pairagon GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG--------- accttgcccttcccctgctagggctaccatcttatatttttaatcaacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGCGACTGAACgtaagttgtcaacaacattccatcctgaagaggtgggctggttgactgca Alignment from Exonerate_protein2genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG accttgcccttcccctgctagggctaccatcttatatttttaatcaacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGcgactgaacgtaagttgtcaacaacattccatcctgaagaggtgggctggttgactgca Alignment from Exonerate_coding2genome GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG accttgcccttcccctgctagggctaccatcttatatttttaatcaacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGcgactgaacgtaagttgtcaacaacattccatcctgaagaggtgggctggttgactgca Alignment from GeneWise GGCATGGTACTCTCAGCTGAGTACATCAAGAAGAAGTTGGAGCAGGAGATGGTCCTGTCCCAGGCCTTTGGGCGAGACCTG--------- accttgcccttcccctgctagggctaccatcttatatttttaatcaacagGACATGGTACTGACAGCTGAGTACATAAAGAAGAAGCTGGAGCAGGAGATGGTCTTGTCCCAGGCTTTTGGGCGAGACCTGCGACTGAACgtaagttgtcaacaacattccatcctgaagaggtgggctggttgactgca #### Dagla_ID2760_10 --> 0 - 0 Original Alignment GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG ctgtcaactctaatctgggggcacaccataagccagagctattctctcagGTCTATGAGACTCCCTTTTATGTAGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTCTGTCCCCT---gtgaggagcgcaagtgcatctactccacaggctccagcagttgctgtcct Alignment from CESAR GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG ctgtcaactctaatctgggggcacaccataagccagagctattctctcagGTCTATGAGACTCCCTTTTATGTAGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTCTGTCCCCT---gtgaggagcgcaagtgcatctactccacaggctccagcagttgctgt Alignment from Spaln_aa2Genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCC ctgtcaactctaatctgggggcacaccataagccagagctattctctcagGTCTATGAGACTCCCTTTTATGTAGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTCTGTCCCCTgtgaggagcgcaagtgcatctactccacaggctccagcagttgctgtcct Alignment from Spaln_nt2Genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCC ctgtcaactctaatctgggggcacaccataagccagagctattctctcagGTCTATGAGACTCCCTTTTATGTAGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTCTGTCCCCTgtgaggagcgcaagtgcatctactccacaggctccagcagttgctgtcct Alignment from Pairagon GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCC--------------------------------------------------- ctgtcaactctaatctgggggcacaccataagccagagctattctctcagGTCTATGAGACTCCCTTTTATGTAGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTCTGTCCCCTGTGAGGAGCGCAAGTGCATCTACTCCACAGGCTCCAGCAGTTGCTGTCCT Alignment from Exonerate_protein2genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG ctgtcaactctaatctgggggcacaccataagccagagctattctctcagGTCTATGAGACTCCCTTTTATGTAGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTCTGTCCCCTGTGaggagcgcaagtgcatctactccacaggctccagcagttgctgtcct Alignment from Exonerate_coding2genome GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCCAAG ctgtcaactctaatctgggggcacaccataagccagagctattctctcagGTCTATGAGACTCCCTTTTATGTAGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTCTGTCCCCTGTGaggagcgcaagtgcatctactccacaggctccagcagttgctgtcct Alignment from GeneWise GTCTATGAAACTCCCTTCTACGTAGCTGTGGACCATGACAAGAAGAAAGTGGTGATCAGTATCCGGGGAACACTGTCCCCC-------------------------------------------------- ctgtcaactctaatctgggggcacaccataagccagagctattctctcagGTCTATGAGACTCCCTTTTATGTAGCTGTTGACCATGATAAGAAGAAAGTGGTGGTCAGCATCCGGGGAACTCTGTCCCCTGTGAGGAGCGCAAGTGCATCTACTCCACAGGCTCCAGCAGTTGCTGTCCT #### Dak_ID2901_12 --> 2 - 1 Original Alignment gtGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAA------------------------g gcttggtaaactttttttcagctgcttggacttttcaataatttctttaggtGTAACATCAAAGCAGATAGCACTGGTGTTGGATCGGATATGCACCACCCTCATTGGAGCGGAGGAGCACCTGAATGCG---GACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCACAGCCGTGCTTCCAAAATCTATGTCATGGCTATGGTCCTGggtaagtttccttgctttggccacatgggccaatttggccaggggacacat Alignment from CESAR gtGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAA------------------------g gcttggtaaactttttttcagctgcttggacttttcaataatttctttaggtGTAACATCAAAGCAGATAGCACTGGTGTTGGATCGGATATGCACCACCCTCATTGGAGCGGAGGAGCACCTGAATGCG---GACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCACAGCCGTGCTTCCAAAATCTATGTCATGGCTATGGTCCTGggtaagtttccttgctttggccacatgggccaatttggccaggggacacat Alignment from Spaln_aa2Genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAGCCATTCAG gcttggtaaactttttttcagctgcttggacttttcaataatttctttagGTGTAACATCAAAGCAGATAGCACTGGTGTTGGATCGGATATGCACCACCCTCATTGGAGCGGAGGAGCACCTGAATGCG---GACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCACAGCCGTGCTTCCAAA---ATCTATgtcatggctatggtcctgggtaagtttccttgctttggccacatgggccaatttggccaggggacacat Alignment from Spaln_nt2Genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG----- gcttggtaaactttttttcagctgcttggacttttcaataatttctttagGTGTAACATCAAAGCAGATAGCACTGGTGTTGGATCGGATATGCACCACCCTCATTGGAGCGGAGGAGCACCTGAATGC---GGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCACAGCCGTGCTTCCAAAATCTATgtcatggctatggtcctgggtaagtttccttgctttggccacatgggccaatttggccaggggacacat Alignment from Pairagon GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAA------------------------G gcttggtaaactttttttcagctgcttggacttttcaataatttctttagGTGTAACATCAAAGCAGATAGCACTGGTGTTGGATCGGATATGCACCACCCTCATTGGAGCGGAGGAGCACCTGAATGC---GGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCACAGCCGTGCTTCCAAAATCTATGTCATGGCTATGGTCCTGGgtaagtttccttgctttggccacatgggccaatttggccaggggacacat Alignment from Exonerate_protein2genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG gcttggtaaactttttttcagctgcttggacttttcaataatttctttagGTGTAACATCAAAGCAGATAGCACTGGTGTTGGATCGGATATGCACCACCCTCATTGGAGCGGAGGAGCACCTGAATGCG---GACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCACAGCCGTGCTTCCAAAAtctatgtcatggctatggtcctgggtaagtttccttgctttggccacatgggccaatttggccaggggacacat Alignment from Exonerate_coding2genome GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAG gcttggtaaactttttttcagctgcttggacttttcaataatttctttagGTGTAACATCAAAGCAGATAGCACTGGTGTTGGATCGGATATGCACCACCCTCATTGGAGCGGAGGAGCACCTGAATGCG---GACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCACAGCCGTGCTTCCAAAAtctatgtcatggctatggtcctgggtaagtttccttgctttggccacatgggccaatttggccaggggacacat Alignment from GeneWise GTGTAACATCAAAGCAGATGGCACTTGTGCTGGATCGGATATGCACCACCCTCATCGGACTGGAGGAGCACCTGAATGCCTTGGACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCATAGCCGTGCTGCCAAAGCCATTCAG gcttggtaaactttttttcagctgcttggacttttcaataatttctttagGTGTAACATCAAAGCAGATAGCACTGGTGTTGGATCGGATATGCACCACCCTCATTGGAGCGGAGGAGCACCTGAATGCG---GACAGGGCTGCTGGTGATGGGGATTGTGGTTCTACCCACAGCCGTGCTTCCAAA---ATCTATgtcatggctatggtcctgggtaagtttccttgctttggccacatgggccaatttggccaggggacacat #### Dak_ID2902_11 --> 2 - 1 Original Alignment at---GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg ggatgtctaggcctctattgtgtgtggatgagttctcatatccatttcagatCACGCTGAAACTACTGCAAAACCTTGGCCT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCTCCAGAGGCCCCTGAAGCCACTGTAGCAGGAggtgagtggtcctactaagatctgtggcagttgaaactctaccttcactat Alignment from CESAR at---GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAg ggatgtctaggcctctattgtgtgtggatgagttctcatatccatttcagatCACGCTGAAACTACTGCAAAACCTTGGCCT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCTCCAGAGGCCCCTGAAGCCACTGTAGCAGGAggtgagtggtcctactaagatctgtggcagttgaaactctaccttcactat Alignment from Spaln_aa2Genome AT---GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG ggatgtctaggcctctattgtgtgtggatgagttctcatatccatttcagATCACGCTGAAACTACTGCAAAACCTTGGCCT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCTCCAGAGGCCCCTGAAGCCACTGTAGCAGGAGgtgagtggtcctactaagatctgtggcagttgaaactctaccttcactat Alignment from Spaln_nt2Genome AT---GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG ggatgtctaggcctctattgtgtgtggatgagttctcatatccatttcagATCACGCTGAAACTACTGCAAAACCTTGGCCT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCTCCAGAGGCCCCTGAAGCCACTGTAGCAGGAGgtgagtggtcctactaagatctgtggcagttgaaactctaccttcactat Alignment from Pairagon AT---GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG ggatgtctaggcctctattgtgtgtggatgagttctcatatccatttcagATCACGCTGAAACTACTGCAAAACCTTGGCCT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCTCCAGAGGCCCCTGAAGCCACTGTAGCAGGAGgtgagtggtcctactaagatctgtggcagttgaaactctaccttcactat Alignment from Exonerate_protein2genome AT---GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG ggatgtctaggcctctattgtgtgtggatgagttctcatatccatttcagATCACGCTGAAACTACTGCAAAACCTTGGCCT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCTCCAGAGGCCCCTGAAGCCACTGTAGCAGGAGgtgagtggtcctactaagatctgtggcagttgaaactctaccttcactat Alignment from Exonerate_coding2genome AT---GCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG ggatgtctaggcctctattgtgtgtggatgagttctcatatccatttcagATCACGCTGAAACTACTGCAAAACCTTGGCCT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCTCCAGAGGCCCCTGAAGCCACTGTAGCAGGAGgtgagtggtcctactaagatctgtggcagttgaaactctaccttcactat Alignment from GeneWise --GATGCTGAAACTACTGCAAAAGCCTGGCCTCACATGGCCAAGGTCTCTGTGACTGGGAGGAAGCGGATTCGGGCAGCTCCCACAGAGCCTCCAGAAGCCCCTGAAGCCACTGCAGCAGGAG ggatgtctaggcctctattgtgtgtggatgagttctcatatccatttcagATCACGCTGAAACTACTGCAAAACCTTGGCCT---ATGGCCAAGGTCTCTGTGACTGGGAGGAAACAGATTAGGGCAGCTCCCACAGAGCCTCCAGAGGCCCCTGAAGCCACTGTAGCAGGAGgtgagtggtcctactaagatctgtggcagttgaaactctaccttcactat #### Dak_ID2907_6 --> 2 - 1 Original Alignment gtACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg ccacccacaaaattaccatcccccttgcatcgtgtgctttcttcatgcaggt------GGTGTGAGCTTGTCATCATGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGggtaagcccaccgtcatgatgcatcttctgcaactgtcttaggatgcctag Alignment from CESAR gtACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg ctgctgccacccacaaaattaccattgcatcgtgtgctttcttcatgcaggt------GGTGTGAGCTTGTCATCATGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGggtaagcccaccgtcatgatgcatcttctgcaactgtcttaggatgcctag Alignment from Spaln_aa2Genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccacccacaaaattaccatcccccttgcatcgtgtgctttcttcatgcagGT------GGTGTGAGCTTGTCATCATGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagcccaccgtcatgatgcatcttctgcaactgtcttaggatgcctag Alignment from Spaln_nt2Genome GGG---TGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccacccacaaaattaccatcccccttgcatcgtgtgctttcttcatgcagGTGGTGTGAGCTTGTCATCATGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagcccaccgtcatgatgcatcttctgcaactgtcttaggatgcctag Alignment from Pairagon GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccacccacaaaattaccatcccccttgcatcgtgtgctttcttcatgcagGT------GGTGTGAGCTTGTCATCATGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagcccaccgtcatgatgcatcttctgcaactgtcttaggatgcctag Alignment from Exonerate_protein2genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccacccacaaaattaccatcccccttgcatcgtgtgctttcttcatgcagGT------GGTGTGAGCTTGTCATCATGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagcccaccgtcatgatgcatcttctgcaactgtcttaggatgcctag Alignment from Exonerate_coding2genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccacccacaaaattaccatcccccttgcatcgtgtgctttcttcatgcagGT------GGTGTGAGCTTGTCATCATGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagcccaccgtcatgatgcatcttctgcaactgtcttaggatgcctag Alignment from GeneWise GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccacccacaaaattaccatcccccttgcatcgtgtgctttcttcatgcagGT------GGTGTGAGCTTGTCATCATGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagcccaccgtcatgatgcatcttctgcaactgtcttaggatgcctag #### Ddb1_ID2930_15 --> 2 - 1 Original Alignment agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---g agtacttcaggttaaagccccagtaagggtgttgtttgccatgtccatagagATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATATCGAGACATTGggtaggtcaaaacattgagtgtgggttttttcagaaataaggagccttgga Alignment from CESAR agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---g agtacttcaggttaaagccccagtaagggtgttgtttgccatgtccatagagATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATATCGAGACATTGggtaggtcaaaacattgagtgtgggttttttcagaaataaggagccttgga Alignment from Spaln_aa2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---G agtacttcaggttaaagccccagtaagggtgttgtttgccatgtccatagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATATCGAGACATTGGgtaggtcaaaacattgagtgtgggttttttcagaaataaggagccttgga Alignment from Spaln_nt2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---G agtacttcaggttaaagccccagtaagggtgttgtttgccatgtccatagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATATCGAGACATTGGgtaggtcaaaacattgagtgtgggttttttcagaaataaggagccttgga Alignment from Pairagon AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---G agtacttcaggttaaagccccagtaagggtgttgtttgccatgtccatagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATATCGAGACATTGGgtaggtcaaaacattgagtgtgggttttttcagaaataaggagccttgga Alignment from Exonerate_protein2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---G agtacttcaggttaaagccccagtaagggtgttgtttgccatgtccatagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATATCGAGACATTGGgtaggtcaaaacattgagtgtgggttttttcagaaataaggagccttgga Alignment from Exonerate_coding2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACA---G agtacttcaggttaaagccccagtaagggtgttgtttgccatgtccatagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATATCGAGACATTGGgtaggtcaaaacattgagtgtgggttttttcagaaataaggagccttgga Alignment from GeneWise AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAGGT- agtacttcaggttaaagccccagtaagggtgttgtttgccatgtccatagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATATCGAGACATTGGgtaggtcaaaacattgagtgtgggttttttcagaaataaggagccttgga #### Ddb1_ID2935_20 --> 2 - 1 Original Alignment tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg tgggttagaaacaatatctgtaacctcttatttttctgtttgtctcacagtg---CATGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGTACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCAGATggtaggagagcagtttctggactatgaaagatgtgaatttcaggggaagca Alignment from CESAR tgCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATg ttatgggttagaaacaatatctgtatcttatttttctgtttgtctcacagtg---CATGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGTACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCAGATggtaggagagcagtttctggactatgaaagatgtgaatttcaggggaagca Alignment from Spaln_aa2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tgggttagaaacaatatctgtaacctcttatttttctgtttgtctcacagTG---CATGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGTACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCAGATGgtaggagagcagtttctggactatgaaagatgtgaatttcaggggaagca Alignment from Spaln_nt2Genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tgggttagaaacaatatctgtaacctcttatttttctgtttgtctcacagTG---CATGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGTACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCAGATGgtaggagagcagtttctggactatgaaagatgtgaatttcaggggaagca Alignment from Pairagon TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tgggttagaaacaatatctgtaacctcttatttttctgtttgtctcacagTG---CATGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGTACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCAGATGgtaggagagcagtttctggactatgaaagatgtgaatttcaggggaagca Alignment from Exonerate_protein2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tgggttagaaacaatatctgtaacctcttatttttctgtttgtctcacagTG---CATGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGTACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCAGATGgtaggagagcagtttctggactatgaaagatgtgaatttcaggggaagca Alignment from Exonerate_coding2genome TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tgggttagaaacaatatctgtaacctcttatttttctgtttgtctcacagTG---CATGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGTACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCAGATGgtaggagagcagtttctggactatgaaagatgtgaatttcaggggaagca Alignment from GeneWise TGCTTCACGCCCATCAGTTTCTACAAAACGAGTATGCCCTCAGCCTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGCACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCGTATTGTGGTCTTCCAGTATTCAGATG tgggttagaaacaatatctgtaacctcttatttttctgtttgtctcacagTG---CATGCCCATCAGTTTCTTCAAAATGAGTATGCCCTTAGCTTGGTCTCCTGCAAGTTGGGTAAAGACCCCAACACTTACTTCATTGTGGGTACAGCCATGGTATATCCTGAAGAGGCAGAGCCCAAGCAGGGTCACATTGTGGTCTTCCAGTATTCAGATGgtaggagagcagtttctggactatgaaagatgtgaatttcaggggaagca #### Dpf2_ID1304_9 --> 2 - 0 Original Alignment ggCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT------ ttgcccactctgcaccctggtttccaactaatcagtactgtgttttacagggCCTCCATCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATCGGTCAgtaatggtcactgagcctgctaggcccaatgagcctgccaggcttcaata Alignment from CESAR ggCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT------ ttgcccactctgcaccctggtttccaactaatcagtactgtgttttacagggCCTCCATCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATCGGTCAgtaatggtcactgagcctgctaggcccaatgagcctgccaggcttcaata Alignment from Spaln_aa2Genome GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGATGACCAG ttgcccactctgcaccctggtttccaactaatcagtactgtgttttacagGGCCTCCATCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATCGGTCAgtaatggtcactgagcctgctaggcccaatgagcctgccaggcttcaata Alignment from Spaln_nt2Genome GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT-- ttgcccactctgcaccctggtttccaactaatcagtactgtgttttacagGGCCTCCATCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATCGgtcagtaatggtcactgagcctgctaggcccaatgagcctgccaggcttcaata Alignment from Pairagon GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT-- ttgcccactctgcaccctggtttccaactaatcagtactgtgttttacagGGCCTCCATCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATCGgtcagtaatggtcactgagcctgctaggcccaatgagcctgccaggcttcaata Alignment from Exonerate_protein2genome GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGATGACCAG ttgcccactctgcaccctggtttccaactaatcagtactgtgttttacagGGCCTCCATCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATCGGTCAgtaatggtcactgagcctgctaggcccaatgagcctgccaggcttcaata Alignment from Exonerate_coding2genome GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGATGACCAG ttgcccactctgcaccctggtttccaactaatcagtactgtgttttacagGGCCTCCATCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATCGGTCAgtaatggtcactgagcctgctaggcccaatgagcctgccaggcttcaata Alignment from GeneWise GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT------ ttgcccactctgcaccctggtttccaactaatcagtactgtgttttacagGGCCTCCATCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGCTGCAACCTCTGTGGCACATCAGAAAATGATCGGTCAgtaatggtcactgagcctgctaggcccaatgagcctgccaggcttcaata #### Dpp3_ID740_13 --> 0 - 2 Original Alignment ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga ccaagccctgatttttttgtgcttcggcgctaacaggctttcccctacag------------TACCGGAGTGGAGAGACTTGGGATAGCGAATTCAGCACCATTGCCTCTAGGTATGAAGAGTGTCGGGCTGAGAGTGTGGGCCTCTACCTCTGTCTCACCCCCCAAGTGTTGgagtaagtaaccattagccaaagggacggtgggctgacatcccacactaaac Alignment from CESAR ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGga tgagggacacagccaagccctgattggcgctaacaggctttcccctacag------------TACCGGAGTGGAGAGACTTGGGATAGCGAATTCAGCACCATTGCCTCTAGGTATGAAGAGTGTCGGGCTGAGAGTGTGGGCCTCTACCTCTGTCTCACCCCCCAAGTGTTGgagtaagtaaccattagccaaagggacggtgggctgacatcccacactaaac Alignment from Spaln_aa2Genome TACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ccaagccctgatttttttgtgcttcggcgctaacaggctttcccctacagTACCGGAGTGGAGAGACTTGGGATAGCGAATTCAGCACCATTGCCTCTAGGTATGAAGAGTGTCGGGCTGAGAGTGTGGGCCTCTACCTCTGTCTCACCCCCCAAGTGTTGGAgtaagtaaccattagccaaagggacggtgggctgacatcccacactaaac Alignment from Spaln_nt2Genome TACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ccaagccctgatttttttgtgcttcggcgctaacaggctttcccctacagTACCGGAGTGGAGAGACTTGGGATAGCGAATTCAGCACCATTGCCTCTAGGTATGAAGAGTGTCGGGCTGAGAGTGTGGGCCTCTACCTCTGTCTCACCCCCCAAGTGTTGGAgtaagtaaccattagccaaagggacggtgggctgacatcccacactaaac Alignment from Pairagon ATCCAGAGCTGGTACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ccaagccctgatttttttgtgcttcggcgctaacaggctttcccctacag------------TACCGGAGTGGAGAGACTTGGGATAGCGAATTCAGCACCATTGCCTCTAGGTATGAAGAGTGTCGGGCTGAGAGTGTGGGCCTCTACCTCTGTCTCACCCCCCAAGTGTTGGAgtaagtaaccattagccaaagggacggtgggctgacatcccacactaaac Alignment from Exonerate_protein2genome TACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ccaagccctgatttttttgtgcttcggcgctaacaggctttcccctacagTACCGGAGTGGAGAGACTTGGGATAGCGAATTCAGCACCATTGCCTCTAGGTATGAAGAGTGTCGGGCTGAGAGTGTGGGCCTCTACCTCTGTCTCACCCCCCAAGTGTTGGAgtaagtaaccattagccaaagggacggtgggctgacatcccacactaaac Alignment from Exonerate_coding2genome TACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ccaagccctgatttttttgtgcttcggcgctaacaggctttcccctacagTACCGGAGTGGAGAGACTTGGGATAGCGAATTCAGCACCATTGCCTCTAGGTATGAAGAGTGTCGGGCTGAGAGTGTGGGCCTCTACCTCTGTCTCACCCCCCAAGTGTTGGAgtaagtaaccattagccaaagggacggtgggctgacatcccacactaaac Alignment from GeneWise TACCGGAGTGGAGAGACGTGGGATAGCAAATTCAGCACCATTGCCTCCAGCTACGAAGAGTGCCGGGCCGAGAGTGTGGGCCTCTACCTCTGTCTCAACCCCCAAGTGCTGGA ccaagccctgatttttttgtgcttcggcgctaacaggctttcccctacagTACCGGAGTGGAGAGACTTGGGATAGCGAATTCAGCACCATTGCCTCTAGGTATGAAGAGTGTCGGGCTGAGAGTGTGGGCCTCTACCTCTGTCTCACCCCCCAAGTGTTGGAgtaagtaaccattagccaaagggacggtgggctgacatcccacactaaac #### Dpp3_ID746_7 --> 0 - 2 Original Alignment GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag gatcactcaaagctctgagggtttaataaaaccttggcttgtcctgttag------GCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGCTCAATTGAGGCCCATAAGAGGGGTTCCCACTTCTGGATTCAGGACAAAGGCCCCATTGTAAAGaggtagggtgccagcccaggtttcgactcccccaactcccttccaatgcatt Alignment from CESAR GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGag tgaggggatcactcaaagctctgagataaaaccttggcttgtcctgttag------GCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGCTCAATTGAGGCCCATAAGAGGGGTTCCCACTTCTGGATTCAGGACAAAGGCCCCATTGTAAAGaggtagggtgccagcccaggtttcgactcccccaactcccttccaatgcatt Alignment from Spaln_aa2Genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gatcactcaaagctctgagggtttaataaaaccttggcttgtcctgttag------GCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGCTCAATTGAGGCCCATAAGAGGGGTTCCCACTTCTGGATTCAGGACAAAGGCCCCATTGTAAAGAGgtagggtgccagcccaggtttcgactcccccaactcccttccaatgcatt Alignment from Spaln_nt2Genome TGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gatcactcaaagctctgagggtttaataaaaccttggcttgtcctgttagGCAGCCA-ACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGCTCAATTGAGGCCCATAAGAGGGGTTCCCACTTCTGGATTCAGGACAAAGGCCCCATTGTAAAGAGgtagggtgccagcccaggtttcgactcccccaactcccttccaatgcatt Alignment from Pairagon ----------------------------------------------TTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG GATCACTCAAAGCTCTGAGGGTTTAATAAAACCTTGGCTTGTCCTGTTAGGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGCTCAATTGAGGCCCATAAGAGGGGTTCCCACTTCTGGATTCAGGACAAAGGCCCCATTGTAAAGAGgtagggtgccagcccaggtttcgactcccccaactcccttccaatgcatt Alignment from Exonerate_protein2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gatcactcaaagctctgagggtttaataaaaccttggcttgtccTGTTAGGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGCTCAATTGAGGCCCATAAGAGGGGTTCCCACTTCTGGATTCAGGACAAAGGCCCCATTGTAAAGAGgtagggtgccagcccaggtttcgactcccccaactcccttccaatgcatt Alignment from Exonerate_coding2genome GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gatcactcaaagctctgagggtttaataaaaccttggcttgtccTGTTAGGCAGCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGCTCAATTGAGGCCCATAAGAGGGGTTCCCACTTCTGGATTCAGGACAAAGGCCCCATTGTAAAGAGgtagggtgccagcccaggtttcgactcccccaactcccttccaatgcatt Alignment from GeneWise GCTTATGCAGCCAACAGCCACCAGGAGCAAATGCTGGCTCAGTACGTGGAGAGCTTCACCCAGGGCTCCATTGAGGCCCATAAGAGGGGCTCCCGCTTCTGGATTCAGGACAAAGGCCCCATTGTAGAGAG gatcactcaaagctctgagggtttaataaaaccttggcttgtcctgttagGCA------GCCAACTGCCACCAGAAGCAAATGCTGGCCCAGTATGTGGAAAGCTTCACTCAGGGCTCAATTGAGGCCCATAAGAGGGGTTCCCACTTCTGGATTCAGGACAAAGGCCCCATTGTAAAGAGgtagggtgccagcccaggtttcgactcccccaactcccttccaatgcatt #### Drap1_ID984_6 --> 0 - 2 Original Alignment GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag gtgggtccaggccctctctttaatctgacaaacagtccttgtattttcag---GAGTCTGAGGATATGGATACTGATGGGGAAGAGGAGACACCACAGCTTCCACCTCAGGCCAGTCACCCTCCTGCCCACTTTCAGaggtaatcttcgcgggggcaacataatatggcatgctagacaccccctagtc Alignment from CESAR GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGag gaagtgggtccaggccctctctttatgacaaacagtccttgtattttcag---GAGTCTGAGGATATGGATACTGATGGGGAAGAGGAGACACCACAGCTTCCACCTCAGGCCAGTCACCCTCCTGCCCACTTTCAGaggtaatcttcgcgggggcaacataatatggcatgctagacaccccctagtc Alignment from Spaln_aa2Genome GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gtgggtccaggccctctctttaatctgacaaacagtccttgtattttcag---GAGTCTGAGGATATGGATACTGATGGGGAAGAGGAGACACCACAGCTTCCACCTCAGGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaatcttcgcgggggcaacataatatggcatgctagacaccccctagtc Alignment from Spaln_nt2Genome TGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gtgggtccaggccctctctttaatctgacaaacagtccttgtattttcag-GAGTCTGAGGATATGGATACTGATGGGGAAGAGGAGACACCACAGCTTCCACCTCAGGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaatcttcgcgggggcaacataatatggcatgctagacaccccctagtc Alignment from Pairagon GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gtgggtccaggccctctctttaatctgacaaacagtccttgtattttcag---GAGTCTGAGGATATGGATACTGATGGGGAAGAGGAGACACCACAGCTTCCACCTCAGGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaatcttcgcgggggcaacataatatggcatgctagacaccccctagtc Alignment from Exonerate_protein2genome GAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gtgggtccaggccctctctttaatctgacaaacagtccttgtattttcagGAGTCTGAGGATATGGATACTGATGGGGAAGAGGAGACACCACAGCTTCCACCTCAGGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaatcttcgcgggggcaacataatatggcatgctagacaccccctagtc Alignment from Exonerate_coding2genome GAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gtgggtccaggccctctctttaatctgacaaacagtccttgtattttcagGAGTCTGAGGATATGGATACTGATGGGGAAGAGGAGACACCACAGCTTCCACCTCAGGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaatcttcgcgggggcaacataatatggcatgctagacaccccctagtc Alignment from GeneWise ------------GATGAGTCTGAGGATACAGATACTGATGGGGAAGAAGAGACACCACAGCTTCCACCCCAAGCCAGTCACCCTCCTGCCCACTTTCAGAG gtgggtccaggccctctctttaatctgacaaacagTCCTTGTATTTTCAGGAGTCTGAGGATATGGATACTGATGGGGAAGAGGAGACACCACAGCTTCCACCTCAGGCCAGTCACCCTCCTGCCCACTTTCAGAGgtaatcttcgcgggggcaacataatatggcatgctagacaccccctagtc #### Drap1_ID986_4 --> 1 - 2 Original Alignment g------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tattccccaagtgtttgaggggccgacccccacatttctgctgtttttaggGGACCCATGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGATGGGGAGGACAACCATGTAGATGGGGAGAAGGGGCCTCGAaggtgtgtagccaggtctgcagagaaagctgtacttcattctaggGGCCGTA Alignment from CESAR g------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gGGCCGGA tattccccaagtgtttgaggggccgacccccacatttctgctgtttttaggGGACCCATGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGATGGGGAGGACAACCATGTAGATGGGGAGAAGGGGCCTCGAaggtgtgtagccaggtctgcagaactaaccccttcctccctcaggGGCCGTA Alignment from Spaln_aa2Genome TGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tattccccaagtgtttgaggggccgacccccacatttctgctgtttttaggggacccatgcagTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGATGGGGAGGACAACCATGTAGATGGGGAGAAGGGGCCTCGAAGgtgtgtagccaggtctgcagagaaagctgtacttcattctagGGGCCGTA Alignment from Spaln_nt2Genome TGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tattccccaagtgtttgaggggccgacccccacatttctgctgtttttaggggacccatgcagTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGATGGGGAGGACAACCATGTAGATGGGGAGAAGGGGCCTCGAAGgtgtgtagccaggtctgcagagaaagctgtacttcattctagGGGCCGTA Alignment from Pairagon G------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tattccccaagtgtttgaggggccgacccccacatttctgctgtttttagGGGACCCATGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGATGGGGAGGACAACCATGTAGATGGGGAGAAGGGGCCTCGAAGgtgtgtagccaggtctgcagagaaagctgtacttcattctagGGGCCGTA Alignment from Exonerate_protein2genome G------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tattccccaagtgtttgaggggccgacccccacatttctgctgtttttagGGGACCCATGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGATGGGGAGGACAACCATGTAGATGGGGAGAAGGGGCCTCGAAGgtgtgtagccaggtctgcagagaaagctgtacttcattctagGGGCCGTA Alignment from Exonerate_coding2genome G------AAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAG GGGCCGGA tattccccaagtgtttgaggggccgacccccacatttctgctgtttttagGGGACCCATGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGATGGGGAGGACAACCATGTAGATGGGGAGAAGGGGCCTCGAAGgtgtgtagccaggtctgcagagaaagctgtacttcattctagGGGCCGTA Alignment from GeneWise ----CTGAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAGG------------------------------------------GGCCGGA tattccccaagtgtttgaggggccgacccccacatttctgctgtttttagGGGACCCATGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGATGGGGAGGACAACCATGTAGATGGGGAGAAGGGGCCTCGAAGGTGTGTAGCCAGGTCTGCAGAGAAAGCTGTACTTCATTCTAGGGGCCGTA #### Drap1_ID988_2 --> 0 - 1 Original Alignment GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATC------t tccaaatgttggggatgcaggaatggacagcctctgccttcctcatacagACGCGGATCAAAAAGATCATGCAGACAGATGAAGAGATTGGGAAGGTGGCAGCAGCTGTGCCTGTCATCATCAAACTGtgtaaggtaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from CESAR GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATC------t tccaaatgttggggatgcaggaatggacagcctctgccttcctcatacagACGCGGATCAAAAAGATCATGCAGACAGATGAAGAGATTGGGAAGGTGGCAGCAGCTGTGCCTGTCATCATCAAACTGtgtaaggtaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Spaln_aa2Genome GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATC------T tccaaatgttggggatgcaggaatggacagcctctgccttcctcatacagACGCGGATCAAAAAGATCATGCAGACAGATGAAGAGATTGGGAAGGTGGCAGCAGCTGTGCCTGTCATCATCAAACTGTgtaaggtaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Spaln_nt2Genome GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATC------T tccaaatgttggggatgcaggaatggacagcctctgccttcctcatacagACGCGGATCAAAAAGATCATGCAGACAGATGAAGAGATTGGGAAGGTGGCAGCAGCTGTGCCTGTCATCATCAAACTGTgtaaggtaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Pairagon GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATC------T tccaaatgttggggatgcaggaatggacagcctctgccttcctcatacagACGCGGATCAAAAAGATCATGCAGACAGATGAAGAGATTGGGAAGGTGGCAGCAGCTGTGCCTGTCATCATCAAACTGTgtaaggtaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Exonerate_protein2genome GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATC------T tccaaatgttggggatgcaggaatggacagcctctgccttcctcatacagACGCGGATCAAAAAGATCATGCAGACAGATGAAGAGATTGGGAAGGTGGCAGCAGCTGTGCCTGTCATCATCAAACTGTgtaaggtaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from Exonerate_coding2genome GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATC------T tccaaatgttggggatgcaggaatggacagcctctgccttcctcatacagACGCGGATCAAAAAGATCATGCAGACAGATGAAGAGATTGGGAAGGTGGCAGCAGCTGTGCCTGTCATCATCAAACTGTgtaaggtaccagggcccagttagtctgaggtgtgggactaaggcactcca Alignment from GeneWise GCGCGGATCAAAAAGATCATGCAGACGGACGAAGAGATTGGGAAGGTGGCGGCAGCTGTGCCTGTCATCATC------T tccaaatgttggggatgcaggaatggacagcctctgccttcctcatacagACGCGGATCAAAAAGATCATGCAGACAGATGAAGAGATTGGGAAGGTGGCAGCAGCTGTGCCTGTCATCATCAAACTGTgtaaggtaccagggcccagttagtctgaggtgtgggactaaggcactcca #### Ehbp1l1_ID1217_18 --> 2 - 2 Original Alignment agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat tggcttcttagaaggacagaagaagtcttttttttcaactctgtttgcagaaTGGCAGAAAACAGTTGCGCAGCAGCACCGTGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTA------------------------------------------------gtgtagggacctgagtggctttggttttgaggaacccccagggtgcaagatg Alignment from CESAR agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGGat tggcttcttagaaggacagaagaagtcttttttttcaactctgtttgcagaaTGGCAGAAAACAGTTGCGCAGCAGCACCGTGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTA------------------------------------------------gtgtagggacctgagtggctttggttttgaggaacccccagggtgcaagatg Alignment from Spaln_aa2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGT tggcttcttagaaggacagaagaagtcttttttttcaactctgtttgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGTGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTgtagggacctgagtggctttggttttgaggaacccccagggtgcaagatg Alignment from Spaln_nt2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAA----CCAGAG-GGATGAACTGGTCCGGGACCTGGACCAGAAGGAACG tggcttcttagaaggacagaagaagtcttttttttcaactctgtttgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGTGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGTAGGGACCTGAGTGGCTTTGGTTTTGAGGAACC---CCCAGGGTGCA-A Alignment from Pairagon AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGT tggcttcttagaaggacagaagaagtcttttttttcaactctgtttgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGTGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTgtagggacctgagtggctttggttttgaggaacccccagggtgcaagatg Alignment from Exonerate_protein2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTG tggcttcttagaaggacagaagaagtcttttttttcaactctgtttgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGTGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGtagggacctgagtggctttggttttgaggaacccccagggtgcaagatg Alignment from Exonerate_coding2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTG tggcttcttagaaggacagaagaagtcttttttttcaactctgtttgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGTGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGtagggacctgagtggctttggttttgaggaacccccagggtgcaagatg Alignment from GeneWise AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGT tggcttcttagaaggacagaagaagtcttttttttcaactctgtttgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGTGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTgtagggacctgagtggctttggttttgaggaacccccagggtgcaagatg #### Ehbp1l1_ID1220_15 --> 0 - 1 Original Alignment ------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg ctggctggggtggggtcacctgtcctctataaaactgtgtttgtttacagTACATTCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCAGCAAGCCCTGGAGCAAGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGCAGAAGCAGCTGAGGAGCCTGATGGAATCAggtaggtcccctgacttttggttttgctcctttagaattgacagccttgtc Alignment from CESAR ------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAg ctggctggggtggggtcacctgtcctctataaaactgtgtttgtttacagTACATTCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCAGCAAGCCCTGGAGCAAGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGCAGAAGCAGCTGAGGAGCCTGATGGAATCAggtaggtcccctgacttttggttttgctcctttagaattgacagccttgtc Alignment from Spaln_aa2Genome CAACGGTTCCAGGAC------ACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG ctggctggggtggggtcacctgtcctctataaaactgtgtttgtttacagTACATTCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCAGCAAGCCCTGGAGCAAGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGCAGAAGCAGCTGAGGAGCCTGATGGAATCAGgtaggtcccctgacttttggttttgctcctttagaattgacagccttgtc Alignment from Spaln_nt2Genome CAACGGTTC------CAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG ctggctggggtggggtcacctgtcctctataaaactgtgtttgtttacagTACATTCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCAGCAAGCCCTGGAGCAAGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGCAGAAGCAGCTGAGGAGCCTGATGGAATCAGgtaggtcccctgacttttggttttgctcctttagaattgacagccttgtc Alignment from Pairagon ------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG ctggctggggtggggtcacctgtcctctataaaactgtgtttgtttacagTACATTCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCAGCAAGCCCTGGAGCAAGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGCAGAAGCAGCTGAGGAGCCTGATGGAATCAGgtaggtcccctgacttttggttttgctcctttagaattgacagccttgtc Alignment from Exonerate_protein2genome ------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG ctggctggggtggggtcacctgtcctctataaaactgtgtttgtttacagTACATTCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCAGCAAGCCCTGGAGCAAGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGCAGAAGCAGCTGAGGAGCCTGATGGAATCAGgtaggtcccctgacttttggttttgctcctttagaattgacagccttgtc Alignment from Exonerate_coding2genome ------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG ctggctggggtggggtcacctgtcctctataaaactgtgtttgtttacagTACATTCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCAGCAAGCCCTGGAGCAAGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGCAGAAGCAGCTGAGGAGCCTGATGGAATCAGgtaggtcccctgacttttggttttgctcctttagaattgacagccttgtc Alignment from GeneWise ------CAACGGTTCCAGGACACAAGTCAGTACGTGTGCGCAGAGCTGCAAGCCCTGGAGCAGGAACAGGGACAGATAGATGGGAGGGCCGCTGAGGTGGAGAAGCAGCTGAGGAGCCTCATGGAATCAG ctggctggggtggggtcacctgtcctctataaaactgtgtttgtttacagTACATTCAACGGTTCCAGGACACAAGTCAGTATGTGTGCGCAGAGCAGCAAGCCCTGGAGCAAGAACAGGGACAGGTAGATGGCAGGGCTGCTGAGGTGCAGAAGCAGCTGAGGAGCCTGATGGAATCAGgtaggtcccctgacttttggttttgctcctttagaattgacagccttgtc #### Ehbp1l1_ID1224_11 --> 1 - 0 Original Alignment cGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG--- tgccagggcaccagggacatccctccattaactgatttatctcttaatagcGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAGTTAgtaaggtgaaggaaggagctgtagtctggaggtaagatccgacaagggag Alignment from CESAR cGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG--- tgccagggcaccagggacatccctccattaactgatttatctcttaatagcGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAGTTAgtaaggtgaaggaaggagctgtagtctggaggtaagatccgacaagggag Alignment from Spaln_aa2Genome CGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG--- tgccagggcaccagggacatccctccattaactgatttatctcttaatagCGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAGTTAgtaaggtgaaggaaggagctgtagtctggaggtaagatccgacaagggag Alignment from Spaln_nt2Genome CGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCA tgccagggcaccagggacatccctccattaactgatttatctcttaatagCGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAgttagtaaggtgaaggaaggagctgtagtctggaggtaagatccgacaagggag Alignment from Pairagon CGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG--- tgccagggcaccagggacatccctccattaactgatttatctcttaatagCGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAGTTAgtaaggtgaaggaaggagctgtagtctggaggtaagatccgacaagggag Alignment from Exonerate_protein2genome CGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG tgccagggcaccagggacatccctccattaactgatttatctcttaatagCGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAGttagtaaggtgaaggaaggagctgtagtctggaggtaagatccgacaagggag Alignment from Exonerate_coding2genome CGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAG tgccagggcaccagggacatccctccattaactgatttatctcttaatagCGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAGttagtaaggtgaaggaaggagctgtagtctggaggtaagatccgacaagggag Alignment from GeneWise CGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAGGCT tgccagggcaccagggacatccctccattaactgatttatctcttaatagCGATTATTTCTCCCTTGATCCCCTCAACATCAAACAGAACAACAAGCAGTTAgtaaggtgaaggaaggagctgtagtctggaggtaagatccgacaagggag #### Ehbp1l1_ID1227_8 --> 2 - 2 Original Alignment ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag acctacatgatgatgcccctggtgcctgtttctttctccctttaatccagctGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGG---GTGGGGCCTGAAACCTCAGAG------------------------aggtaacgatcatctcagcttcaaggcacttttcattcttgcccgtttcact Alignment from CESAR ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAag acctacatgatgatgcccctggtgcctgtttctttctccctttaatccagctGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGG---GTGGGGCCTGAAACCTCAGAG------------------------aggtaacgatcatctcagcttcaaggcacttttcattcttgcccgtttcact Alignment from Spaln_aa2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCC acctacatgatgatgcccctggtgcctgtttctttctccctttaatccagCTGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGG---GTGGGGCCTGAAACCTCAGAGAGgtaacgatcatctcagcttcaaggcacttttcattcttgcccgtttcact Alignment from Spaln_nt2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG acctacatgatgatgcccctggtgcctgtttctttctccctttaatccagCTGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGG---GGTGGGGCCTGAAACCTCAGAGAGGTAACGATCATC-TCAGCTTCAAGgcacttttcattcttgcccgtttcac Alignment from Pairagon CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG acctacatgatgatgcccctggtgcctgtttctttctccctttaatccagCTGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGG---GGTGGGGCCTGAAACCTCAGAG------------------------AGgtaacgatcatctcagcttcaaggcacttttcattcttgcccgtttcact Alignment from Exonerate_protein2genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAAC acctacatgatgatgcccctggtgcctgtttctttctccctttaatccagCTGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGG---GTGGGGCCTGAAACctcagagaggtaacgatcatctcagcttcaaggcacttttcattcttgcccgtttcact Alignment from Exonerate_coding2genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAAC acctacatgatgatgcccctggtgcctgtttctttctccctttaatccagCTGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGG---GTGGGGCCTGAAACctcagagaggtaacgatcatctcagcttcaaggcacttttcattcttgcccgtttcact Alignment from GeneWise CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAG-- acctacatgatgatgcccctggtgcctgtttctttctccctttaatccagCTGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTAAGTGCCCCTGCACCCCCAGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGG---GTGGGGCCTGAAACCTCAGAGAGgtaacgatcatctcagcttcaaggcacttttcattcttgcccgtttcact #### Ehbp1l1_ID1228_7 --> 2 - 1 Original Alignment atCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAg aaaccatatgcccttatatgatttcatcattaactttgttctctttctagatCTGTCTCGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAG---agtgattggccctggcctgggaatggggttgcagtctgaacctacatgatg Alignment from CESAR atCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAg aaaccatatgcccttatatgatttcatcattaactttgttctctttctagatCTGTCTCGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAG---agtgattggccctggcctgggaatggggttgcagtctgaacctacatgatg Alignment from Spaln_aa2Genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGG aaaccatatgcccttatatgatttcatcattaactttgttctctttctagATCTGTCTCGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGAgtgattggccctggcctgggaatggggttgcagtctgaacctacatgatg Alignment from Spaln_nt2Genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG---- aaaccatatgcccttatatgatttcatcattaactttgttctctttctagATCTGTCTCGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGAGTGATTGgccctggcctgggaatggggttgcagtctgaacctacatgatg Alignment from Pairagon ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAG--------------------------------------------------- aaaccatatgcccttatatgatttcatcattaactttgttctctttctagATCTGTCTCGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGAGTGATTGGCCCTGGCCTGGGAATGGGGTTGCAGTCTGAACCTACATGATG Alignment from Exonerate_protein2genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG aaaccatatgcccttatatgatttcatcattaactttgttctctttctagATCTGTCTCGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGAGTGattggccctggcctgggaatggggttgcagtctgaacctacatgatg Alignment from Exonerate_coding2genome ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGGCAG aaaccatatgcccttatatgatttcatcattaactttgttctctttctagATCTGTCTCGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGAGTGattggccctggcctgggaatggggttgcagtctgaacctacatgatg Alignment from GeneWise ATCTGTCTCGAGAGCTGAAGACACTCTGTGAAGAAGAAGATGAAGGCCACATACGGCCCCAGCAGG aaaccatatgcccttatatgatttcatcattaactttgttctctttctagATCTGTCTCGTGAGCTGAAGACACTCTGTGAGGAAGAAGATGAAGGCCACATACGTCCCCAGCAGAgtgattggccctggcctgggaatggggttgcagtctgaacctacatgatg #### Ehbp1l1_ID1229_6 --> 1 - 1 Original Alignment gGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg acctgtgagcccaccccttatgatcatctcacttgaattttttctttcaga---------ATGCAAAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCCGAGGTCCAGACCCGAGGCCCCCAGTCCggtgaggtcacagttggcctgatctgccagtacctgagatggatgcaactg Alignment from CESAR gGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAg tggcttgtgacctgtgagcccacccatctcacttgaattttttctttcaga---------ATGCAAAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCCGAGGTCCAGACCCGAGGCCCCCAGTCCggtgaggtcacagttggcctgatctgccagtacctgagatggatgcaactg Alignment from Spaln_aa2Genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG acctgtgagcccaccccttatgatcatctcacttgaattttttctttcagA---------ATGCAAAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCCGAGGTCCAGACCCGAGGCCCCCAGTCCGgtgaggtcacagttggcctgatctgccagtacctgagatggatgcaactg Alignment from Spaln_nt2Genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG acctgtgagcccaccccttatgatcatctcacttgaattttttctttcag---------AATGCAAAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCCGAGGTCCAGACCCGAGGCCCCCAGTCCGgtgaggtcacagttggcctgatctgccagtacctgagatggatgcaactg Alignment from Pairagon GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG acctgtgagcccaccccttatgatcatctcacttgaattttttctttcag---------AATGCAAAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCCGAGGTCCAGACCCGAGGCCCCCAGTCCGgtgaggtcacagttggcctgatctgccagtacctgagatggatgcaactg Alignment from Exonerate_protein2genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG acctgtgagcccaccccttatgatcatctcacttgaattttttctttcagA---------ATGCAAAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCCGAGGTCCAGACCCGAGGCCCCCAGTCCGgtgaggtcacagttggcctgatctgccagtacctgagatggatgcaactg Alignment from Exonerate_coding2genome GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG acctgtgagcccaccccttatgatcatctcacttgaattttttctttcagA---------ATGCAAAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCCGAGGTCCAGACCCGAGGCCCCCAGTCCGgtgaggtcacagttggcctgatctgccagtacctgagatggatgcaactg Alignment from GeneWise GGATGATGACATGCAGAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGTGACGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCTGAGGTCCGGACTCGAGGCCCCCAGTCAG acctgtgagcccaccccttatgatcatctcacttgaattttttctttcagA---------ATGCAAAGTCTGGCCAGCCTCATGAGTGTGAAGCCTAGCGATGTGGGAAACCTGGATGACTTTGCTGAGAGTGATGAGGAGGAAGCTAATGGCCCTGGGGCTCCCGAGGTCCAGACCCGAGGCCCCCAGTCCGgtgaggtcacagttggcctgatctgccagtacctgagatggatgcaactg #### Eif1ad_ID949_2 --> 0 - 1 Original Alignment ---------------------------GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAg catgcaggatttaaatgatgaactagcttttttgtgtgtcttctttctagGGAACTTTCATGGGACTCCTAATCGGGGTCCTCAGGACTCCGGGGAACAATCTGCATGAGGTGGAAACAGCTCAGGGGCAGCGCTTCCTGGTCAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAggtcagttccattcatagtattgagttatgtccttcactgcctccgacggc Alignment from CESAR ---------------------------GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAg catgcaggatttaaatgatgaactagcttttttgtgtgtcttctttctagGGAACTTTCATGGGACTCCTAATCGGGGTCCTCAGGACTCCGGGGAACAATCTGCATGAGGTGGAAACAGCTCAGGGGCAGCGCTTCCTGGTCAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAggtcagttccattcatagtattgagttatgtccttcactgcctccgacgct Alignment from Spaln_aa2Genome ---------------------------GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG catgcaggatttaaatgatgaactagcttttttgtgtgtcttctttctagGGAACTTTCATGGGACTCCTAATCGGGGTCCTCAGGACTCCGGGGAACAATCTGCATGAGGTGGAAACAGCTCAGGGGCAGCGCTTCCTGGTCAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAGgtcagttccattcatagtattgagttatgtccttcactgcctccgacggc Alignment from Spaln_nt2Genome GGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG catgcaggatttaaatgatgaactagcttttttgtgtgtcttctttctagggaactttcatgggactcctaatcggggtcctcagGAC-TCCGGGGAACAATCTGCATGAGGTGGAAACAGCTCAGGGGCAGCGCTTCCTGGTCAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAGgtcagttccattcatagtattgagttatgtccttcactgcctccgacggc Alignment from Pairagon ---------------------------GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG catgcaggatttaaatgatgaactagcttttttgtgtgtcttctttctagGGAACTTTCATGGGACTCCTAATCGGGGTCCTCAGGACTCCGGGGAACAATCTGCATGAGGTGGAAACAGCTCAGGGGCAGCGCTTCCTGGTCAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAGgtcagttccattcatagtattgagttatgtccttcactgcctccgacggc Alignment from Exonerate_protein2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG catgcaggatttaaatgatgaactagcttttttgtgtgtcttctttctagggaactttcatgggactcctaatcgggGTCCTCAGGACTCCGGGGAACAATCTGCATGAGGTGGAAACAGCTCAGGGGCAGCGCTTCCTGGTCAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAGgtcagttccattcatagtattgagttatgtccttcactgcctccgacggc Alignment from Exonerate_coding2genome GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG catgcaggatttaaatgatgaactagcttttttgtgtgtcttctttctagggaactttcatgggactcctaatcgggGTCCTCAGGACTCCGGGGAACAATCTGCATGAGGTGGAAACAGCTCAGGGGCAGCGCTTCCTGGTCAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAGgtcagttccattcatagtattgagttatgtccttcactgcctccgacggc Alignment from GeneWise ---------------------------GTCCTCAGGACTCCTGGGAACAATCTGCATGAGGTGGAAACAGCACAGGGGCAGCGCTTCCTGGTGAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAG catgcaggatttaaatgatgaactagcttttttgtgtgtcttctttctagGGAACTTTCATGGGACTCCTAATCGGGGTCCTCAGGACTCCGGGGAACAATCTGCATGAGGTGGAAACAGCTCAGGGGCAGCGCTTCCTGGTCAGCATGCCCTCCAAATACCGCAAGAACATCTGGATCAAGAGAGgtcagttccattcatagtattgagttatgtccttcactgcctccgacggc #### Eif1ad_ID950_3 --> 2 - 2 Original Alignment ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCAC---tg tgagttatgtccttcactgcctccgacgctgtcactctcttctaccccagggGATTTCCTCATTGTTGACCCTTTTGAAGGAGGTGAAAAAGTGAAGGCGGAGATCTCTTTTGTACTCTGCAAGAACCATGTCCGCTCCCTACAGAAGGAGGGTCAACACtggtgggttggtcttcctctgccaccctctggcaataagagactgttagcta Alignment from CESAR ggGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGT---CACtg tgagttatgtccttcactgcctccgacgctgtcactctcttctaccccagggGATTTCCTCATTGTTGACCCTTTTGAAGGAGGTGAAAAAGTGAAGGCGGAGATCTCTTTTGTACTCTGCAAGAACCATGTCCGCTCCCTACAGAAGGAGGGTCAACACtggtgggttggtcttcctctgccaccctctggcaataagagactgttagcta Alignment from Spaln_aa2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGT---CACTG tgagttatgtccttcactgcctccgacgctgtcactctcttctaccccagGGGATTTCCTCATTGTTGACCCTTTTGAAGGAGGTGAAAAAGTGAAGGCGGAGATCTCTTTTGTACTCTGCAAGAACCATGTCCGCTCCCTACAGAAGGAGGGTCAACACTGgtgggttggtcttcctctgccaccctctggcaataagagactgttagcta Alignment from Spaln_nt2Genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGTCA---CTG tgagttatgtccttcactgcctccgacgctgtcactctcttctaccccagGGGATTTCCTCATTGTTGACCCTTTTGAAGGAGGTGAAAAAGTGAAGGCGGAGATCTCTTTTGTACTCTGCAAGAACCATGTCCGCTCCCTACAGAAGGAGGGTCAACACTGgtgggttggtcttcctctgccaccctctggcaataagagactgttagcta Alignment from Pairagon GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGT---CACTG tgagttatgtccttcactgcctccgacgctgtcactctcttctaccccagGGGATTTCCTCATTGTTGACCCTTTTGAAGGAGGTGAAAAAGTGAAGGCGGAGATCTCTTTTGTACTCTGCAAGAACCATGTCCGCTCCCTACAGAAGGAGGGTCAACACTGgtgggttggtcttcctctgccaccctctggcaataagagactgttagcta Alignment from Exonerate_protein2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGT---CACTG tgagttatgtccttcactgcctccgacgctgtcactctcttctaccccagGGGATTTCCTCATTGTTGACCCTTTTGAAGGAGGTGAAAAAGTGAAGGCGGAGATCTCTTTTGTACTCTGCAAGAACCATGTCCGCTCCCTACAGAAGGAGGGTCAACACTGgtgggttggtcttcctctgccaccctctggcaataagagactgttagcta Alignment from Exonerate_coding2genome GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGT---CACTG tgagttatgtccttcactgcctccgacgctgtcactctcttctaccccagGGGATTTCCTCATTGTTGACCCTTTTGAAGGAGGTGAAAAAGTGAAGGCGGAGATCTCTTTTGTACTCTGCAAGAACCATGTCCGCTCCCTACAGAAGGAGGGTCAACACTGgtgggttggtcttcctctgccaccctctggcaataagagactgttagcta Alignment from GeneWise GGGATTTCCTCATTGTTGACCCTATTGAAGAAGGAGAAAAAGTGAAGGCTGAGATCTCTTTTGTGCTCTGCAAGAACCATGTCCGCTCTCTACAGAAGGAGGGT---CACTG tgagttatgtccttcactgcctccgacgctgtcactctcttctaccccagGGGATTTCCTCATTGTTGACCCTTTTGAAGGAGGTGAAAAAGTGAAGGCGGAGATCTCTTTTGTACTCTGCAAGAACCATGTCCGCTCCCTACAGAAGGAGGGTCAACACTGgtgggttggtcttcctctgccaccctctggcaataagagactgttagcta #### Eif3a_ID13316_14 --> 0 - 0 Original Alignment ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA--------- ggggctgtcttgctccaggtctgtgtgcttttccctttttcttttcacagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGCGCACTTTGgtaattttttcaattggattgtgacatcataaatcaaaactaagttaaag Alignment from CESAR ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA--------- ggggctgtcttgctccaggtctgtgtgcttttccctttttcttttcacagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGCGCACTTTGgtaattttttcaattggattgtgacatcataaatcaaaactaagttaaag Alignment from Spaln_aa2Genome ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA--------- ggggctgtcttgctccaggtctgtgtgcttttccctttttcttttcacagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGCGCACTTTGgtaattttttcaattggattgtgacatcataaatcaaaactaagttaaag Alignment from Spaln_nt2Genome ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAG ggggctgtcttgctccaggtctgtgtgcttttccctttttcttttcacagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGgcgcactttggtaattttttcaattggattgtgacatcataaatcaaaactaagttaaag Alignment from Pairagon ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA--------- ggggctgtcttgctccaggtctgtgtgcttttccctttttcttttcacagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGCGCACTTTGgtaattttttcaattggattgtgacatcataaatcaaaactaagttaaag Alignment from Exonerate_protein2genome ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA ggggctgtcttgctccaggtctgtgtgcttttccctttttcttttcacagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGcgcactttggtaattttttcaattggattgtgacatcataaatcaaaactaagttaaag Alignment from Exonerate_coding2genome ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA ggggctgtcttgctccaggtctgtgtgcttttccctttttcttttcacagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGcgcactttggtaattttttcaattggattgtgacatcataaatcaaaactaagttaaag Alignment from GeneWise ATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA--------- ggggctgtcttgctccaggtctgtgtgcttttccctttttcttttcacagATTGACTATTTTGAGAGGGTGAAGCGCTTGGAGGAAATTCCTCTAATAAAGAGTGCATATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGATGAAAGGCGCACTTTGgtaattttttcaattggattgtgacatcataaatcaaaactaagttaaag #### Eml3_ID2503_3 --> 1 - 2 Original Alignment cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac tacaattattctgccttactgggtattggacgtgtcctattcctccccagcAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAAAAGAAGAGTTAGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTAAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAACCCCTCGAGCGT------acgtaagatatatgtagctagtatggatcagaaagctgattaatgggcttga Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac tacaattattctgccttactgggtattggacgtgtcctattcctccccagcAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAAAAGAAGAGTTAGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTAAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAACCCCTCGAGCGT------acgtaagatatatgtagctagtatggatcagaaagctgattaatgggcttga Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTC tacaattattctgccttactgggtattggacgtgtcctattcctccccagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAAAAGAAGAGTTAGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTAAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAACCCCTCGAGCGTACgtaagatatatgtagctagtatggatcagaaagctgattaatgggcttga Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC tacaattattctgccttactgggtattggacgtgtcctattcctccccagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAAAAGAAGAGTTAGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTAAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAACCCCTCGAGCGT------ACgtaagatatatgtagctagtatggatcagaaagctgattaatgggcttga Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC tacaattattctgccttactgggtattggacgtgtcctattcctccccagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAAAAGAAGAGTTAGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTAAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAACCCCTCGAGCGT------ACgtaagatatatgtagctagtatggatcagaaagctgattaatgggcttga Alignment from Exonerate_protein2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC tacaattattctgccttactgggtattggacgtgtcctattcctccccagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAAAAGAAGAGTTAGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTAAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAACCCCTCGAGCGT------ACgtaagatatatgtagctagtatggatcagaaagctgattaatgggcttga Alignment from Exonerate_coding2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC tacaattattctgccttactgggtattggacgtgtcctattcctccccagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAAAAGAAGAGTTAGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTAAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAACCCCTCGAGCGT------ACgtaagatatatgtagctagtatggatcagaaagctgattaatgggcttga Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTC tacaattattctgccttactgggtattggacgtgtcctattcctccccagCAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAAAAGAAGAGTTAGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTAAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGTCGCAGCAGCAGTGGGGCAGGATCACCTGGTCCTCCAGGAATCCTCAGGCCAGTGCAACCCCTCGAGCGTACgtaagatatatgtagctagtatggatcagaaagctgattaatgggcttga #### Eml3_ID2507_6 --> 2 - 2 Original Alignment aaGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGG------gt tgctctggggcctccaagaaggaggcttatgcgataaactactcttacagaaGGAATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCGCCACCAGAGACCCTGACCCTCGACTGGGTGAATgtgtaacttgttaagaactgtgggaatcacccgcacacacaatgggtaccct Alignment from CESAR aaGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGG------gt tgctctggggcctccaagaaggaggcttatgcgataaactactcttacagaaGGAATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCGCCACCAGAGACCCTGACCCTCGACTGGGTGAATgtgtaacttgttaagaactgtgggaatcacccgcacacacaatgggtaccct Alignment from Spaln_aa2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGTT----- tgctctggggcctccaagaaggaggcttatgcgataaactactcttacagAAGGAATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCGCCACCAGAGACCCTGACCCTCGACTGGGTGAATGTgtaacttgttaagaactgtgggaatcacccgcacacacaatgggtaccct Alignment from Spaln_nt2Genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGG tgctctggggcctccaagaaggaggcttatgcgataaactactcttacagAAGGAATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCGCCACCAGAGACCCTGACCCTCGACTGG-gtgaatgtgtaacttgttaagaactgtgggaatcacccgcacacacaatgggtaccct Alignment from Pairagon AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT------ tgctctggggcctccaagaaggaggcttatgcgataaactactcttacagAAGGAATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCGCCACCAGAGACCCTGACCCTCGACTGGGTGAATGTgtaacttgttaagaactgtgggaatcacccgcacacacaatgggtaccct Alignment from Exonerate_protein2genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT tgctctggggcctccaagaaggaggcttatgcgataaactactcttacagAAGGAATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCGCCACCAGAGACCCTGACCCTCGACTGGGTgaatgtgtaacttgttaagaactgtgggaatcacccgcacacacaatgggtaccct Alignment from Exonerate_coding2genome AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGT tgctctggggcctccaagaaggaggcttatgcgataaactactcttacagAAGGAATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCGCCACCAGAGACCCTGACCCTCGACTGGGTgaatgtgtaacttgttaagaactgtgggaatcacccgcacacacaatgggtaccct Alignment from GeneWise AAGGCATTTCAGTGAAGATGTTCCTTCGTGGCCGTCCCATCACCATGTACATTCCGTCTGGCATCCGAAGTCTTGAGGAGCTGCCCAGCGGCCCGCCCCCAGAGACCCTGAGCCTCGACTGGGTT----- tgctctggggcctccaagaaggaggcttatgcgataaactactcttacagAAGGAATTTCAGTGAAGATGTTCCTTTGTGGCCGTCCCATCACAATGTACATTCCATCTGGCATCCGGAGTCTTGAGGAGCTGCCTAGTGGCCCGCCACCAGAGACCCTGACCCTCGACTGGGTGAATGTgtaacttgttaagaactgtgggaatcacccgcacacacaatgggtaccct #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatgggtcacctttttttcccagctgtctctctgctttgccttccagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTACAGGAAATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCA---gtgaggcgttgagcatggagcatggagcttgtgatcttgctggtttgttt Alignment from CESAR CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatgggtcacctttttttcccagctgtctctctgctttgccttccagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTACAGGAAATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCA---gtgaggcgttgagcatggagcatggagcttgtgatcttgctggtttg Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCA gattatgggtcacctttttttcccagctgtctctctgctttgccttccagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTACAGGAAATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAgtgaggcgttgagcatggagcatggagcttgtgatcttgctggtttgttt Alignment from Spaln_nt2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG---- gattatgggtcacctttttttcccagctgtctctctgctttgccttccagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTACAGGAAATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGTGAGGCgttgagcatggagcatggagcttgtgatcttgctggtttgttt Alignment from Pairagon CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCA gattatgggtcacctttttttcccagctgtctctctgctttgccttccagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTACAGGAAATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAgtgaggcgttgagcatggagcatggagcttgtgatcttgctggtttgttt Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatgggtcacctttttttcccagctgtctctctgctttgccttccagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTACAGGAAATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGTGaggcgttgagcatggagcatggagcttgtgatcttgctggtttgttt Alignment from Exonerate_coding2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatgggtcacctttttttcccagctgtctctctgctttgccttccagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTACAGGAAATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGTGaggcgttgagcatggagcatggagcttgtgatcttgctggtttgttt Alignment from GeneWise CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattatgggtcacctttttttcccagctgtctctctgctttgccttccagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTACAGGAAATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCA---GCAgtgaggcgttgagcatggagcatggagcttgtgatcttgctggtttgttt #### Eml3_ID2513_12 --> 0 - 1 Original Alignment ---AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAg atactctaatgcacccctgcgacccatcagtgtttctatctctccttcagAGCAAATACAAGAAACCCAAGTTTATCCCATGCTTTGTATTCCTTCCTGAAGGAGACATCCTAACTGGAGACTCTGAGGGGAACATTCTTACCTGGGGTCGGAGTATCTCAGATTCTAGGACCACAGGCAGGGGTGGAGCGAAAggtaagctcaggcaggagttgggaatacttgtatctcagagattctgaagg Alignment from CESAR ---AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAg atactctaatgcacccctgcgacccatcagtgtttctatctctccttcagAGCAAATACAAGAAACCCAAGTTTATCCCATGCTTTGTATTCCTTCCTGAAGGAGACATCCTAACTGGAGACTCTGAGGGGAACATTCTTACCTGGGGTCGGAGTATCTCAGATTCTAGGACCACAGGCAGGGGTGGAGCGAAAggtaagctcaggcaggagttgggaatacttgtatctcagagattctgaagg Alignment from Spaln_aa2Genome AAATACAAG---AAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG atactctaatgcacccctgcgacccatcagtgtttctatctctccttcagAGCAAATACAAGAAACCCAAGTTTATCCCATGCTTTGTATTCCTTCCTGAAGGAGACATCCTAACTGGAGACTCTGAGGGGAACATTCTTACCTGGGGTCGGAGTATCTCAGATTCTAGGACCACAGGCAGGGGTGGAGCGAAAGgtaagctcaggcaggagttgggaatacttgtatctcagagattctgaagg Alignment from Spaln_nt2Genome AAATACAAG---AAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG atactctaatgcacccctgcgacccatcagtgtttctatctctccttcagAGCAAATACAAGAAACCCAAGTTTATCCCATGCTTTGTATTCCTTCCTGAAGGAGACATCCTAACTGGAGACTCTGAGGGGAACATTCTTACCTGGGGTCGGAGTATCTCAGATTCTAGGACCACAGGCAGGGGTGGAGCGAAAGgtaagctcaggcaggagttgggaatacttgtatctcagagattctgaagg Alignment from Pairagon ---AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG atactctaatgcacccctgcgacccatcagtgtttctatctctccttcagAGCAAATACAAGAAACCCAAGTTTATCCCATGCTTTGTATTCCTTCCTGAAGGAGACATCCTAACTGGAGACTCTGAGGGGAACATTCTTACCTGGGGTCGGAGTATCTCAGATTCTAGGACCACAGGCAGGGGTGGAGCGAAAGgtaagctcaggcaggagttgggaatacttgtatctcagagattctgaagg Alignment from Exonerate_protein2genome ---AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG atactctaatgcacccctgcgacccatcagtgtttctatctctccttcagAGCAAATACAAGAAACCCAAGTTTATCCCATGCTTTGTATTCCTTCCTGAAGGAGACATCCTAACTGGAGACTCTGAGGGGAACATTCTTACCTGGGGTCGGAGTATCTCAGATTCTAGGACCACAGGCAGGGGTGGAGCGAAAGgtaagctcaggcaggagttgggaatacttgtatctcagagattctgaagg Alignment from Exonerate_coding2genome ---AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG atactctaatgcacccctgcgacccatcagtgtttctatctctccttcagAGCAAATACAAGAAACCCAAGTTTATCCCATGCTTTGTATTCCTTCCTGAAGGAGACATCCTAACTGGAGACTCTGAGGGGAACATTCTTACCTGGGGTCGGAGTATCTCAGATTCTAGGACCACAGGCAGGGGTGGAGCGAAAGgtaagctcaggcaggagttgggaatacttgtatctcagagattctgaagg Alignment from GeneWise -----------------------------------------------------AAATACAAGAAACCCAAGTTCATCCCTTGCTTTGTCTTCCTTCCTGATGGAGACATCCTCACTGGAGATTCCGAGGGGAACATTCTTACCTGGGGTCGAAGTGTCTCAGATTCCAAGACCCCAGGCAGGGGTGGGGCCAAAG ATACTCTAATGCACCCCTGCGACCCATCAGTGTTTCTATCTCTCCTTCAGAGCAAATACAAGAAACCCAAGTTTATCCCATGCTTTGTATTCCTTCCTGAAGGAGACATCCTAACTGGAGACTCTGAGGGGAACATTCTTACCTGGGGTCGGAGTATCTCAGATTCTAGGACCACAGGCAGGGGTGGAGCGAAAGgtaagctcaggcaggagttgggaatacttgtatctcagagattctgaagg #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--------- GGCCACACTGATGA ggggagacatatggttagtatgctcttgcatcctgtctcttcccttgcagATTCCAGAACACTTTGGCGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCCCAAGGTTTCTCCCCTGTTATCCAGCTTTTTAATgtgagtattgtagcttgctgattctgtcttctccagGGACACACTGATGA Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--------- GGCCACACTGATGA ggggagacatatggttagtatgctcttgcatcctgtctcttcccttgcagATTCCAGAACACTTTGGCGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCCCAAGGTTTCTCCCCTGTTATCCAGCTTTTTAATgtgagtattgtagcttcccttcactctgagcagcagGGACACACTGATGA Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--------- GGCCACACTGATGA ggggagacatatggttagtatgctcttgcatcctgtctcttcccttgcagATTCCAGAACACTTTGGCGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCCCAAGGTTTCTCCCCTGTTATCCAGCTTTTTAATgtgagtattgtagcttgctgattctgtcttctccagGGACACACTGATGA Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--------- GGCCACACTGATGA ggggagacatatggttagtatgctcttgcatcctgtctcttcccttgcagATTCCAGAACACTTTGGCGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCCCAAGGTTTCTCCCCTGTTATCCAGCTTTTTAATgtgagtattgtagcttgctgattctgtcttctccagGGACACACTGATGA Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--------- GGCCACACTGATGA ggggagacatatggttagtatgctcttgcatcctgtctcttcccttgcagATTCCAGAACACTTTGGCGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCCCAAGGTTTCTCCCCTGTTATCCAGCTTTTTAATgtgagtattgtagcttgctgattctgtcttctccagGGACACACTGATGA Alignment from Exonerate_protein2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGA ggggagacatatggttagtatgctcttgcatcctgtctcttcccttgcagATTCCAGAACACTTTGGCGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCCCAAGGTTTCTCCCCTGTTATCCAGctttttaatgtgagtattgtagcttgctgattctgtcttctccagGGACACACTGATGA Alignment from Exonerate_coding2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGA ggggagacatatggttagtatgctcttgcatcctgtctcttcccttgcagATTCCAGAACACTTTGGCGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCCCAAGGTTTCTCCCCTGTTATCCAGctttttaatgtgagtattgtagcttgctgattctgtcttctccagGGACACACTGATGA Alignment from GeneWise ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--------- GGCCACACTGATGA ggggagacatatggttagtatgctcttgcatcctgtctcttcccttgcagATTCCAGAACACTTTGGCGCAGTGAGAGCCATTGCTGAAGGACTTGGCTCTGAACTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCCCAAGGTTTCTCCCCTGTTATCCAGCTTTTTAATgtgagtattgtagcttgctgattctgtcttctccagGGACACACTGATGA #### Fads1_ID2694_8 --> 0 - 2 Original Alignment GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag gaatctgtggggatggcgaagacaatgctgacagtactttgtttccacagGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTTTTTGCTTATATCTCACTCCCGGGGCTGAAAGGCTTCCTGGGGCTTTTTTTC------aggtaaggtggactacatgctgtggggtatacaggtaagcttggacatcatg Alignment from CESAR GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag gaatctgtggggatggcgaagacaatgctgacagtactttgtttccacagGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTTTTTGCTTATATCTCACTCCCGGGGCTGAAAGGCTTCCTGGGGCTTTTTTTC------aggtaaggtggactacatgctgtggggtatacaggtaagcttggacatcatg Alignment from Spaln_aa2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCAT gaatctgtggggatggcgaagacaatgctgacagtactttgtttccacagGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTTTTTGCTTATATCTCACTCCCGGGGCTGAAAGGCTTCCTGGGGCTTTTTTTCAGgtaaggtggactacatgctgtggggtatacaggtaagcttggacatcatg Alignment from Spaln_nt2Genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatctgtggggatggcgaagacaatgctgacagtactttgtttccacagGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTTTTTGCTTATATCTCACTCCCGGGGCTGAAAGGCTTCCTGGGGCTTTTTTTCA-GGTAAGgtggactacatgctgtggggtatacaggtaagcttggacatcatg Alignment from Pairagon GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatctgtggggatggcgaagacaatgctgacagtactttgtttccacagGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTTTTTGCTTATATCTCACTCCCGGGGCTGAAAGGCTTCCTGGGGCTTTTTT------TCAGgtaaggtggactacatgctgtggggtatacaggtaagcttggacatcatg Alignment from Exonerate_protein2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatctgtggggatggcgaagacaatgctgacagtactttgtttccacagGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTTTTTGCTTATATCTCACTCCCGGGGCTGAAAGGCTTCCTGGGGCTTTTTTTC------AGgtaaggtggactacatgctgtggggtatacaggtaagcttggacatcatg Alignment from Exonerate_coding2genome GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatctgtggggatggcgaagacaatgctgacagtactttgtttccacagGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTTTTTGCTTATATCTCACTCCCGGGGCTGAAAGGCTTCCTGGGGCTTTTTTTC------AGgtaaggtggactacatgctgtggggtatacaggtaagcttggacatcatg Alignment from GeneWise GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCAT gaatctgtggggatggcgaagacaatgctgacagtactttgtttccacagGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTTTTTGCTTATATCTCACTCCCGGGGCTGAAAGGCTTCCTGGGGCTTTTTTTCAGgtaaggtggactacatgctgtggggtatacaggtaagcttggacatcatg #### Fads3_ID2663_6 --> 0 - 1 Original Alignment TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------a tctgagcccagagagctgttctccctgggtctgaattatttttttttcagTATGGCAAGAAGAAACGAAGATACCTGCCCTACAATCACCAGCATCTATACTTCTTCCTGTCTCATagtaagtggtaccaacaagcctttgtgggtgggaatctagtggagctagca Alignment from CESAR TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------a tctgagcccagagagctgttctccctgggtctgaattatttttttttcagTATGGCAAGAAGAAACGAAGATACCTGCCCTACAATCACCAGCATCTATACTTCTTCCTGTCTCATagtaagtggtaccaacaagcctttgtgggtgggaatctagtggagctagca Alignment from Spaln_aa2Genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------A tctgagcccagagagctgttctccctgggtctgaattatttttttttcagTATGGCAAGAAGAAACGAAGATACCTGCCCTACAATCACCAGCATCTATACTTCTTCCTGTCTCATAgtaagtggtaccaacaagcctttgtgggtgggaatctagtggagctagca Alignment from Spaln_nt2Genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------A tctgagcccagagagctgttctccctgggtctgaattatttttttttcagTATGGCAAGAAGAAACGAAGATACCTGCCCTACAATCACCAGCATCTATACTTCTTCCTGTCTCATAgtaagtggtaccaacaagcctttgtgggtgggaatctagtggagctagca Alignment from Pairagon TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------A tctgagcccagagagctgttctccctgggtctgaattatttttttttcagTATGGCAAGAAGAAACGAAGATACCTGCCCTACAATCACCAGCATCTATACTTCTTCCTGTCTCATAgtaagtggtaccaacaagcctttgtgggtgggaatctagtggagctagca Alignment from Exonerate_protein2genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCT tctgagcccagagagctgttctccctgggtctgaattatttttttttcagTATGGCAAGAAGAAACGAAGATACCTGCCCTACAATCACCAGCATCTATACTTCTTCCTgtctcatagtaagtggtaccaacaagcctttgtgggtgggaatctagtggagctagca Alignment from Exonerate_coding2genome TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCT tctgagcccagagagctgttctccctgggtctgaattatttttttttcagTATGGCAAGAAGAAACGAAGATACCTGCCCTACAATCACCAGCATCTATACTTCTTCCTgtctcatagtaagtggtaccaacaagcctttgtgggtgggaatctagtggagctagca Alignment from GeneWise TATGGCAAGAAGAAACGCAGATACCTGCCCTACAACCACCAGCATCTATACTTCTTCCTG------A tctgagcccagagagctgttctccctgggtctgaattatttttttttcagTATGGCAAGAAGAAACGAAGATACCTGCCCTACAATCACCAGCATCTATACTTCTTCCTGTCTCATAgtaagtggtaccaacaagcctttgtgggtgggaatctagtggagctagca #### Fads3_ID2665_8 --> 0 - 2 Original Alignment GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag cctgccccccaggtccccagctcagggaattactgtgttttatttgtaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCTTGTCCTACTCACCCTTCTATGGG---------------------------------aggtaagcccaaattcatagtgattgggaattgaagcacgtccctcctgcga Alignment from CESAR GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCag cctgccccccaggtccccagctcagggaattactgtgttttatttgtaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCTTGTCCTACTCACCCTTCTATGGG---------------------------------aggtaagcccaaattcatagtgattgggaattgaagcacgtccctcctgcga Alignment from Spaln_aa2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGC cctgccccccaggtccccagctcagggaattactgtgttttatttgtaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCTTGTCCTACTCACCCTTCTATGGGAGgtaagcccaaattcatagtgattgggaattgaagcacgtccctcctgcga Alignment from Spaln_nt2Genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCC cctgccccccaggtccccagctcagggaattactgtgttttatttgtaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCTTGTCCTACTCACCCTTCTATGG-GAGgtaagcccaaattcatagtgattgggaattgaagcacgtccctcctgcga Alignment from Pairagon GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgccccccaggtccccagctcagggaattactgtgttttatttgtaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCTTGTCCTACTCACCCTTCTATGG---------------------------------GAGgtaagcccaaattcatagtgattgggaattgaagcacgtccctcctgcga Alignment from Exonerate_protein2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgccccccaggtccccagctcagggaattactgtgttttatttgtaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCTTGTCCTACTCACCCTTCTATGGGAGGTAAGCCCAAATTCATAGTGATTGGGAATTGAAgcacgtccctcctgcga Alignment from Exonerate_coding2genome GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGCCACTGGGACACTGCTCCTCTTTGTTGCTGTCAG cctgccccccaggtccccagctcagggaattactgtgttttatttgtaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCTTGTCCTACTCACCCTTCTATGGGAGGTAAGCCCAAATTCATAGTGATTGGGAATTGAAgcacgtccctcctgcga Alignment from GeneWise GACTTGCTGTGGGCTGCCAGTTTCTACTCCCGCTTTTTCTTGTCCTACTCTCCCTTCTATGGTGC cctgccccccaggtccccagctcagggaattactgtgttttatttgtaagGACTTACTGTGGGCTGCCAGTTTCTACACCCACTTTTTCTTGTCCTACTCACCCTTCTATGGGAGgtaagcccaaattcatagtgattgggaattgaagcacgtccctcctgcga #### Fads3_ID2666_9 --> 1 - 0 Original Alignment gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ atggaataaattgaatcaaggatgctgtgctaagtaccttgtcgtttcaggGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGAAAACGgtcagtactggtaagcctgatggaagaacatactagccatggagtgactg Alignment from CESAR gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ atggaataaattgaatcaaggatgctgtgctaagtaccttgtcgtttcaggGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGAAAACGgtcagtactggtaagcctgatggaagaacatactagccatggagtgactg Alignment from Spaln_aa2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ atggaataaattgaatcaaggatgctgtgctaagtaccttgtcgtttcagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGAAAACGgtcagtactggtaagcctgatggaagaacatactagccatggagtgactg Alignment from Spaln_nt2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ atggaataaattgaatcaaggatgctgtgctaagtaccttgtcgtttcagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGAAAACGgtcagtactggtaagcctgatggaagaacatactagccatggagtgactg Alignment from Pairagon GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG---------------- atggaataaattgaatcaaggatgctgtgctaagtaccttgtcgtttcagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGAAAACGGTCAGTACTGgtaagcctgatggaagaacatactagccatggagtgactg Alignment from Exonerate_protein2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaattgaatcaaggatgctgtgctaagtaccttgtcgtttcagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGaaaacggtcagtactggtaagcctgatggaagaacatactagccatggagtgactg Alignment from Exonerate_coding2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaattgaatcaaggatgctgtgctaagtaccttgtcgtttcagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGaaaacggtcagtactggtaagcctgatggaagaacatactagccatggagtgactg Alignment from GeneWise GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG------ atggaataaattgaatcaaggatgctgtgctaagtaccttgtcgtttcagGGTGCTGGAGAGCCACTGGTTTGTGTGGATCACACAGATGAACCACATCCCCAAGAAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAGAAAACGgtcagtactggtaagcctgatggaagaacatactagccatggagtgactg #### Fam160b1_ID12357_8 --> 1 - 0 Original Alignment g---TTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tccctatgtccaaacttgtgtgcctttaaagggttattttctcttgacaggTATTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtgcttgttattatattcatagtgcttgtggttattgagccaaacc Alignment from CESAR g---TTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tccctatgtccaaacttgtgtgcctttaaagggttattttctcttgacaggTATTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtgcttgttattatattcatagtgcttgtggttattgagccaaacc Alignment from Spaln_aa2Genome GTTGGACTCATAC---AGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tccctatgtccaaacttgtgtgcctttaaagggttattttctcttgacagGTATTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtgcttgttattatattcatagtgcttgtggttattgagccaaacc Alignment from Spaln_nt2Genome GTTGGACTCAT---ACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tccctatgtccaaacttgtgtgcctttaaagggttattttctcttgacagGTATTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtgcttgttattatattcatagtgcttgtggttattgagccaaacc Alignment from Pairagon G---TTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tccctatgtccaaacttgtgtgcctttaaagggttattttctcttgacagGTATTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtgcttgttattatattcatagtgcttgtggttattgagccaaacc Alignment from Exonerate_protein2genome G---TTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tccctatgtccaaacttgtgtgcctttaaagggttattttctcttgacagGTATTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtgcttgttattatattcatagtgcttgtggttattgagccaaacc Alignment from Exonerate_coding2genome G---TTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tccctatgtccaaacttgtgtgcctttaaagggttattttctcttgacagGTATTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtgcttgttattatattcatagtgcttgtggttattgagccaaacc Alignment from GeneWise -GGGTTGGACTCATACAGCCATAAAGAAGACGCTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTTCATTTCTTTCCTGGTTCGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAG tccctatgtccaaacttgtgtgcctttaaagggttattttctcttgacagGTATTTGGACTCATACAGCCATAAAGAAGACACTTCGGCGTTCCCGGGGAAGCGGGCCTTAATTGCGTTTCTTTCCTGGTTTGATTACTGTGATCAGCTCATCAAGGAGGCACAAAAGgtgagtgcttgttattatattcatagtgcttgtggttattgagccaaacc #### Fam160b1_ID12358_9 --> 0 - 2 Original Alignment ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAG---ac tcattataccttgggtgttataagtttggttctgtgtctttcgctcatagACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGGTGacgtaattgtcctctcgctttgcaggcaacaaaccatgctgtcccaccccca Alignment from CESAR ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAG---ac tcattataccttgggtgttataagtttggttctgtgtctttcgctcatagACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGGTGacgtaattgtcctctcgctttgcaggcaacaaaccatgctgtacctcccttc Alignment from Spaln_aa2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGACC-- tcattataccttgggtgttataagtttggttctgtgtctttcgctcatagACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGGTGACgtaattgtcctctcgctttgcaggcaacaaaccatgctgtcccaccccca Alignment from Spaln_nt2Genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAG tcattataccttgggtgttataagtttggttctgtgtctttcgctcatagACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGgtgacgtaattgtcctctcgctttgcaggcaacaaaccatgctgtcccaccccca Alignment from Pairagon ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAG------------------------------------------------------- tcattataccttgggtgttataagtttggttctgtgtctttcgctcatagACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGGTGACGTAATTGTCCTCTCGCTTTGCAGGCAACAAACCATGCTGTCCCACCCCCA Alignment from Exonerate_protein2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAG tcattataccttgggtgttataagtttggttctgtgtctttcgctcatagACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGgtgacgtaattgtcctctcgctttgcaggcaacaaaccatgctgtcccaccccca Alignment from Exonerate_coding2genome ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAG tcattataccttgggtgttataagtttggttctgtgtctttcgctcatagACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGgtgacgtaattgtcctctcgctttgcaggcaacaaaccatgctgtcccaccccca Alignment from GeneWise ACTGCTGCTGTTGCTCTCGCCAAAGCCATCCACGAAAGGTTCTTTGTTGGTGTCATGGAACCCCAGCTGATGCAGACC-- tcattataccttgggtgttataagtttggttctgtgtctttcgctcatagACTGCTGCTGTTGCTCTTGCCAAAGCTATCCACAAAAGGTTCTTTGTTGGTGTTATGGAACCCCAGCTGATGCAGGTGACgtaattgtcctctcgctttgcaggcaacaaaccatgctgtcccaccccca #### Fam160b1_ID12360_11 --> 0 - 2 Original Alignment ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCgt ggtgtgcctgactggaaaattcccctcattgctctgtgtcctttccacagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAGAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAAT------------------gtgtgaacgcccactctgtagcacccagccgtcattgcagtggcatctcccc Alignment from CESAR ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCgt ggtgtgcctgactggaaaattcccctcattgctctgtgtcctttccacagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAGAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAAT------------------gtgtgaacgcccactctgtagcacccagccgtcattgcagtggcatctcccc Alignment from Spaln_aa2Genome ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAAC ggtgtgcctgactggaaaattcccctcattgctctgtgtcctttccacagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAGAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATgtgtgaacgcccactctgtagcacccagccgtcattgcagtggcatctcccc Alignment from Spaln_nt2Genome ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT ggtgtgcctgactggaaaattcccctcattgctctgtgtcctttccacagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAGAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGTG-TGAACGC--CCACTCTgtagcacccagccgtcattgcagtggcatctc Alignment from Pairagon ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT ggtgtgcctgactggaaaattcccctcattgctctgtgtcctttccacagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAGAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAA--------------------Tgtgtgaacgcccactctgtagcacccagccgtcattgcagtggcatctcccc Alignment from Exonerate_protein2genome ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGC ggtgtgcctgactggaaaattcccctcattgctctgtgtcctttccacagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAGAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGTGTGAACGCCCACTCTgtagcacccagccgtcattgcagtggcatctcccc Alignment from Exonerate_coding2genome ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGC ggtgtgcctgactggaaaattcccctcattgctctgtgtcctttccacagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAGAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGTGTGAACGCCCACTCTgtagcacccagccgtcattgcagtggcatctcccc Alignment from GeneWise ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGG ggtgtgcctgactggaaaattcccctcattgctctgtgtcctttccacagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAGAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGTgtgaacgcccactctgtagcacccagccgtcattgcagtggcatctcccc #### Fam160b1_ID12361_12 --> 1 - 2 Original Alignment aGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAAC---------ag tgagaaaatatcttagtgagtggtgtgaaatttttttccccctctgaaagaGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCAAAAAACGATGGCAAGACAGAAGTGCATAAAGTGGTCAACATGGACTTGaggtaagtcacttgattatggtgagtgtgtcatgcatctgagctcggctgct Alignment from CESAR aGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAAC---------ag tgagaaaatatcttagtgagtggtgtgaaatttttttccccctctgaaagaGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCAAAAAACGATGGCAAGACAGAAGTGCATAAAGTGGTCAACATGGACTTGaggtaagtcacttgattatggtgagtgtgtcatgcatctgagctcggctgct Alignment from Spaln_aa2Genome AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAACAGT-------- tgagaaaatatcttagtgagtggtgtgaaatttttttccccctctgaaagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCAAAAAACGATGGCAAGACAGAAGTGCATAAAGTGGTCAACATGGACTTGAGgtaagtcacttgattatggtgagtgtgtcatgcatctgagctcggctgct Alignment from Spaln_nt2Genome AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAACA---------G tgagaaaatatcttagtgagtggtgtgaaatttttttccccctctgaaagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCAAAAAACGATGGCAAGACAGAAGTGCATAAAGTGGTCAACATGGACTTGAGgtaagtcacttgattatggtgagtgtgtcatgcatctgagctcggctgct Alignment from Pairagon AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAAC---------AG tgagaaaatatcttagtgagtggtgtgaaatttttttccccctctgaaagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCAAAAAACGATGGCAAGACAGAAGTGCATAAAGTGGTCAACATGGACTTGAGgtaagtcacttgattatggtgagtgtgtcatgcatctgagctcggctgct Alignment from Exonerate_protein2genome AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAACAG tgagaaaatatcttagtgagtggtgtgaaatttttttccccctctgaaagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCAAAAAACGATGGCAAGACAGAAGTGCATAAAGTGGTCAACATggacttgaggtaagtcacttgattatggtgagtgtgtcatgcatctgagctcggctgct Alignment from Exonerate_coding2genome AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAACAG tgagaaaatatcttagtgagtggtgtgaaatttttttccccctctgaaagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCAAAAAACGATGGCAAGACAGAAGTGCATAAAGTGGTCAACATggacttgaggtaagtcacttgattatggtgagtgtgtcatgcatctgagctcggctgct Alignment from GeneWise AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAAC---------AG tgagaaaatatcttagtgagtggtgtgaaatttttttccccctctgaaagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCAAAAAACGATGGCAAGACAGAAGTGCATAAAGTGGTCAACATGGACTTGAGgtaagtcacttgattatggtgagtgtgtcatgcatctgagctcggctgct #### Fau_ID1403_3 --> 2 - 0 Original Alignment gtAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tgtgactctgctacttaacctgaccaaatccctgtctgcttccattccaggt---GTTCATGGCTCCCTCGCTCGGGCTGGAAAAGTAAGAGGCCAGACTCCTAAAgtgagagataggggtgaagtttgttactttccaccacagccaaggaaggc Alignment from CESAR gtAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG agatgtgactctgctacttaacctgaaatccctgtctgcttccattccaggt---GTTCATGGCTCCCTCGCTCGGGCTGGAAAAGTAAGAGGCCAGACTCCTAAAgtgagagataggggtgaagtttgttactttccaccacagccaaggaaggc Alignment from Spaln_aa2Genome GTAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tgtgactctgctacttaacctgaccaaatccctgtctgcttccattccagGT---GTTCATGGCTCCCTCGCTCGGGCTGGAAAAGTAAGAGGCCAGACTCCTAAAgtgagagataggggtgaagtttgttactttccaccacagccaaggaaggc Alignment from Spaln_nt2Genome GTAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tgtgactctgctacttaacctgaccaaatccctgtctgcttccattccagGT---GTTCATGGCTCCCTCGCTCGGGCTGGAAAAGTAAGAGGCCAGACTCCTAAAgtgagagataggggtgaagtttgttactttccaccacagccaaggaaggc Alignment from Pairagon GTAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tgtgactctgctacttaacctgaccaaatccctgtctgcttccattccagGT---GTTCATGGCTCCCTCGCTCGGGCTGGAAAAGTAAGAGGCCAGACTCCTAAAgtgagagataggggtgaagtttgttactttccaccacagccaaggaaggc Alignment from Exonerate_protein2genome GTAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tgtgactctgctacttaacctgaccaaatccctgtctgcttccattccagGT---GTTCATGGCTCCCTCGCTCGGGCTGGAAAAGTAAGAGGCCAGACTCCTAAAgtgagagataggggtgaagtttgttactttccaccacagccaaggaaggc Alignment from Exonerate_coding2genome GTAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tgtgactctgctacttaacctgaccaaatccctgtctgcttccattccagGT---GTTCATGGCTCCCTCGCTCGGGCTGGAAAAGTAAGAGGCCAGACTCCTAAAgtgagagataggggtgaagtttgttactttccaccacagccaaggaaggc Alignment from GeneWise AAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG tgtgactctgctacttaacctgaccaaatccctgtctgcttccattccagGTGTTCATGGCTCCCTCGCTCGGGCTGGAAAAGTAAGAGGCCAGACTCCTAAAgtgagagataggggtgaagtttgttactttccaccacagccaaggaaggc #### Fbxl15_ID9850_2 --> 1 - 0 Original Alignment gCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG caacaggggcttgggggtgcgtccctgttcttttcctttttttccttcaga---------CTGCCTTGGGAAGATGTGCTGCTCCCGCATGTCCTGAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTCGTGCTTTTGGGGCACTTATTCAGCTGCATTTGGCAAGGCTGCGCCGCTTTGATGCTGCTCAGgtaacatggtgattggggatgcccttgtccctgtgctgctttgataccgc Alignment from CESAR gCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG acccacacacaacaggggcttggggtgttcttttcctttttttccttcaga---------CTGCCTTGGGAAGATGTGCTGCTCCCGCATGTCCTGAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTCGTGCTTTTGGGGCACTTATTCAGCTGCATTTGGCAAGGCTGCGCCGCTTTGATGCTGCTCAGgtaacatggtgattggggatgcccttgtccctgtgctgctttgataccgc Alignment from Spaln_aa2Genome GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG caacaggggcttgggggtgcgtccctgttcttttcctttttttccttcagA---------CTGCCTTGGGAAGATGTGCTGCTCCCGCATGTCCTGAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTCGTGCTTTTGGGGCACTTATTCAGCTGCATTTGGCAAGGCTGCGCCGCTTTGATGCTGCTCAGgtaacatggtgattggggatgcccttgtccctgtgctgctttgataccgc Alignment from Spaln_nt2Genome ACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG caacaggggcttgggggtgcgtccctgttcttttcctttttttccttcagA-CTGCCTTGGGAAGATGTGCTGCTCCCGCATGTCCTGAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTCGTGCTTTTGGGGCACTTATTCAGCTGCATTTGGCAAGGCTGCGCCGCTTTGATGCTGCTCAGgtaacatggtgattggggatgcccttgtccctgtgctgctttgataccgc Alignment from Pairagon GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG caacaggggcttgggggtgcgtccctgttcttttcctttttttccttcag---------ACTGCCTTGGGAAGATGTGCTGCTCCCGCATGTCCTGAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTCGTGCTTTTGGGGCACTTATTCAGCTGCATTTGGCAAGGCTGCGCCGCTTTGATGCTGCTCAGgtaacatggtgattggggatgcccttgtccctgtgctgctttgataccgc Alignment from Exonerate_protein2genome CCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG caacaggggcttgggggtgcgtccctgttcttttcctttttttccttcagACTGCCTTGGGAAGATGTGCTGCTCCCGCATGTCCTGAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTCGTGCTTTTGGGGCACTTATTCAGCTGCATTTGGCAAGGCTGCGCCGCTTTGATGCTGCTCAGgtaacatggtgattggggatgcccttgtccctgtgctgctttgataccgc Alignment from Exonerate_coding2genome GACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG caacaggggcttgggggtgcgtccctgttcttttcctttttttccttcagA--CTGCCTTGGGAAGATGTGCTGCTCCCGCATGTCCTGAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTCGTGCTTTTGGGGCACTTATTCAGCTGCATTTGGCAAGGCTGCGCCGCTTTGATGCTGCTCAGgtaacatggtgattggggatgcccttgtccctgtgctgctttgataccgc Alignment from GeneWise GCTCCTGGACCTGCCCTGGGAAGACGTGCTGCTCCCGCACGTCCTGAACTGGGTCCCGCTGCGCCAGCTGCTCCGGCTGCAGCGCGTCAGTCGCGCCTTCCGGGCGCTCGTTCAGCTGCACTTGGCGAGGCTGCGCCGCTTCGACGCCGCTCAG caacaggggcttgggggtgcgtccctgttcttttcctttttttccttcagACTG---------CCTTGGGAAGATGTGCTGCTCCCGCATGTCCTGAACTGGGTCCCACTGCGTCAACTGCTCCGGCTGCAGCGGGTCAGTCGTGCTTTTGGGGCACTTATTCAGCTGCATTTGGCAAGGCTGCGCCGCTTTGATGCTGCTCAGgtaacatggtgattggggatgcccttgtccctgtgctgctttgataccgc #### Fgf8_ID9566_3 --> 0 - 0 Original Alignment ------------GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggagtggtacatcctatcattgcctatagCACTACCAACAAGGAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAAgtgcagtcggactctctcatgcctgggtttgtctatccattccgggcttg Alignment from CESAR ------------GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggagtggtacatcctatcattgcctatagCACTACCAACAAGGAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAAgtgcagtcggactctctcatgcctgggtttgtctatccattccgggcttg Alignment from Spaln_aa2Genome GCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggagtggtacatcctatcattgcctatagcactaccaacaaggagGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAAgtgcagtcggactctctcatgcctgggtttgtctatccattccgggcttg Alignment from Spaln_nt2Genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggagtggtacatcctatcattgcctatagcactaccaacaagGAGGCCCAGGTGGG-GGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAAgtgcagtcggactctctcatgcctgggtttgtctatccattccgggcttg Alignment from Pairagon ------------GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggagtggtacatcctatcattgcctatagCACTACCAACAAGGAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAAgtgcagtcggactctctcatgcctgggtttgtctatccattccgggcttg Alignment from Exonerate_protein2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggagtggtacatcctatcattgcctatagcactaccaacaaGGAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAAgtgcagtcggactctctcatgcctgggtttgtctatccattccgggcttg Alignment from Exonerate_coding2genome GAAGGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggagtggtacatcctatcattgcctatagcactaccaacaaGGAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAAgtgcagtcggactctctcatgcctgggtttgtctatccattccgggcttg Alignment from GeneWise --GGCCCGGGCGGGGGGCCTGCGCTGGGCAGGGAGCCCACTTCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAG cttataagtctcatgagtcagggagtggtacatcctatcattgcctatagcactaccaacaagGAGGCCCAGGTGGGGGGCCTGCGCTGGGCAGGGAGCCCACATCCCTGCTCCGAGCTGGCCGGGAGCCCCAGGGTGTTTCCCAACAAgtgcagtcggactctctcatgcctgggtttgtctatccattccgggcttg #### Fgf8_ID9567_2 --> 1 - 0 Original Alignment gCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCCAG tctgcttcttgagcctcttcccagttctagtttcctgtgcatctcctcagg------CAATTGTTGGTTTTCTGCCTCCAAGCCCAGgtaccaagtgcactcaagtaaggagtgaaaagcgggaagcatagggacag Alignment from CESAR gCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCCAG gccccatctgcttcttgagcctctttctagtttcctgtgcatctcctcagg------CAATTGTTGGTTTTCTGCCTCCAAGCCCAGgtaccaagtgcactcaagtaaggagtgaaaagcgggaagcatagggacag Alignment from Spaln_aa2Genome GCACTTGCTGGTTCTCTGCCTCCAAGCCCAG tctgcttcttgagcctcttcccagttctagtttcctgtgcatctcctcagGCAATTGTTGGTTTTCTGCCTCCAAGCCCAGgtaccaagtgcactcaagtaaggagtgaaaagcgggaagcatagggacag Alignment from Spaln_nt2Genome GCACTTGCTGGTTCTCTGCCTCCAAGCCCAG tctgcttcttgagcctcttcccagttctagtttcctgtgcatctcctcagGCAATTGTTGGTTTTCTGCCTCCAAGCCCAGgtaccaagtgcactcaagtaaggagtgaaaagcgggaagcatagggacag Alignment from Pairagon GCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCCAG tctgcttcttgagcctcttcccagttctagtttcctgtgcatctcctcag------GCAATTGTTGGTTTTCTGCCTCCAAGCCCAGgtaccaagtgcactcaagtaaggagtgaaaagcgggaagcatagggacag Alignment from Exonerate_protein2genome CTGCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCCAG tctgcttcttgagcctcttcccagttctagtttcctgtgcatCTCCTCAGGCAATTGTTGGTTTTCTGCCTCCAAGCCCAGgtaccaagtgcactcaagtaaggagtgaaaagcgggaagcatagggacag Alignment from Exonerate_coding2genome CTGCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCCAG tctgcttcttgagcctcttcccagttctagtttcctgtgcatCTCCTCAGGCAATTGTTGGTTTTCTGCCTCCAAGCCCAGgtaccaagtgcactcaagtaaggagtgaaaagcgggaagcatagggacag Alignment from GeneWise tctgcttcttgagcctcttcccagttctagtttcctgtgcatctcctcaggcaattgttggttttctgcctccaagcccaggtaccaagtgcactcaagtaaggagtgaaaagcgggaagcatagggacag #### Fibp_ID1005_2 --> 2 - 2 Original Alignment tgAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGag gggggccctctagggttttacttgatatgcttttatgttaactcttccagtg------GCAGTGGCTCTTCGTGTGCGTTCTGGCATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTCCAGAGTGACACAATGGATCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATCCGCCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGATTCCTCCTGCCCGCCAGACACTCCTCATCGAAaggtaaggaacagggtggttggtggggtgggtactggcaggggtgtcatcag Alignment from CESAR tgAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGag acatccgggggccctctagggtttttatgcttttatgttaactcttccagtg------GCAGTGGCTCTTCGTGTGCGTTCTGGCATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTCCAGAGTGACACAATGGATCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATCCGCCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGATTCCTCCTGCCCGCCAGACACTCCTCATCGAAaggtaaggaacagggtggttggtggggtgggtactggcaggggtgtcatcag Alignment from Spaln_aa2Genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG gggggccctctagggttttacttgatatgcttttatgttaactcttccagTG------GCAGTGGCTCTTCGTGTGCGTTCTGGCATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTCCAGAGTGACACAATGGATCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATCCGCCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGATTCCTCCTGCCCGCCAGACACTCCTCATCGAAAGgtaaggaacagggtggttggtggggtgggtactggcaggggtgtcatcag Alignment from Spaln_nt2Genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG gggggccctctagggttttacttgatatgcttttatgttaactcttccagTG------GCAGTGGCTCTTCGTGTGCGTTCTGGCATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTCCAGAGTGACACAATGGATCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATCCGCCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGATTCCTCCTGCCCGCCAGACACTCCTCATCGAAAGgtaaggaacagggtggttggtggggtgggtactggcaggggtgtcatcag Alignment from Pairagon TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG gggggccctctagggttttacttgatatgcttttatgttaactcttccagTG------GCAGTGGCTCTTCGTGTGCGTTCTGGCATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTCCAGAGTGACACAATGGATCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATCCGCCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGATTCCTCCTGCCCGCCAGACACTCCTCATCGAAAGgtaaggaacagggtggttggtggggtgggtactggcaggggtgtcatcag Alignment from Exonerate_protein2genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG gggggccctctagggttttacttgatatgcttttatgttaactcTTCCAGTGGCAGTGGCTCTTCGTGTGCGTTCTGGCATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTCCAGAGTGACACAATGGATCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATCCGCCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGATTCCTCCTGCCCGCCAGACACTCCTCATCGAAAGgtaaggaacagggtggttggtggggtgggtactggcaggggtgtcatcag Alignment from Exonerate_coding2genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG gggggccctctagggttttacttgatatgcttttatgttaactcTTCCAGTGGCAGTGGCTCTTCGTGTGCGTTCTGGCATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTCCAGAGTGACACAATGGATCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATCCGCCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGATTCCTCCTGCCCGCCAGACACTCCTCATCGAAAGgtaaggaacagggtggttggtggggtgggtactggcaggggtgtcatcag Alignment from GeneWise TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG gggggccctctagggttttacttgatatgcttttatgttaactcttccagTG------GCAGTGGCTCTTCGTGTGCGTTCTGGCATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTCCAGAGTGACACAATGGATCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATCCGCCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGATTCCTCCTGCCCGCCAGACACTCCTCATCGAAAGgtaaggaacagggtggttggtggggtgggtactggcaggggtgtcatcag #### Fibp_ID1010_7 --> 1 - 0 Original Alignment c---CTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cataggatacaacacacagtttatagacgttggcaacagggcagctgcagcGATCTGGTGTGCACTGCCCTTCGGGGAAAGCTCGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtaagtcgacttggcagtcagagccctctgcccagatcaccaagtgactt Alignment from CESAR c---CTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cataggatacaacacacagtttatagacgttggcaacagggcagctgcagcGATCTGGTGTGCACTGCCCTTCGGGGAAAGCTCGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtaagtcgacttggcagtcagagccctctgcccagatcaccaagtgactt Alignment from Spaln_aa2Genome C---CTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAA cataggatacaacacacagtttatagacgttggcaacagggcagctgcagCGATCTGGTGTGCACTGCCCTTCGGGGAAAGCTCGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtaagtcgacttggcagtcagagccctctgcccagatcaccaagtgactt Alignment from Spaln_nt2Genome CCTGGTGTGC---ACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cataggatacaacacacagtttatagacgttggcaacagggcagctgcagCGATCTGGTGTGCACTGCCCTTCGGGGAAAGCTCGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtaagtcgacttggcagtcagagccctctgcccagatcaccaagtgactt Alignment from Pairagon C---CTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cataggatacaacacacagtttatagacgttggcaacagggcagctgcagCGATCTGGTGTGCACTGCCCTTCGGGGAAAGCTCGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtaagtcgacttggcagtcagagccctctgcccagatcaccaagtgactt Alignment from Exonerate_protein2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cataggatacaacacacagtttatagacgttggcaacagggcagctgcagcgaTCTGGTGTGCACTGCCCTTCGGGGAAAGCTCGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtaagtcgacttggcagtcagagccctctgcccagatcaccaagtgactt Alignment from Exonerate_coding2genome CCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cataggatacaacacacagtttatagacgttggcaacagggcagctgcagcgaTCTGGTGTGCACTGCCCTTCGGGGAAAGCTCGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtaagtcgacttggcagtcagagccctctgcccagatcaccaagtgactt Alignment from GeneWise -AGCCTGGTGTGCACTGCCCTCCGGGGAAAGCTGGGTGTCTTCTCTGAGATGGAAACCAACTTCAAG cataggatacaacacacagtttatagacgttggcaacagggcagctgcagCGATCTGGTGTGCACTGCCCTTCGGGGAAAGCTCGGTGTCTTCTCTGAGATGGAAACCAACTTCAAGgtaagtcgacttggcagtcagagccctctgcccagatcaccaagtgactt #### Fibp_ID1011_8 --> 0 - 0 Original Alignment ---------AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG agcccccactctaagagcaggaggcagagcacttctctctctttcggcagACACAACCCAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGACTTATTTGTGGACCTTGTGGAGAAGgtgagcagtgcttagatgtgggacagcctggggaccgggggcagggacag Alignment from CESAR ---------AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG agcccccactctaagagcaggaggcagagcacttctctctctttcggcagACACAACCCAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGACTTATTTGTGGACCTTGTGGAGAAGgtgagcagtgcttagatgtgggacagcctggggaccgggggcagggacag Alignment from Spaln_aa2Genome AATCTGTCTCGGGGG---------CTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG agcccccactctaagagcaggaggcagagcacttctctctctttcggcagACACAACCCAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGACTTATTTGTGGACCTTGTGGAGAAGgtgagcagtgcttagatgtgggacagcctggggaccgggggcagggacag Alignment from Spaln_nt2Genome AATCTGTCT---------CGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG agcccccactctaagagcaggaggcagagcacttctctctctttcggcagACACAACCCAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGACTTATTTGTGGACCTTGTGGAGAAGgtgagcagtgcttagatgtgggacagcctggggaccgggggcagggacag Alignment from Pairagon ---------AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG agcccccactctaagagcaggaggcagagcacttctctctctttcggcagACACAACCCAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGACTTATTTGTGGACCTTGTGGAGAAGgtgagcagtgcttagatgtgggacagcctggggaccgggggcagggacag Alignment from Exonerate_protein2genome ---------AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG agcccccactctaagagcaggaggcagagcacttctctctctttcggcagACACAACCCAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGACTTATTTGTGGACCTTGTGGAGAAGgtgagcagtgcttagatgtgggacagcctggggaccgggggcagggacag Alignment from Exonerate_coding2genome ---------AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG agcccccactctaagagcaggaggcagagcacttctctctctttcggcagACACAACCCAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGACTTATTTGTGGACCTTGTGGAGAAGgtgagcagtgcttagatgtgggacagcctggggaccgggggcagggacag Alignment from GeneWise ---------AATCTGTCTCGGGGGCTGGTGAACGTGGCTGCCAAGCTGACCCACAATAAGGATGTCAGAGACCTATTTGTGGACCTCGTGGAGAAG agcccccactctaagagcaggaggcagagcacttctctctctttcggcagACACAACCCAATCTGTCTAGGGGTCTGGTGAATGTGGCTGCCAAG------CACAATAAGGATGTCAGAGACTTATTTGTGGACCTTGTGGAGAAGgtgagcagtgcttagatgtgggacagcctggggaccgggggcagggacag #### Fibp_ID1012_9 --> 0 - 2 Original Alignment TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCcg caggactgcttgtggtgacttttttttttttcctatttctgaatattaag---------CCATGCCGCTCCGACCACTGGCCACTGAGTGATGTGCGGCTCTTTCTCAGCCAGTATTCAGTGTCAGTCCATTCCCTGGATGGCTTCcggtaagaagtgctaagcatgcttgctagcttccttggcctccttgaggctc Alignment from CESAR TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCcg agttgagcacaggactgcttgtggtttttttcctatttctgaatattaag---------CCATGCCGCTCCGACCACTGGCCACTGAGTGATGTGCGGCTCTTTCTCAGCCAGTATTCAGTGTCAGTCCATTCCCTGGATGGCTTCcggtaagaagtgctaagcatgcttgctagcttccttggcctccttgaggctc Alignment from Spaln_aa2Genome TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG caggactgcttgtggtgacttttttttttttcctatttctgaatattaag---------CCATGCCGCTCCGACCACTGGCCACTGAGTGATGTGCGGCTCTTTCTCAGCCAGTATTCAGTGTCAGTCCATTCCCTGGATGGCTTCCGgtaagaagtgctaagcatgcttgctagcttccttggcctccttgaggctc Alignment from Spaln_nt2Genome CCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG caggactgcttgtggtgacttttttttttttcctatttctgaatattaagCCATGCCGCTCCGACCACTGGCCACTGAGTGATGTGCGGCTCTTTCTCAGCCAGTATTCAGTGTCAGTCCATTCCCTGGATGGCTTCCGgtaagaagtgctaagcatgcttgctagcttccttggcctccttgaggctc Alignment from Pairagon TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG caggactgcttgtggtgacttttttttttttcctatttctgaatattaag---------CCATGCCGCTCCGACCACTGGCCACTGAGTGATGTGCGGCTCTTTCTCAGCCAGTATTCAGTGTCAGTCCATTCCCTGGATGGCTTCCGgtaagaagtgctaagcatgcttgctagcttccttggcctccttgaggctc Alignment from Exonerate_protein2genome TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG caggactgcttgtggtgacttttttttttttcctatttctgAATATTAAGCCATGCCGCTCCGACCACTGGCCACTGAGTGATGTGCGGCTCTTTCTCAGCCAGTATTCAGTGTCAGTCCATTCCCTGGATGGCTTCCGgtaagaagtgctaagcatgcttgctagcttccttggcctccttgaggctc Alignment from Exonerate_coding2genome TTTGTGGAACCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG caggactgcttgtggtgacttttttttttttcctatttctgAATATTAAGCCATGCCGCTCCGACCACTGGCCACTGAGTGATGTGCGGCTCTTTCTCAGCCAGTATTCAGTGTCAGTCCATTCCCTGGATGGCTTCCGgtaagaagtgctaagcatgcttgctagcttccttggcctccttgaggctc Alignment from GeneWise CCCTGCCGCTCTGACCACTGGCCACTGAGTGATGTGCGGCTCTTCCTCAGCCAGTATTCAGCGTCAGTCCACTCCCTGGATGGCTTCCG caggactgcttgtggtgacttttttttttttcctatttctgaatattaagCCATGCCGCTCCGACCACTGGCCACTGAGTGATGTGCGGCTCTTTCTCAGCCAGTATTCAGTGTCAGTCCATTCCCTGGATGGCTTCCGgtaagaagtgctaagcatgcttgctagcttccttggcctccttgaggctc #### Fkbp2_ID1946_3 --> 1 - 1 Original Alignment g------ATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGg ttggccgttggtctgggcgtttcaggtgatctgctacttttcatccttaggGAATTTATGTGTGAAGGAGAAAGGCGGAAGTTGGTCATCCCGTCAGAGCTGggtaggtgagcatggtggttagaaggtaattggatctggagagggcttaaa Alignment from CESAR g------ATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGg ttggccgttggtctgggcgtttcaggtgatctgctacttttcatccttaggGAATTTATGTGTGAAGGAGAAAGGCGGAAGTTGGTCATCCCGTCAGAGCTGggtaggtgagcatggtggttagaaggtaattggatctggagagggcttaaa Alignment from Spaln_aa2Genome GATGTGTGAA------GGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG ttggccgttggtctgggcgtttcaggtgatctgctacttttcatccttagGGAATTTATGTGTGAAGGAGAAAGGCGGAAGTTGGTCATCCCGTCAGAGCTGGgtaggtgagcatggtggttagaaggtaattggatctggagagggcttaaa Alignment from Spaln_nt2Genome GATGTGTGAA------GGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG ttggccgttggtctgggcgtttcaggtgatctgctacttttcatccttagGGAATTTATGTGTGAAGGAGAAAGGCGGAAGTTGGTCATCCCGTCAGAGCTGGgtaggtgagcatggtggttagaaggtaattggatctggagagggcttaaa Alignment from Pairagon G------ATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG ttggccgttggtctgggcgtttcaggtgatctgctacttttcatccttagGGAATTTATGTGTGAAGGAGAAAGGCGGAAGTTGGTCATCCCGTCAGAGCTGGgtaggtgagcatggtggttagaaggtaattggatctggagagggcttaaa Alignment from Exonerate_protein2genome G------ATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG ttggccgttggtctgggcgtttcaggtgatctgctacttttcatccttagGGAATTTATGTGTGAAGGAGAAAGGCGGAAGTTGGTCATCCCGTCAGAGCTGGgtaggtgagcatggtggttagaaggtaattggatctggagagggcttaaa Alignment from Exonerate_coding2genome G------ATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG ttggccgttggtctgggcgtttcaggtgatctgctacttttcatccttagGGAATTTATGTGTGAAGGAGAAAGGCGGAAGTTGGTCATCCCGTCAGAGCTGGgtaggtgagcatggtggttagaaggtaattggatctggagagggcttaaa Alignment from GeneWise ----GGGATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG ttggccgttggtctgggcgtttcaggtgatctgctacttttcatccttagGGAATTTATGTGTGAAGGAGAAAGGCGGAAGTTGGTCATCCCGTCAGAGCTGGgtaggtgagcatggtggttagaaggtaattggatctggagagggcttaaa #### Ganab_ID2469_8 --> 0 - 1 Original Alignment ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg ggggagagatacctgaggtgtaagtggggtatctgtctcactgcctgcagGTGCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtacaagattgggcaagaccaaagagaagtgcgtctcttgtatttaatgt Alignment from CESAR ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg ggggagagatacctgaggtgtaagtggggtatctgtctcactgcctgcagGTGCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtacaagattgggcaagaccaaagagaagtgcagacgacctaatgtttct Alignment from Spaln_aa2Genome CCAGAGGAG---ACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggggagagatacctgaggtgtaagtggggtatctgtctcactgcctgcagGTGCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtacaagattgggcaagaccaaagagaagtgcgtctcttgtatttaatgt Alignment from Spaln_nt2Genome GCCAGAGGAG--ACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggggagagatacctgaggtgtaagtggggtatctgtctcactgcctgcagGTGCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtacaagattgggcaagaccaaagagaagtgcgtctcttgtatttaatgt Alignment from Pairagon ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggggagagatacctgaggtgtaagtggggtatctgtctcactgcctgcagGTGCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtacaagattgggcaagaccaaagagaagtgcgtctcttgtatttaatgt Alignment from Exonerate_protein2genome ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggggagagatacctgaggtgtaagtggggtatctgtctcactgcctgcagGTGCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtacaagattgggcaagaccaaagagaagtgcgtctcttgtatttaatgt Alignment from Exonerate_coding2genome ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggggagagatacctgaggtgtaagtggggtatctgtctcactgcctgcagGTGCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtacaagattgggcaagaccaaagagaagtgcgtctcttgtatttaatgt Alignment from GeneWise ---CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggggagagatacctgaggtgtaagtggggtatctgtctcactgcctgcagGTGCCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtacaagattgggcaagaccaaagagaagtgcgtctcttgtatttaatgt #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG tattaagttttgcacttttaccagcctgcctgacagcactgtcttcctagggACCCAGGCCTTGCCCCCACCCTCATCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGG---gtaggtagggggtgctgtagctgtgagggtgccttttgtacagtgttggg Alignment from CESAR ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG tattaagttttgcacttttaccagcctgcctgacagcactgtcttcctagggACCCAGGCCTTGCCCCCACCCTCATCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGG---gtaggtagggggtgctgtagctgtgagggtgccttttgtacagtgtt Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGG tattaagttttgcacttttaccagcctgcctgacagcactgtcttcctagGGACCCAGGCCTTGCCCCCACCCTCATCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGgtaggtagggggtgctgtagctgtgagggtgccttttgtacagtgttggg Alignment from Spaln_nt2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGA-AG tattaagttttgcacttttaccagcctgcctgacagcactgtcttcctagGGACCCAGGCCTTGCCCCCACCCTCATCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGGTAGgtagggggtgctgtagctgtgagggtgccttttgtacagtgttggg Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGG tattaagttttgcacttttaccagcctgcctgacagcactgtcttcctagGGACCCAGGCCTTGCCCCCACCCTCATCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGgtaggtagggggtgctgtagctgtgagggtgccttttgtacagtgttggg Alignment from Exonerate_protein2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG tattaagttttgcacttttaccagcctgcctgacagcactgtcttcctagGGACCCAGGCCTTGCCCCCACCCTCATCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGG---gtaggtagggggtgctgtagctgtgagggtgccttttgtacagtgtt Alignment from Exonerate_coding2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG tattaagttttgcacttttaccagcctgcctgacagcactgtcttcctagGGACCCAGGCCTTGCCCCCACCCTCATCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGG---gtaggtagggggtgctgtagctgtgagggtgccttttgtacagtgtt Alignment from GeneWise GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGG-------------------------------------------------- tattaagttttgcacttttaccagcctgcctgacagcactgtcttcctagGGACCCAGGCCTTGCCCCCACCCTCATCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCAGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTTATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGGTAGGTAGGGGGTGCTGTAGCTGTGAGGGTGCCTTTTGTACAGTGTTGGG #### Ganab_ID2483_22 --> 0 - 0 Original Alignment ---ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatgcttggaaggcatgaaggaggctttttattttgttttttttcctagCTCATCCCCGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAGgtaaagatccagtggatgagggctgacttaattattgactgtcctttacg Alignment from CESAR ---ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatgcttggaaggcatgaaggaggctttttattttgttttttttcctagCTCATCCCCGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAGgtaaagatccagtggatgagggctgacttaattattgactgtcctttacg Alignment from Spaln_aa2Genome ATCCCCGTGTTC---CAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatgcttggaaggcatgaaggaggctttttattttgttttttttcctagCTCATCCCCGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAGgtaaagatccagtggatgagggctgacttaattattgactgtcctttacg Alignment from Spaln_nt2Genome ATCCCCGTG---TTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatgcttggaaggcatgaaggaggctttttattttgttttttttcctagCTCATCCCCGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAGgtaaagatccagtggatgagggctgacttaattattgactgtcctttacg Alignment from Pairagon ---ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatgcttggaaggcatgaaggaggctttttattttgttttttttcctagCTCATCCCCGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAGgtaaagatccagtggatgagggctgacttaattattgactgtcctttacg Alignment from Exonerate_protein2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatgcttggaaggcatgaaggaggctttttattttgttttttttcctagctcATCCCCGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAGgtaaagatccagtggatgagggctgacttaattattgactgtcctttacg Alignment from Exonerate_coding2genome ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatgcttggaaggcatgaaggaggctttttattttgttttttttcctagctcATCCCCGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAGgtaaagatccagtggatgagggctgacttaattattgactgtcctttacg Alignment from GeneWise ---ATCCCCGTGTTCCAGCGTGGCGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCTCTTCAGACTGTATGAAGGACGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAG gtatgcttggaaggcatgaaggaggctttttattttgttttttttcctagCTCATCCCCGTGTTCCAGCGTGGTGGAACCATTGTGCCTCGATGGATGCGTGTGAGGCGCCCTTCAGACTGTATGAAGGATGATCCTATCACTCTCTTTGTTGCTCTCAGTCCCCAGgtaaagatccagtggatgagggctgacttaattattgactgtcctttacg #### Gbf1_ID9796_15 --> 2 - 1 Original Alignment ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg cataagttttcggtcagtcgggctcctcacagtattcactgtccccacagct---------ACCAGTGATGGGAAATCCACGGGGGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGGTGGTTGTCAACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCGGGTGACTCTAGTagtgccaatgtccagtgtattgactctaactgaacctcccagtcccctcaa Alignment from CESAR ctGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGg atcaccagccataagttttcggtcactcacagtattcactgtccccacagct---------ACCAGTGATGGGAAATCCACGGGGGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGGTGGTTGTCAACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCGGGTGACTCTAGTagtgccaatgtccagtgtattgactctaactgaacctcccagtcccctcaa Alignment from Spaln_aa2Genome TCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG tcggtcagtcgggctcctcacagtattcactgtccccaca gCTACCAGTGATGGGAAATCCACGGGGGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGGTGGTTGTCAACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCGGGTGACTCTAGTAgtgccaatgtccagtgtattgactctaactgaacctcccagtcccctcaa Alignment from Spaln_nt2Genome CAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cataagttttcggtcagtcgggctcctcacagtattcactgtccccacagCTACCAGTGATGGGAAATCCACGGGGGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGGTGGTTGTCAACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCGGGTGACTCTAGTAgtgccaatgtccagtgtattgactctaactgaacctcccagtcccctcaa Alignment from Pairagon CTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cataagttttcggtcagtcgggctcctcacagtattcactgtccccacagCT---------ACCAGTGATGGGAAATCCACGGGGGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGGTGGTTGTCAACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCGGGTGACTCTAGTAgtgccaatgtccagtgtattgactctaactgaacctcccagtcccctcaa Alignment from Exonerate_protein2genome CAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cataagttttcggtcagtcgggctcctcacagtattcactgtccccacagCTACCAGTGATGGGAAATCCACGGGGGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGGTGGTTGTCAACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCGGGTGACTCTAGTAgtgccaatgtccagtgtattgactctaactgaacctcccagtcccctcaa Alignment from Exonerate_coding2genome CAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cataagttttcggtcagtcgggctcctcacagtattcactgtccccacagCTACCAGTGATGGGAAATCCACGGGGGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGGTGGTTGTCAACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCGGGTGACTCTAGTAgtgccaatgtccagtgtattgactctaactgaacctcccagtcccctcaa Alignment from GeneWise --------TCTGAGAGAGCAACCAGTGATGGGAAATCCACAGGTGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGATGGTTGTCAACAGAACATGGAAAGCCAGGGTGCAGAGATCTGGAGGAAGCTGGTGACTCTGGGG cataagttttcggtcagtcgggctcctcacagTATTCACTGTCCCCACAGCTACCAGTGATGGGAAATCCACGGGGGTGGCCTTAGATGCCCGAGGCCTTCATTTTCCAAGTGGAGGGTGGTTGTCAACTGACCATGGAAAGCCAGGGTGCAGAGACCTAGAGGAAGCGGGTGACTCTAGTAgtgccaatgtccagtgtattgactctaactgaacctcccagtcccctcaa #### Gbf1_ID9797_16 --> 2 - 0 Original Alignment ctGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG tcagcaactgtaaaacattttgtgtattcttgtcctcttctttgtaatagctGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAATTAATTGAAATTAAA------------gtgagtgaagtggcgaatgactgtaatccatatggacctcaagtggtttg Alignment from CESAR ctGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG tcagcaactgtaaaacattttgtgtattcttgtcctcttctttgtaatagctGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAATTAATTGAAATTAAA------------gtgagtgaagtggcgaatgactgtaatccatatggacc Alignment from Spaln_aa2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG tcagcaactgtaaaacattttgtgtattcttgtcctcttctttgtaatagCTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAATTAATTGAAATTAAAGTGAGTGAAGTGgcgaatgactgtaatccatatggacctcaagtggtttg Alignment from Spaln_nt2Genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAA tcagcaactgtaaaacattttgtgtattcttgtcctcttctttgtaatagCTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAATTAATTGAAATTAAAgtgagtgaagtggcgaatgactgtaatccatatggacctcaagtggtttg Alignment from Pairagon CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAA tcagcaactgtaaaacattttgtgtattcttgtcctcttctttgtaatagCTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAATTAATTGAAATTAAAgtgagtgaagtggcgaatgactgtaatccatatggacctcaagtggtttg Alignment from Exonerate_protein2genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG tcagcaactgtaaaacattttgtgtattcttgtcctcttctttgtaatagCTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAATTAATTGAAATTAAAGTGAGTGAAGTGgcgaatgactgtaatccatatggacctcaagtggtttg Alignment from Exonerate_coding2genome CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG tcagcaactgtaaaacattttgtgtattcttgtcctcttctttgtaatagCTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAATTAATTGAAATTAAAGTGAGTGAAGTGgcgaatgactgtaatccatatggacctcaagtggtttg Alignment from GeneWise CTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTTCTGCCAGATCCACGGGAACTAATTGAAATTAAAAACAAAAAAAAG tcagcaactgtaaaacattttgtgtattcttgtcctcttctttgtaatagCTGACAAAAAGTTCACCAGGAAGCCACCTCGATTTTCCTGTCTCCTGCCAGATCCATGGGAATTAATTGAAATTAAA---GTGAGTGAAgtggcgaatgactgtaatccatatggacctcaagtggt #### Gbf1_ID9799_18 --> 1 - 0 Original Alignment cACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- ctgttcattgtttcaaacctccgcaagttttgctcatcttctccatctagtACCTTCAGCTTTCAAGGCCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGATTgtatgaaacactggagaattaattgtaatgtaagaaacactagcacagaa Alignment from CESAR cACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- ctgttcattgtttcaaacctccgcaagttttgctcatcttctccatctagtACCTTCAGCTTTCAAGGCCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGATTgtatgaaacactggagaattaattgtaatgtaagaaacactagcacagaa Alignment from Spaln_aa2Genome CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- ctgttcattgtttcaaacctccgcaagttttgctcatcttctccatctagTACCTTCAGCTTTCAAGGCCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGATTgtatgaaacactggagaattaattgtaatgtaagaaacactagcacagaa Alignment from Spaln_nt2Genome CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- ctgttcattgtttcaaacctccgcaagttttgctcatcttctccatctagTACCTTCAGCTTTCAAGGCCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGATTgtatgaaacactggagaattaattgtaatgtaagaaacactagcacagaa Alignment from Pairagon CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG--- ctgttcattgtttcaaacctccgcaagttttgctcatcttctccatctagTACCTTCAGCTTTCAAGGCCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGATTgtatgaaacactggagaattaattgtaatgtaagaaacactagcacagaa Alignment from Exonerate_protein2genome CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttgctcatcttctccatctagTACCTTCAGCTTTCAAGGCCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGattgtatgaaacactggagaattaattgtaatgtaagaaacactagcacagaa Alignment from Exonerate_coding2genome CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGG ctgttcattgtttcaaacctccgcaagttttgctcatcttctccatctagTACCTTCAGCTTTCAAGGCCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGattgtatgaaacactggagaattaattgtaatgtaagaaacactagcacagaa Alignment from GeneWise CACCTTCAGCTTTCAGGGTCTGCGGCTTGATGAAGCTCTCCGACTCTACCTGGAAGCCTTCCGTTTGCCTGGGGAAGCACCCGTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGAGT ctgttcattgtttcaaacctccgcaagttttgctcatcttctccatctagTACCTTCAGCTTTCAAGGCCTGCGGCTTGATGAAGCTCTTCGACTCTACCTTGAAGCCTTCCGTTTGCCTGGGGAAGCCCCCCTTATTCACAGGTTGCTGGAGGTATTCACTGAGCACTGGAGGATTgtatgaaacactggagaattaattgtaatgtaagaaacactagcacagaa #### Gbf1_ID9805_24 --> 0 - 2 Original Alignment GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAAC------cg agcgcactcaggactgagccatttgtcatgttgtggtcatatgtccacagGTAGAAGATTTTGTGGACCCCAATGGCAAGATCTCTTTACAGCGTGAGGAGACACCATCTAACGGGGCTcggtgagggccgactaatcattaagagcctagagaaaagtagttgtagtaag Alignment from CESAR GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAAC------cg agcgcactcaggactgagccatttgtcatgttgtggtcatatgtccacagGTAGAAGATTTTGTGGACCCCAATGGCAAGATCTCTTTACAGCGTGAGGAGACACCATCTAACGGGGCTcggtgagggccgactaatcattaagagcctagagaaaagtagttgtagtaag Alignment from Spaln_aa2Genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCGA----- agcgcactcaggactgagccatttgtcatgttgtggtcatatgtccacagGTAGAAGATTTTGTGGACCCCAATGGCAAGATCTCTTTACAGCGTGAGGAGACACCATCTAACGGGGCTCGgtgagggccgactaatcattaagagcctagagaaaagtagttgtagtaag Alignment from Spaln_nt2Genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAAC------CG agcgcactcaggactgagccatttgtcatgttgtggtcatatgtccacagGTAGAAGATTTTGTGGACCCCAATGGCAAGATCTCTTTACAGCGTGAGGAGACACCATCTAACGGGGCTCGgtgagggccgactaatcattaagagcctagagaaaagtagttgtagtaag Alignment from Pairagon GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAAC------CG agcgcactcaggactgagccatttgtcatgttgtggtcatatgtccacagGTAGAAGATTTTGTGGACCCCAATGGCAAGATCTCTTTACAGCGTGAGGAGACACCATCTAACGGGGCTCGgtgagggccgactaatcattaagagcctagagaaaagtagttgtagtaag Alignment from Exonerate_protein2genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCGAG agcgcactcaggactgagccatttgtcatgttgtggtcatatgtccacagGTAGAAGATTTTGTGGACCCCAATGGCAAGATCTCTTTACAGCGTGAGGAGACACCATCTAACGGGGctcggtgagggccgactaatcattaagagcctagagaaaagtagttgtagtaag Alignment from Exonerate_coding2genome GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAACCGAG agcgcactcaggactgagccatttgtcatgttgtggtcatatgtccacagGTAGAAGATTTTGTGGACCCCAATGGCAAGATCTCTTTACAGCGTGAGGAGACACCATCTAACGGGGctcggtgagggccgactaatcattaagagcctagagaaaagtagttgtagtaag Alignment from GeneWise GTAGAAGATTTTGTGGATCCCAATGGCAAGATCTCTCTACAGCGGGAGGAGACACCATCCAAC------CG agcgcactcaggactgagccatttgtcatgttgtggtcatatgtccacagGTAGAAGATTTTGTGGACCCCAATGGCAAGATCTCTTTACAGCGTGAGGAGACACCATCTAACGGGGCTCGgtgagggccgactaatcattaagagcctagagaaaagtagttgtagtaag #### Gbf1_ID9812_31 --> 0 - 1 Original Alignment GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGT---------g tatgtctggctgggaaatgggccctagcttatatctgctattaattttagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACACCTGACAACTTTGAACTCTGTGTCAAGACCCTCCGCATCTTTGTAGAAGCCAGTCTGAATGATTTCCTGCAAggtgagttatctgtatgagggacaatcagggagtgggtcaagtgaggggtg Alignment from CESAR GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGT---------g tatgtctggctgggaaatgggccctagcttatatctgctattaattttagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACACCTGACAACTTTGAACTCTGTGTCAAGACCCTCCGCATCTTTGTAGAAGCCAGTCTGAATGATTTCCTGCAAggtgagttatctgtatgagggacaatcagggagtgggtcaagtgaggggtg Alignment from Spaln_aa2Genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGT---------G tatgtctggctgggaaatgggccctagcttatatctgctattaattttagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACACCTGACAACTTTGAACTCTGTGTCAAGACCCTCCGCATCTTTGTAGAAGCCAGTCTGAATGATTTCCTGCAAGgtgagttatctgtatgagggacaatcagggagtgggtcaagtgaggggtg Alignment from Spaln_nt2Genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGT---------G tatgtctggctgggaaatgggccctagcttatatctgctattaattttagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACACCTGACAACTTTGAACTCTGTGTCAAGACCCTCCGCATCTTTGTAGAAGCCAGTCTGAATGATTTCCTGCAAGgtgagttatctgtatgagggacaatcagggagtgggtcaagtgaggggtg Alignment from Pairagon GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGT---------G tatgtctggctgggaaatgggccctagcttatatctgctattaattttagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACACCTGACAACTTTGAACTCTGTGTCAAGACCCTCCGCATCTTTGTAGAAGCCAGTCTGAATGATTTCCTGCAAGgtgagttatctgtatgagggacaatcagggagtgggtcaagtgaggggtg Alignment from Exonerate_protein2genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGT---------G tatgtctggctgggaaatgggccctagcttatatctgctattaattttagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACACCTGACAACTTTGAACTCTGTGTCAAGACCCTCCGCATCTTTGTAGAAGCCAGTCTGAATGATTTCCTGCAAGgtgagttatctgtatgagggacaatcagggagtgggtcaagtgaggggtg Alignment from Exonerate_coding2genome GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGT---------G tatgtctggctgggaaatgggccctagcttatatctgctattaattttagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACACCTGACAACTTTGAACTCTGTGTCAAGACCCTCCGCATCTTTGTAGAAGCCAGTCTGAATGATTTCCTGCAAGgtgagttatctgtatgagggacaatcagggagtgggtcaagtgaggggtg Alignment from GeneWise GTGGGGAAGGATGACATTGATAACTCCAAACCAGGAGCAGGGCTCAGCAGGCCAGGCCCTTCACCCCTGGTCAACCAGTACAGCCTTACAGTGGGCCTGGATCTGGGCCCACACGACACTAAGTCCCTGCTTAAGTGTGTGGAGTCACTGTCCTTCATTGTCCGAGATGCTGCTCACATCACCCCTGACAACTTTGAACTCTGCGTCAAGACTCTCCGCATCTTTGTAGAAGCCAGTCTGAATGGT---------G tatgtctggctgggaaatgggccctagcttatatctgctattaattttagGTGGGAAAGGATGACATTGATAACTCCAAGCCAGGAGCAGGGCTCAGTAGGCCAGGTCCTTCACCCCTGGTCAACCAGTATAGCCTTACAGTGGGCCTTGATCTGGGCCCACATGACACTAAGTCCCTACTCAAGTGTGTAGAGTCACTGTCCTTCATTGTTCGAGATGCTGCCCACATCACACCTGACAACTTTGAACTCTGTGTCAAGACCCTCCGCATCTTTGTAGAAGCCAGTCTGAATGATTTCCTGCAAGgtgagttatctgtatgagggacaatcagggagtgggtcaagtgaggggtg #### Gbf1_ID9816_35 --> 0 - 0 Original Alignment GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG--------------------- cccatgcccaactggctgggttaatgtgtctgtttccttttcacttccagGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTGCTCTCAAAGATCATCTCTGGCCTCAATCGGgtactgcttttccggtttgcacccatctctctacctcattccttttccca Alignment from CESAR GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgtctgtttccttttcacttccagGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTGCTCTCAAAGatcatctctggcctcaatcgggtactgcttttccggtttgcacccatctctctacctcattccttttccca Alignment from Spaln_aa2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgtctgtttccttttcacttccagGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTGCTCTCAAAGatcatctctggcctcaatcgggtactgcttttccggtttgcacccatctctctacctcattccttttccca Alignment from Spaln_nt2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG---------- cccatgcccaactggctgggttaatgtgtctgtttccttttcacttccagGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTGCTCTCAAAGATCATCTCTGgcctcaatcgggtactgcttttccggtttgcacccatctctctacctcattccttttccca Alignment from Pairagon GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG--------------------- cccatgcccaactggctgggttaatgtgtctgtttccttttcacttccagGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTGCTCTCAAAGATCATCTCTGGCCTCAATCGGgtactgcttttccggtttgcacccatctctctacctcattccttttccca Alignment from Exonerate_protein2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgtctgtttccttttcacttccagGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTGCTCTCAAAGatcatctctggcctcaatcgggtactgcttttccggtttgcacccatctctctacctcattccttttccca Alignment from Exonerate_coding2genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccatgcccaactggctgggttaatgtgtctgtttccttttcacttccagGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTGCTCTCAAAGatcatctctggcctcaatcgggtactgcttttccggtttgcacccatctctctacctcattccttttccca Alignment from GeneWise GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGGTC------------------ cccatgcccaactggctgggttaatgtgtctgtttccttttcacttccagGTGCTGTTTCCCCTCCTTTCCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACGCTGCTCTCAAAGATCATCTCTGGCCTCAATCGGgtactgcttttccggtttgcacccatctctctacctcattccttttccca #### Gbf1_ID9817_36 --> 0 - 0 Original Alignment GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG tgagagaagcctcagctaatacccttgtctgttggttcttttcctttcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTG---gtctgtagctctgccttgagccatttttgtttgggcatatcttctcacgc Alignment from CESAR GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG tgagagaagcctcagctaatacccttgtctgttggttcttttcctttcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTG---gtctgtagctctgccttgagccatttttgtttgggcatatcttctca Alignment from Spaln_aa2Genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTGTCAG tgagagaagcctcagctaatacccttgtctgttggttcttttcctttcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGGTCTGTAgctctgccttgagccatttttgtttgggcatatcttctcacgc Alignment from Spaln_nt2Genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTG tgagagaagcctcagctaatacccttgtctgttggttcttttcctttcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGgtctgtagctctgccttgagccatttttgtttgggcatatcttctcacgc Alignment from Pairagon GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTG tgagagaagcctcagctaatacccttgtctgttggttcttttcctttcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGgtctgtagctctgccttgagccatttttgtttgggcatatcttctcacgc Alignment from Exonerate_protein2genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG tgagagaagcctcagctaatacccttgtctgttggttcttttcctttcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGAT---TTGgtctgtagctctgccttgagccatttttgtttgggcatatcttctcacgc Alignment from Exonerate_coding2genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG tgagagaagcctcagctaatacccttgtctgttggttcttttcctttcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGAT---TTGgtctgtagctctgccttgagccatttttgtttgggcatatcttctcacgc Alignment from GeneWise GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG tgagagaagcctcagctaatacccttgtctgttggttcttttcctttcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGAT---TTGgtctgtagctctgccttgagccatttttgtttgggcatatcttctcacgc #### Gbf1_ID9819_38 --> 2 - 1 Original Alignment acCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTg cagggtgaagaaagaaacacccagagttttttactttgtgtttatttcagacCCAATGCCTGCTGAACCACATAGTCAAAAGCCT---GCATCCACTCACCTAACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTT---ggtgggttggtactctaagcacaactcgaagaagtctaagcaacgtccaat Alignment from CESAR acCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTg cagggtgaagaaagaaacacccagagttttttactttgtgtttatttcagacCCAATGCCTGCTGAACCACATAGTCAAAAGCCT---GCATCCACTCACCTAACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTT---ggtgggttggtactctaagcacaactcgaagaagtctaagcaacgtccaat Alignment from Spaln_aa2Genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTT- cagggtgaagaaagaaacacccagagttttttactttgtgtttatttcagACCCAATGCCTGCTGAACCACATAGTCAAAAGCCT---GCATCCACTCACCTAACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTGgtgggttggtactctaagcacaactcgaagaagtctaagcaacgtccaat Alignment from Spaln_nt2Genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG- cagggtgaagaaagaaacacccagagttttttactttgtgtttatttcagACCCAATGCCTGCTGAACCACATAGTCAAAAGCCT---GCATCCACTCACCTAACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTGGTGGgttggtactctaagcacaactcgaagaagtctaagcaacgtccaat Alignment from Pairagon ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTTGTG- cagggtgaagaaagaaacacccagagttttttactttgtgtttatttcagACCCAATGCCTGCTGAACCACATAGTCAAAAGCCT---GCATCCACTCACCTAACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTGGTGGgttggtactctaagcacaactcgaagaagtctaagcaacgtccaat Alignment from Exonerate_protein2genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTT cagggtgaagaaagaaacacccagagttttttactttgtgtttatttcagACCCAATGCCTGCTGAACCACATAGTCAAAAGCCT---GCATCCACTCACCTAACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTGgtgggttggtactctaagcacaactcgaagaagtctaagcaacgtccaat Alignment from Exonerate_coding2genome ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTT cagggtgaagaaagaaacacccagagttttttactttgtgtttatttcagACCCAATGCCTGCTGAACCACATAGTCAAAAGCCT---GCATCCACTCACCTAACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTGgtgggttggtactctaagcacaactcgaagaagtctaagcaacgtccaat Alignment from GeneWise ACCCCATGCCTGCGGAACCGCACAGTCAAAAACCTCTGGCCTCTACTCACCTGACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTT cagggtgaagaaagaaacacccagagttttttactttgtgtttatttcagACCCAATGCCTGCTGAACCACATAGTCAAAAGCCT---GCATCCACTCACCTAACTTCTGCTGCTGGTGACCCCAGGATGCCTGGCCATCCACCTCTCCCAGAGATACCCTCAGAAATGGGGGTTGgtgggttggtactctaagcacaactcgaagaagtctaagcaacgtccaat #### Gpam_ID11538_11 --> 0 - 2 Original Alignment GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCA---------ag attccatattttcgagttaaggattgttaactgttgttattttactgcagGAATACTTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTGGAGCAAGCACTATTACCAGCAATCCTTCCTTCAGTTATAGTAaggtaagggtgagtacctgtgggactcagctatcccctaacctgtgtgcttg Alignment from CESAR GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCA---------ag attccatattttcgagttaaggattgttaactgttgttattttactgcagGAATACTTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTGGAGCAAGCACTATTACCAGCAATCCTTCCTTCAGTTATAGTAaggtaagggtgagtacctgtgggactcagctatcccctaacctgtgtgcttg Alignment from Spaln_aa2Genome GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCAAGA-------- attccatattttcgagttaaggattgttaactgttgttattttactgcagGAATACTTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTGGAGCAAGCACTATTACCAGCAATCCTTCCTTCAGTTATAGTAAGgtaagggtgagtacctgtgggactcagctatcccctaacctgtgtgcttg Alignment from Spaln_nt2Genome GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCA---------AG attccatattttcgagttaaggattgttaactgttgttattttactgcagGAATACTTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTGGAGCAAGCACTATTACCAGCAATCCTTCCTTCAGTTATAGTAAGgtaagggtgagtacctgtgggactcagctatcccctaacctgtgtgcttg Alignment from Pairagon GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTC---------AAG attccatattttcgagttaaggattgttaactgttgttattttactgcagGAATACTTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTGGAGCAAGCACTATTACCAGCAATCCTTCCTTCAGTTATAGTAAGgtaagggtgagtacctgtgggactcagctatcccctaacctgtgtgcttg Alignment from Exonerate_protein2genome GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCA attccatattttcgagttaaggattgttaactgttgttattttactgcagGAATACTTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTGGAGCAAGCACTATTACCAGCAATCCTTCCTTCAgttatagtaaggtaagggtgagtacctgtgggactcagctatcccctaacctgtgtgcttg Alignment from Exonerate_coding2genome GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCA attccatattttcgagttaaggattgttaactgttgttattttactgcagGAATACTTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTGGAGCAAGCACTATTACCAGCAATCCTTCCTTCAgttatagtaaggtaagggtgagtacctgtgggactcagctatcccctaacctgtgtgcttg Alignment from GeneWise GAATATTTAGAAGGCCAGAGTCAGAAACCTGTATCTGCCCCCCTTTCTCTGGAGCAAGCACTGTTACCAGCGATCCTTCCTTCA---------AG attccatattttcgagttaaggattgttaactgttgttattttactgcagGAATACTTAGAAGGCCAGGGTCAGAAGCCTGTGTCTGCCCCCCTTTCTCTGGAGCAAGCACTATTACCAGCAATCCTTCCTTCAGTTATAGTAAGgtaagggtgagtacctgtgggactcagctatcccctaacctgtgtgcttg #### Gpr137_ID1885_6 --> 0 - 2 Original Alignment ---------AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag ttatagcagcagaagaatagtgctacagagagcccctctcttcagtgcagGGTGTTGACAGCACCAGTCGAATCCTCAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCaggtgagatctttgacagggctggccactgtgaggatgatggatgctcctgg Alignment from CESAR ---------AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag ttatagcagcagaagaatagtgctacagagagcccctctcttcagtgcagGGTGTTGACAGCACCAGTCGAATCCTCAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCaggtgagatctttgacagggctggccactgtgaggatgatggatgctcctgg Alignment from Spaln_aa2Genome AGCACCAGTCGAATC---------CTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTC--------- TTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGC---TCCTGG ttatagcagcagaagaatagtgctacagagagcccctctcttcagtgcagGGTGTTGACAGCACCAGTCGAATCCTCAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGgctggacactgtgaggatgatggctgctcctgggagcatagccggagtgagagcaccaggtgagATCTTTGACAGGGCTGGCCACTGTGAGGATGATGGATGCTCCTGG Alignment from Spaln_nt2Genome GCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCG- GGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGG ttatagcagcagaagaatagtgctacagagagcccctctcttcagtgcagggtgttgacagCACCAGT-CGAATCCTCAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGgctggacactgtgaggatgatggctgctcctgggagcatagccggagtgagagcaccaggtgagatctttgacagGGCTGGCCACTGTGAGGATGATGGATGCTCCTGG Alignment from Pairagon -----------------------------------------------------------AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG TTATAGCAGCAGAAGAATAGTGCTACAGAGAGCCCCTCTCTTCAGTGCAGGGTGTTGACAGCACCAGTCGAATCCTCAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtgagatctttgacagggctggccactgtgaggatgatggatgctcctgg Alignment from Exonerate_protein2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttatagcagcagaagaatagtgctacagagagcccctctcttcagtgcagggtgttgacAGCACCAGTCGAATCCTCAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtgagatctttgacagggctggccactgtgaggatgatggatgctcctgg Alignment from Exonerate_coding2genome AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttatagcagcagaagaatagtgctacagagagcccctctcttcagtgcagggtgttgacAGCACCAGTCGAATCCTCAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtgagatctttgacagggctggccactgtgaggatgatggatgctcctgg Alignment from GeneWise ---------AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG ttatagcagcagaagaatagtgctacagagagcccctctcttcagtgcagGGTGTTGACAGCACCAGTCGAATCCTCAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGACACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtgagatctttgacagggctggccactgtgaggatgatggatgctcctgg #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaagatggattcacgcaaactactgatatctcccaatatcttctcctag---------------------GCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCCCTGGCCTTAGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgagtactatacagtttatttctggctgaccaagtccttgccatcagct Alignment from CESAR GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG atctaggagccctcctctctgtaaagatatctcccaatatcttctcctag---------------------GCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCCCTGGCCTTAGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgagtactatacagtttatttctggctgaccaagtccttgccatcagct Alignment from Spaln_aa2Genome GCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaagatggattcacgcaaactactgatatctcccaatatcttctcctagGCTGCCATAGGGGCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCCCTGGCCTTAGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgagtactatacagtttatttctggctgaccaagtccttgccatcagct Alignment from Spaln_nt2Genome GCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaagatggattcacgcaaactactgatatctcccaatatcttctcctagGCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCCCTGGCCTTAGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgagtactatacagtttatttctggctgaccaagtccttgccatcagct Alignment from Pairagon GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaagatggattcacgcaaactactgatatctcccaatatcttctcctag---------------------GCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCCCTGGCCTTAGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgagtactatacagtttatttctggctgaccaagtccttgccatcagct Alignment from Exonerate_protein2genome GCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaagatggattcacgcaaactactgatatctcccaatatcttctcctagGCTGCCATAGGGGCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCCCTGGCCTTAGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgagtactatacagtttatttctggctgaccaagtccttgccatcagct Alignment from Exonerate_coding2genome GCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaagatggattcacgcaaactactgatatctcccaatatcttctcctagGCTGCCATAGGGGCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCCCTGGCCTTAGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgagtactatacagtttatttctggctgaccaagtccttgccatcagct Alignment from GeneWise GCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG taaagatggattcacgcaaactactgatatctcccaatatcttctcctagGCTGCCATAGGGGCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCCCTGGCCTTAGCACCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgagtactatacagtttatttctggctgaccaagtccttgccatcagct #### Gpr137_ID1888_3 --> 1 - 0 Original Alignment g---------CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtggagtctcttgagtgagggcatctggaccttctgacctcttctctaggGGGCGGCCCCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATCCTTCTACTGGTACGTGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGCGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACTAGTATCTACTTAGAGGCCAAGgtaaggccaccgcatggatgtggcacccttggatctgtggacagagtact Alignment from CESAR g---------CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtggagtctcttgagtgagggcatctggaccttctgacctcttctctaggGGGCGGCCCCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATCCTTCTACTGGTACGTGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGCGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACTAGTATCTACTTAGAGGCCAAGgtaaggccaccgcatggatgtggcacccttggatctgtggacagagtact Alignment from Spaln_aa2Genome GCTGGCTGTCCGA---------GGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtggagtctcttgagtgagggcatctggaccttctgacctcttctctagGGGGCGGCCCCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATCCTTCTACTGGTACGTGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGCGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACTAGTATCTACTTAGAGGCCAAGgtaaggccaccgcatggatgtggcacccttggatctgtggacagagtact Alignment from Spaln_nt2Genome G---------CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtggagtctcttgagtgagggcatctggaccttctgacctcttctctagGGGGCGGCCCCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATCCTTCTACTGGTACGTGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGCGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACTAGTATCTACTTAGAGGCCAAGgtaaggccaccgcatggatgtggcacccttggatctgtggacagagtact Alignment from Pairagon G---------CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtggagtctcttgagtgagggcatctggaccttctgacctcttctctagGGGGCGGCCCCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATCCTTCTACTGGTACGTGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGCGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACTAGTATCTACTTAGAGGCCAAGgtaaggccaccgcatggatgtggcacccttggatctgtggacagagtact Alignment from Exonerate_protein2genome G---------CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtggagtctcttgagtgagggcatctggaccttctgacctcttctctagGGGGCGGCCCCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATCCTTCTACTGGTACGTGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGCGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACTAGTATCTACTTAGAGGCCAAGgtaaggccaccgcatggatgtggcacccttggatctgtggacagagtact Alignment from Exonerate_coding2genome G---------CTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtggagtctcttgagtgagggcatctggaccttctgacctcttctctagGGGGCGGCCCCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATCCTTCTACTGGTACGTGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGCGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACTAGTATCTACTTAGAGGCCAAGgtaaggccaccgcatggatgtggcacccttggatctgtggacagagtact Alignment from GeneWise -------TTGCTGGCTGTCCGAGGGGCCTTCGTGGGTGCTTCACTGCTCTTTTTGCTGGTGAATGTACTGTGTGCAGTGCTGTCTCGCCAGCGCCAGGCACAGCCCTGGGTCCTTCTGCTGGTACGTGTCCTGGTGAGCGACTCTCTCTTCGTCATCTGTGCCCTCTCGCTTGCTGCCTGCCTCTGCCTTGTGGCCCGTCGAGCCCCTTCCACCAGCATCTACTTAGAGGCCAAG tgtggagtctcttgagtgagggcatctggaccttctgacctcttctctagGGGGCGGCCCCTGGCTGTCCGAGGGGCCTTTGTGGGTGCTTCATTGCTTTTTTTACTAGTGAATGTACTGTGTGCAGTGCTGTCACGCCAGCGTCAACGACAACCCTGGATCCTTCTACTGGTACGTGTCTTGGTGAGTGACTCTCTCTTTGTCATCTGCGCCCTATCTCTTGCTGCTTGCCTCTGCCTTGTAGCCCGTCGAGCCCCTTCCACTAGTATCTACTTAGAGGCCAAGgtaaggccaccgcatggatgtggcacccttggatctgtggacagagtact #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG--- cactccttggtgttgagtgttgcagtaattgtcttctactgttgtactagatACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTCGAAGCTAAGTATgtgaggcattaatttagactgggacaaagtctactgtctaatttttgact Alignment from CESAR atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG--- cactccttggtgttgagtgttgcagtaattgtcttctactgttgtactagatACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTCGAAGCTAAGTATgtgaggcattaatttagactgggacaaagtctactgtctaatttttgact Alignment from Spaln_aa2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG--- cactccttggtgttgagtgttgcagtaattgtcttctactgttgtactagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTCGAAGCTAAGTATgtgaggcattaatttagactgggacaaagtctactgtctaatttttgact Alignment from Spaln_nt2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAA cactccttggtgttgagtgttgcagtaattgtcttctactgttgtactagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTCGAAGCTAAgtatgtgaggcattaatttagactgggacaaagtctactgtctaatttttgact Alignment from Pairagon ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG--- cactccttggtgttgagtgttgcagtaattgtcttctactgttgtactagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTCGAAGCTAAGTATgtgaggcattaatttagactgggacaaagtctactgtctaatttttgact Alignment from Exonerate_protein2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG--- cactccttggtgttgagtgttgcagtaattgtcttctactgttgtactagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTCGAAGCTAAGTATgtgaggcattaatttagactgggacaaagtctactgtctaatttttgact Alignment from Exonerate_coding2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG--- cactccttggtgttgagtgttgcagtaattgtcttctactgttgtactagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTCGAAGCTAAGTATgtgaggcattaatttagactgggacaaagtctactgtctaatttttgact Alignment from GeneWise ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAGGTA cactccttggtgttgagtgttgcagtaattgtcttctactgttgtactagATACATCAGATCTTCACTTCCAAATTAGCAAAGACCGTTATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTCGAAGCTAAGTATgtgaggcattaatttagactgggacaaagtctactgtctaatttttgact #### Hnrnpul2_ID2404_8 --> 0 - 0 Original Alignment GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG------ tttataaaattgcgtgacttttatttcatttgtaaaaaattctctaccagGTGATTCTGATGGTGGGACTCCCTGGATCGGCAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGTGGACAgtattgtgctgagggctggggaagggtgactagtggaggcgctggaagtc Alignment from CESAR GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG------ tttataaaattgcgtgacttttatttcatttgtaaaaaattctctaccagGTGATTCTGATGGTGGGACTCCCTGGATCGGCAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGTGGACAgtattgtgctgagggctggggaagggtgactagtggaggcgctggaagtc Alignment from Spaln_aa2Genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG------ tttataaaattgcgtgacttttatttcatttgtaaaaaattctctaccagGTGATTCTGATGGTGGGACTCCCTGGATCGGCAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGTGGACAgtattgtgctgagggctggggaagggtgactagtggaggcgctggaagtc Alignment from Spaln_nt2Genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAG tttataaaattgcgtgacttttatttcatttgtaaaaaattctctaccagGTGATTCTGATGGTGGGACTCCCTGGATCGGCAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGgtggacagtattgtgctgagggctggggaagggtgactagtggaggcgctggaagtc Alignment from Pairagon GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG------------------------------- tttataaaattgcgtgacttttatttcatttgtaaaaaattctctaccagGTGATTCTGATGGTGGGACTCCCTGGATCGGCAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGTGGACAGTATTGTGCTGAGGGCTGGGGAAGGgtgactagtggaggcgctggaagtc Alignment from Exonerate_protein2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgcgtgacttttatttcatttgtaaaaaattctctaccagGTGATTCTGATGGTGGGACTCCCTGGATCGGCAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGtggacagtattgtgctgagggctggggaagggtgactagtggaggcgctggaagtc Alignment from Exonerate_coding2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgcgtgacttttatttcatttgtaaaaaattctctaccagGTGATTCTGATGGTGGGACTCCCTGGATCGGCAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGtggacagtattgtgctgagggctggggaagggtgactagtggaggcgctggaagtc Alignment from GeneWise GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG------ tttataaaattgcgtgacttttatttcatttgtaaaaaattctctaccagGTGATTCTGATGGTGGGACTCCCTGGATCGGCAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGTGGACAgtattgtgctgagggctggggaagggtgactagtggaggcgctggaagtc #### Hps1_ID8614_14 --> 1 - 2 Original Alignment gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGtc cataaacaattgcccctgcctgagccccctctctcttcctctcttcataggGAGAGGCTTTTGGACTGGAAGGACTTTTCACTGGTGAATAGCTGGAGAAATGTC---------tcgtaggttctgtccacgtatgatatatattcatatgaatagcccacagcta Alignment from CESAR gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGtc cataaacaattgcccctgcctgagccccctctctcttcctctcttcataggGAGAGGCTTTTGGACTGGAAGGACTTTTCACTGGTGAATAGCTGGAGAAATGTC---------tcgtaggttctgtccacgtatgatatatattcatatgaatagcccacagcta Alignment from Spaln_aa2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC cataaacaattgcccctgcctgagccccctctctcttcctctcttcatagGGAGAGGCTTTTGGACTGGAAGGACTTTTCACTGGTGAATAGCTGGAGAAAT---------GTCTCgtaggttctgtccacgtatgatatatattcatatgaatagcccacagcta Alignment from Spaln_nt2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGT---GTCC-- cataaacaattgcccctgcctgagccccctctctcttcctctcttcatagGGAGAGGCTTTTGGACTGGAAGGACTTTTCACTGGTGAATAGCTGGAGAAATGTCTCGTAGGTTCTGTCCACgtatgatatatattcatatgaatagcccacagcta Alignment from Pairagon GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC cataaacaattgcccctgcctgagccccctctctcttcctctcttcatagGGAGAGGCTTTTGGACTGGAAGGACTTTTCACTGGTGAATAGCTGGAGAAATGTC---------TCgtaggttctgtccacgtatgatatatattcatatgaatagcccacagcta Alignment from Exonerate_protein2genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC cataaacaattgcccctgcctgagccccctctctcttcctctcttcatagGGAGAGGCTTTTGGACTGGAAGGACTTTTCACTGGTGAATAGCTGGAGAAATGTCTCGTAGGTTCTgtccacgtatgatatatattcatatgaatagcccacagcta Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC cataaacaattgcccctgcctgagccccctctctcttcctctcttcatagGGAGAGGCTTTTGGACTGGAAGGACTTTTCACTGGTGAATAGCTGGAGAAAT---------GTCTCgtaggttctgtccacgtatgatatatattcatatgaatagcccacagcta #### Incenp_ID2604_15 --> 0 - 0 Original Alignment ------------------GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagtggtgcggtaagaggggaggttttgtttcttattccttttagTATTTGCGAGAGTCGTTTGAGGAGCAACAGCGCCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCAAAGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTCCTCAACATGACTGTGGATGTGCGGgtaagtcttgctattcagatgggttcttactccatgcttcatttatttcc Alignment from CESAR ------------------GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagtggtgcggtaagaggggaggttttgtttcttattccttttagTATTTGCGAGAGTCGTTTGAGGAGCAACAGCGCCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCAAAGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTCCTCAACATGACTGTGGATGTGCGGgtaagtcttgctattcagatgggttcttactccatgcttcatttatttcc Alignment from Spaln_aa2Genome GAAGAGCAA------CAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagtggtgcggtaagaggggaggttttgtttcttattccttttagtatttgcgagagTCGTTTGAGGAGCAACAGCGCCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCAAAGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTCCTCAACATGACTGTGGATGTGCGGgtaagtcttgctattcagatgggttcttactccatgcttcatttatttcc Alignment from Spaln_nt2Genome GAA GAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gGGGgtagtggtgcggtaagaggggaggttttgtttcttattccttttagtatttgcgagagtcgtttgagGAGCAACAGCGCCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCAAAGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTCCTCAACATGACTGTGGATGTGCGGgtaagtcttgctattcagatgggttcttactccatgcttcatttatttcc Alignment from Pairagon ------------------GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagtggtgcggtaagaggggaggttttgtttcttattccttttagTATTTGCGAGAGTCGTTTGAGGAGCAACAGCGCCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCAAAGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTCCTCAACATGACTGTGGATGTGCGGgtaagtcttgctattcagatgggttcttactccatgcttcatttatttcc Alignment from Exonerate_protein2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagtggtgcggtaagaggggaggttttgtttcttattccttttagtatttgcgagagtcgtttGAGGAGCAACAGCGCCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCAAAGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTCCTCAACATGACTGTGGATGTGCGGgtaagtcttgctattcagatgggttcttactccatgcttcatttatttcc Alignment from Exonerate_coding2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagtggtgcggtaagaggggaggttttgtttcttattccttttagtatttgcgagagtcgtttGAGGAGCAACAGCGCCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCAAAGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTCCTCAACATGACTGTGGATGTGCGGgtaagtcttgctattcagatgggttcttactccatgcttcatttatttcc Alignment from GeneWise ------GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagtggtgcggtaagaggggaggttttgtttcttattccttttagtatttgcgagagTCGTTTGAGGAGCAACAGCGCCTGGCTAAGCAGCAGCCACAGGAAGAGCAGGCAAAGAAAGCAAAGGAGGTGGCAGCAGCCAGAAAGGTCCTCAACATGACTGTGGATGTGCGGgtaagtcttgctattcagatgggttcttactccatgcttcatttatttcc #### Incenp_ID2605_14 --> 1 - 0 Original Alignment gGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ggcctgactactgccttgacagggcttgatgcttttttcttccttttaaggGAGATGCAGGAGAGAGAGAAAGCCTTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGGGGAGAAGAAGCGC---gtgaggtgtgctttgtaaaaatgcactccaggtgggatatgtgtaaacct Alignment from CESAR gGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ggcctgactactgccttgacagggcttgatgcttttttcttccttttaaggGAGATGCAGGAGAGAGAGAAAGCCTTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGGGGAGAAGAAGCGC---gtgaggtgtgctttgtaaaaatgcactccaggtgggatatgtgtaaa Alignment from Spaln_aa2Genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGG ggcctgactactgccttgacagggcttgatgcttttttcttccttttaagGGAGATGCAGGAGAGAGAGAAAGCCTTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGGGGAGAAGAAGCGCgtgaggtgtgctttgtaaaaatgcactccaggtgggatatgtgtaaacct Alignment from Spaln_nt2Genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGA--AG ggcctgactactgccttgacagggcttgatgcttttttcttccttttaagGGAGATGCAGGAGAGAGAGAAAGCCTTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGGGGAGAAGAAGCGCGTGAGgtgtgctttgtaaaaatgcactccaggtgggatatgtgtaaacct Alignment from Pairagon GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGG ggcctgactactgccttgacagggcttgatgcttttttcttccttttaagGGAGATGCAGGAGAGAGAGAAAGCCTTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGGGGAGAAGAAGCGCgtgaggtgtgctttgtaaaaatgcactccaggtgggatatgtgtaaacct Alignment from Exonerate_protein2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ggcctgactactgccttgacagggcttgatgcttttttcttccttttaagGGAGATGCAGGAGAGAGAGAAAGCCTTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGGGGAGAAGAAGCGC---gtgaggtgtgctttgtaaaaatgcactccaggtgggatatgtgtaaa Alignment from Exonerate_coding2genome GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ggcctgactactgccttgacagggcttgatgcttttttcttccttttaagGGAGATGCAGGAGAGAGAGAAAGCCTTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGGGGAGAAGAAGCGC---gtgaggtgtgctttgtaaaaatgcactccaggtgggatatgtgtaaa Alignment from GeneWise GGAGATGCAGGAGAGAGAGAAAGCCCTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGAGGAGAAGAAGAGGAAG ggcctgactactgccttgacagggcttgatgcttttttcttccttttaagGGAGATGCAGGAGAGAGAGAAAGCCTTGCGACTCCAAAAGGAACGACTTCAGAAGGAACTGGGGGAGAAGAAG---CGCgtgaggtgtgctttgtaaaaatgcactccaggtgggatatgtgtaaacct #### Incenp_ID2614_5 --> 1 - 0 Original Alignment c---CTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG gtaaatatcacaggaaactttgtctcatcttatttacattgttttcctagcGACCTGGAGCAGGAGCCTGTTGAGGTTGCTGAACCTGAGGAGGCAGAAGAGGAGCAAGAGgtaagatcacaagccacacatgggtaggctctgactcccccaagcttgtg Alignment from CESAR c---CTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG gtaaatatcacaggaaactttgtctcatcttatttacattgttttcctagcGACCTGGAGCAGGAGCCTGTTGAGGTTGCTGAACCTGAGGAGGCAGAAGAGGAGCAAGAGgtaagatcacaagccacacatgggtaggctctgactcccccaagcttgtg Alignment from Spaln_aa2Genome CCTGGAGCAG---GAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG gtaaatatcacaggaaactttgtctcatcttatttacattgttttcctagCGACCTGGAGCAGGAGCCTGTTGAGGTTGCTGAACCTGAGGAGGCAGAAGAGGAGCAAGAGgtaagatcacaagccacacatgggtaggctctgactcccccaagcttgtg Alignment from Spaln_nt2Genome C---CTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG gtaaatatcacaggaaactttgtctcatcttatttacattgttttcctagCGACCTGGAGCAGGAGCCTGTTGAGGTTGCTGAACCTGAGGAGGCAGAAGAGGAGCAAGAGgtaagatcacaagccacacatgggtaggctctgactcccccaagcttgtg Alignment from Pairagon ---CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG gtaaatatcacaggaaactttgtctcatcttatttacattgttttcctagCGACCTGGAGCAGGAGCCTGTTGAGGTTGCTGAACCTGAGGAGGCAGAAGAGGAGCAAGAGgtaagatcacaagccacacatgggtaggctctgactcccccaagcttgtg Alignment from Exonerate_protein2genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG gtaaatatcacaggaaactttgtctcatcttatttacattgttttcctagcgaCCTGGAGCAGGAGCCTGTTGAGGTTGCTGAACCTGAGGAGGCAGAAGAGGAGCAAGAGgtaagatcacaagccacacatgggtaggctctgactcccccaagcttgtg Alignment from Exonerate_coding2genome CCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG gtaaatatcacaggaaactttgtctcatcttatttacattgttttcctagcgaCCTGGAGCAGGAGCCTGTTGAGGTTGCTGAACCTGAGGAGGCAGAAGAGGAGCAAGAGgtaagatcacaagccacacatgggtaggctctgactcccccaagcttgtg Alignment from GeneWise -GGCCTGGAGCAGGAGCCTGTCGAGGTGGCCGAACCTGAGGAGGCAGAAGAGGAGCAAGAG gtaaatatcacaggaaactttgtctcatcttatttacattgttttcctagCGACCTGGAGCAGGAGCCTGTTGAGGTTGCTGAACCTGAGGAGGCAGAAGAGGAGCAAGAGgtaagatcacaagccacacatgggtaggctctgactcccccaagcttgtg #### Jak2_ID6243_19 --> 2 - 0 Original Alignment gtCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ataagatgccaccctagcgccggacactcatatggtcttcactatttcaggt---------------------------TATTTACCTTATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTTCAATACACATCTCAGATATGCAAGgtgaccaccactccacatgtctcttgtatatggtgaactaagtagttata Alignment from CESAR gtCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG taaccaaccagtagtactataaaacactcatatggtcttcactatttcaggt---------------------------TATTTACCTTATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTTCAATACACATCTCAGATATGCAAGgtgaccaccactccacatgtctcttgtatatggtgaactaagtagttata Alignment from Spaln_aa2Genome GTGCGGGTCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ataagatgccaccctagCGCCGGACACTCATATGGTCTTCACTATTTCAGGTTATTTACCTTATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTTCAATACACATCTCAGATATGCAAGgtgaccaccactccacatgtctcttgtatatggtgaactaagtagttata Alignment from Spaln_nt2Genome GGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ataagatgccaccctagcgccggacactcatatggtcttcactatttcagG--TTATTTACCTTATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTTCAATACACATCTCAGATATGCAAGgtgaccaccactccacatgtctcttgtatatggtgaactaagtagttata Alignment from Pairagon GTCGGCGCAACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ataagatgccaccctagcgccggacactcatatggtcttcactatttcagGT---------------------------TATTTACCTTATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTTCAATACACATCTCAGATATGCAAGgtgaccaccactccacatgtctcttgtatatggtgaactaagtagttata Alignment from Exonerate_protein2genome AATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ataagatgccaccctagcgccggacactcatatggtcttcactatttcagGTTATTTACCTTATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTTCAATACACATCTCAGATATGCAAGgtgaccaccactccacatgtctcttgtatatggtgaactaagtagttata Alignment from Exonerate_coding2genome AATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ataagatgccaccctagcgccggacactcatatggtcttcactatttcagGTTATTTACCTTATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTTCAATACACATCTCAGATATGCAAGgtgaccaccactccacatgtctcttgtatatggtgaactaagtagttata Alignment from GeneWise --------------AACCTAAGATTAATTATGGAATATTTACCATATGGAAGTTTACGAGACTATCTCCAAAAACATAAAGAACGGATAGATCACAAAAAACTTCTTCAATACACATCTCAGATATGCAAG ataagatgccaccctagCGCCGGACACTCATATGGTCTTCACTATTTCAGGTTATTTACCTTATGGAAGTCTACGAGACTATCTCCAAAAACATAAAGAACGAATAGATCACAAGAAACTCCTTCAATACACATCTCAGATATGCAAGgtgaccaccactccacatgtctcttgtatatggtgaactaagtagttata #### Kat5_ID1109_13 --> 1 - 0 Original Alignment tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG aggtgtgtatccacaggtgacctaacttaccctgcccttaattcctctagtGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAAT---------gtaacaggggtcactcagcatgactacaaggtgagggggcatgctcaggg Alignment from CESAR tGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAAT---------------------TACTACAAG aggtgtgtatccacaggtgacctaacttaccctgcccttaattcctctagtGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAACAGGGGTCACTCAGCATGACTACAAGgtgagggggcatgctcaggg Alignment from Spaln_aa2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG aggtgtgtatccacaggtgacctaacttaccctgcccttaattcctctagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAACAGGGgtcactcagcatgactacaaggtgagggggcatgctcaggg Alignment from Spaln_nt2Genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG aggtgtgtatccacaggtgacctaacttaccctgcccttaattcctctagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAACAGGGgtcactcagcatgactacaaggtgagggggcatgctcaggg Alignment from Pairagon TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCA---------------------ATTACTACAAG aggtgtgtatccacaggtgacctaacttaccctgcccttaattcctctagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAACAGGGGTCACTCAGCATGACTACAAGgtgagggggcatgctcaggg Alignment from Exonerate_protein2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG aggtgtgtatccacaggtgacctaacttaccctgcccttaattcctctagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAACAGGGgtcactcagcatgactacaaggtgagggggcatgctcaggg Alignment from Exonerate_coding2genome TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG aggtgtgtatccacaggtgacctaacttaccctgcccttaattcctctagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAACAGGGgtcactcagcatgactacaaggtgagggggcatgctcaggg Alignment from GeneWise TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG aggtgtgtatccacaggtgacctaacttaccctgcccttaattcctctagTGAGATCAGTGAAATTACTAGTATTAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATGTAACAGGGgtcactcagcatgactacaaggtgagggggcatgctcaggg #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa aggctcccacgtatacatgatgcttactatttactatccctcccccctaggcTATGAACTCTCGAAAGTAGATGGGAAGACCGGGACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATC------aagtaagtaatcggtgaaatgctaactggggggttgtggtatggtctatctg Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCaa aggctcccacgtatacatgatgcttactatttactatccctcccccctaggcTATGAACTCTCGAAAGTAGATGGGAAGACCGGGACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAG------ATCaagtaagtaatcggtgaaatgctaactggggggttgtggtatggtctatctg Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA aggctcccacgtatacatgatgcttactatttactatccctcccccctagGCTATGAACTCTCGAAAGTAGATGGGAAGACCGGGACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAG------ATCAAgtaagtaatcggtgaaatgctaactggggggttgtggtatggtctatctg Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA aggctcccacgtatacatgatgcttactatttactatccctcccccctagGCTATGAACTCTCGAAAGTAGATGGGAAGACCGGGACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCA--AGTAAgtaatcggtgaaatgctaactggggggttgtggtatggtctatctg Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAA aggctcccacgtatacatgatgcttactatttactatccctcccccctagGCTATGAACTCTCGAAAGTAGATGGGAAGACCGGGACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAG------ATCAAgtaagtaatcggtgaaatgctaactggggggttgtggtatggtctatctg Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCAC aggctcccacgtatacatgatgcttactatttactatccctcccccctagGCTATGAACTCTCGAAAGTAGATGGGAAGACCGGGACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCAAgtaagtaatcggtgaaatgctaactggggggttgtggtatggtctatctg Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCAC aggctcccacgtatacatgatgcttactatttactatccctcccccctagGCTATGAACTCTCGAAAGTAGATGGGAAGACCGGGACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCAAgtaagtaatcggtgaaatgctaactggggggttgtggtatggtctatctg Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCAC aggctcccacgtatacatgatgcttactatttactatccctcccccctagGCTATGAACTCTCGAAAGTAGATGGGAAGACCGGGACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCAGAGAGTGGGGAGAGGCCCCAGATCAAgtaagtaatcggtgaaatgctaactggggggttgtggtatggtctatctg #### Kat5_ID1111_11 --> 0 - 1 Original Alignment ---------GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa ccgtattgcctaacttggcactcctgctggttttctggttttgtcttcagTGGCTGCTGGAAAAAGAGTCCACAGAGGATTACAACATAGCCTGCATTTTAACTCTACCTCCCTACCAGCGCCGCGGCTATGGTAAGCTGCTTATTGAGTTCagtacgtacgtgctacctggccaggatctggcaggatgaggttgggttggt Alignment from CESAR ---------GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCa ccgtattgcctaacttggcactcctgctggttttctggttttgtcttcagTGGCTGCTGGAAAAAGAGTCCACAGAGGATTACAACATAGCCTGCATTTTAACTCTACCTCCCTACCAGCGCCGCGGCTATGGTAAGCTGCTTATTGAGTTCagtacgtacgtgctacctggccaggatctggcaggatgaggttgggttggt Alignment from Spaln_aa2Genome GAAAAGGAATCC---------ACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ccgtattgcctaacttggcactcctgctggttttctggttttgtcttcagTGGCTGCTGGAAAAAGAGTCCACAGAGGATTACAACATAGCCTGCATTTTAACTCTACCTCCCTACCAGCGCCGCGGCTATGGTAAGCTGCTTATTGAGTTCAgtacgtacgtgctacctggccaggatctggcaggatgaggttgggttggt Alignment from Spaln_nt2Genome GGAAAAGGAATCCAC--------AGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ccgtattgcctaacttggcactcctgctggttttctggttttgtcttcagTGGCTGCTGGAAAAAGAGTCCACAGAGGATTACAACATAGCCTGCATTTTAACTCTACCTCCCTACCAGCGCCGCGGCTATGGTAAGCTGCTTATTGAGTTCAgtacgtacgtgctacctggccaggatctggcaggatgaggttgggttggt Alignment from Pairagon ---------GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ccgtattgcctaacttggcactcctgctggttttctggttttgtcttcagTGGCTGCTGGAAAAAGAGTCCACAGAGGATTACAACATAGCCTGCATTTTAACTCTACCTCCCTACCAGCGCCGCGGCTATGGTAAGCTGCTTATTGAGTTCAgtacgtacgtgctacctggccaggatctggcaggatgaggttgggttggt Alignment from Exonerate_protein2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ccgtattgcctaacttggcactcctgctggttttctggttttgtcttcagtggctgctgGAAAAAGAGTCCACAGAGGATTACAACATAGCCTGCATTTTAACTCTACCTCCCTACCAGCGCCGCGGCTATGGTAAGCTGCTTATTGAGTTCAgtacgtacgtgctacctggccaggatctggcaggatgaggttgggttggt Alignment from Exonerate_coding2genome GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ccgtattgcctaacttggcactcctgctggttttctggttttgtcttcagtggctgctgGAAAAAGAGTCCACAGAGGATTACAACATAGCCTGCATTTTAACTCTACCTCCCTACCAGCGCCGCGGCTATGGTAAGCTGCTTATTGAGTTCAgtacgtacgtgctacctggccaggatctggcaggatgaggttgggttggt Alignment from GeneWise ---------GAAAAGGAATCCACAGAAGATTACAATGTGGCCTGCATCTTGACTCTGCCTCCCTACCAGCGCCGGGGCTATGGCAAGCTGCTTATTGAGTTCA ccgtattgcctaacttggcactcctgctggttttctggttttgtcttcagTGGCTGCTGGAAAAAGAGTCCACAGAGGATTACAACATAGCCTGCATTTTAACTCTACCTCCCTACCAGCGCCGCGGCTATGGTAAGCTGCTTATTGAGTTCAgtacgtacgtgctacctggccaggatctggcaggatgaggttgggttggt #### Kat5_ID1116_6 --> 0 - 0 Original Alignment AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG--------- cacccacctcctgcatcttctgacctggtttctttccttggctctcttagAAACGGAAGGTAGAGGTGGTTTCACCAGCAAGCCCAGTGCCCAGTGAGACAGCCGCAGTCTCAGTTTTCCCTCAGGGCTATGGTgtacttcttcaattctttcttcaagtgccgaaatgttttgtctgcacttt Alignment from CESAR AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG--------- cacccacctcctgcatcttctgacctggtttctttccttggctctcttagAAACGGAAGGTAGAGGTGGTTTCACCAGCAAGCCCAGTGCCCAGTGAGACAGCCGCAGTCTCAGTTTTCCCTCAGGGCTATGGTgtacttcttcaattctttcttcaagtgccgaaatgttttgtctgcacttt Alignment from Spaln_aa2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG--------- cacccacctcctgcatcttctgacctggtttctttccttggctctcttagAAACGGAAGGTAGAGGTGGTTTCACCAGCAAGCCCAGTGCCCAGTGAGACAGCCGCAGTCTCAGTTTTCCCTCAGGGCTATGGTgtacttcttcaattctttcttcaagtgccgaaatgttttgtctgcacttt Alignment from Spaln_nt2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG- cacccacctcctgcatcttctgacctggtttctttccttggctctcttagAAACGGAAGGTAGAGGTGGTTTCACCAGCAAGCCCAGTGCCCAGTGAGACAGCCGCAGTCTCAGTTTTCCCTCAGGgctatggtgtacttcttcaattctttcttcaagtgccgaaatgttttgtctgcacttt Alignment from Pairagon AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG--------- cacccacctcctgcatcttctgacctggtttctttccttggctctcttagAAACGGAAGGTAGAGGTGGTTTCACCAGCAAGCCCAGTGCCCAGTGAGACAGCCGCAGTCTCAGTTTTCCCTCAGGGCTATGGTgtacttcttcaattctttcttcaagtgccgaaatgttttgtctgcacttt Alignment from Exonerate_protein2genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG cacccacctcctgcatcttctgacctggtttctttccttggctctcttagAAACGGAAGGTAGAGGTGGTTTCACCAGCAAGCCCAGTGCCCAGTGAGACAGCCGCAGTCTCAGTTTTCCCTCAGggctatggtgtacttcttcaattctttcttcaagtgccgaaatgttttgtctgcacttt Alignment from Exonerate_coding2genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG cacccacctcctgcatcttctgacctggtttctttccttggctctcttagAAACGGAAGGTAGAGGTGGTTTCACCAGCAAGCCCAGTGCCCAGTGAGACAGCCGCAGTCTCAGTTTTCCCTCAGggctatggtgtacttcttcaattctttcttcaagtgccgaaatgttttgtctgcacttt Alignment from GeneWise AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG--------- cacccacctcctgcatcttctgacctggtttctttccttggctctcttagAAACGGAAGGTAGAGGTGGTTTCACCAGCAAGCCCAGTGCCCAGTGAGACAGCCGCAGTCTCAGTTTTCCCTCAGGGCTATGGTgtacttcttcaattctttcttcaagtgccgaaatgttttgtctgcacttt #### Kat5_ID1120_2 --> 0 - 1 Original Alignment GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc tgccagtacccagccccatcctctttcatgtttatttgttttttgctcag------------GAGGGATGCCGCCTGCCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGcgtgagggttctctgggggccagtccgaagaagctgagggcggggggcagg Alignment from CESAR GGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGc gagccagaggcctgccagtacccagtcatgtttatttgttttttgctcag------------GAGGGATGCCGCCTGCCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGcgtgagggttctctgggggccagtccgaagaagctgagggcggggggcagg Alignment from Spaln_aa2Genome GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC tgccagtacccagccccatcctctttcatgtttatttgttttttgctcagGAGGGATGCCGCCTGCCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggttctctgggggccagtccgaagaagctgagggcggggggcagg Alignment from Spaln_nt2Genome CGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC tgccagtacccagccccatcctctttcatgtttatttgttttttgctcag-GAGGGATGCCGCCTGCCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggttctctgggggccagtccgaagaagctgagggcggggggcagg Alignment from Pairagon GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC tgccagtacccagccccatcctctttcatgtttatttgttttttgctcagGAGGGATGCCGCCTGCCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggttctctgggggccagtccgaagaagctgagggcggggggcagg Alignment from Exonerate_protein2genome GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC tgccagtacccagccccatcctctttcatgtttatttgttttttgctcagGAGGGATGCCGCCTGCCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggttctctgggggccagtccgaagaagctgagggcggggggcagg Alignment from Exonerate_coding2genome GAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC tgccagtacccagccccatcctctttcatgtttatttgttttttgctcagGAGGGATGCCGCCTGCCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggttctctgggggccagtccgaagaagctgagggcggggggcagg Alignment from GeneWise GCGGAGGTGGGGGAGATAATCGAGGGCTGCCGCCTGCCCGTGCTGCGGCGCAACCAGGACAACGAAGATGAGTGGC tgccagtacccagccccatcctctttcatGTTTATTTGTTTTTTGCTCAGGAGGGATGCCGCCTGCCTGTCCTTCGGCGCAATCAAGATAATGAAGATGAGTGGCgtgagggttctctgggggccagtccgaagaagctgagggcggggggcagg #### Kazald1_ID9301_3 --> 0 - 1 Original Alignment TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTCACACCAg ggagcaggacttctgcaaataactttccttcattttgtttttaaaaacagTTCAGGGGTGGACCTCAAAAGTTTGAAGTGACCAGCTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTTACCCGAAATGCTCTCGGCCAAGCTGAAGCCTCTGCAACCCTGACAGTACTC------ggtaaaaccgcaggtgagcactgggtgctaggatgagtcatgatagggctc Alignment from CESAR TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTC------ACACCAg ggagcaggacttctgcaaataactttccttcattttgtttttaaaaacagTTCAGGGGTGGACCTCAAAAGTTTGAAGTGACCAGCTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTTACCCGAAATGCTCTCGGCCAAGCTGAAGCCTCTGCAACCCTGACAGTACTCGGTAAAACCGCAggtgagcactgggtgctaggatgagtcatgatagggctc Alignment from Spaln_aa2Genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTC------ACACCAG ggagcaggacttctgcaaataactttccttcattttgtttttaaaaacagTTCAGGGGTGGACCTCAAAAGTTTGAAGTGACCAGCTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTTACCCGAAATGCTCTCGGCCAAGCTGAAGCCTCTGCAACCCTGACAGTACTCGGTAAAACCGCAGgtgagcactgggtgctaggatgagtcatgatagggctc Alignment from Spaln_nt2Genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTC------ACACCAG ggagcaggacttctgcaaataactttccttcattttgtttttaaaaacagTTCAGGGGTGGACCTCAAAAGTTTGAAGTGACCAGCTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTTACCCGAAATGCTCTCGGCCAAGCTGAAGCCTCTGCAACCCTGACAGTACTCGGTAAAACCGCAGgtgagcactgggtgctaggatgagtcatgatagggctc Alignment from Pairagon TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTC------ACACCAG ggagcaggacttctgcaaataactttccttcattttgtttttaaaaacagTTCAGGGGTGGACCTCAAAAGTTTGAAGTGACCAGCTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTTACCCGAAATGCTCTCGGCCAAGCTGAAGCCTCTGCAACCCTGACAGTACTCGGTAAAACCGCAGgtgagcactgggtgctaggatgagtcatgatagggctc Alignment from Exonerate_protein2genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTC------ACACCAG ggagcaggacttctgcaaataactttccttcattttgtttttaaaaacagTTCAGGGGTGGACCTCAAAAGTTTGAAGTGACCAGCTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTTACCCGAAATGCTCTCGGCCAAGCTGAAGCCTCTGCAACCCTGACAGTACTCGGTAAAACCGCAGgtgagcactgggtgctaggatgagtcatgatagggctc Alignment from Exonerate_coding2genome TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTC------ACACCAG ggagcaggacttctgcaaataactttccttcattttgtttttaaaaacagTTCAGGGGTGGACCTCAAAAGTTTGAAGTGACCAGCTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTTACCCGAAATGCTCTCGGCCAAGCTGAAGCCTCTGCAACCCTGACAGTACTCGGTAAAACCGCAGgtgagcactgggtgctaggatgagtcatgatagggctc Alignment from GeneWise TTTAGGGGTGGACCTCAGAAGTTTGAGGTGACTGGCTGGCTACAGATTCAAGCTTTGCGCCCTAGTGATGAGGGCACCTACCGTTGCCTTGCCCGGAATGCTCTGGGCCAAGCGGAAGCTTCTGCAACCCTCACAGTGCTC------ACACCAG ggagcaggacttctgcaaataactttccttcattttgtttttaaaaacagTTCAGGGGTGGACCTCAAAAGTTTGAAGTGACCAGCTCACTACAGATTCAGGCTTTGCACCATAGTGATGAAGGCACTTACCGTTGCCTTACCCGAAATGCTCTCGGCCAAGCTGAAGCCTCTGCAACCCTGACAGTACTCGGTAAAACCGCAGgtgagcactgggtgctaggatgagtcatgatagggctc #### Kcnip2_ID9606_6 --> 2 - 0 Original Alignment acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG agggaaactggatatgcctgcgagtcacagattcttttctctaattgcagac------AACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgtgaggcaggatagatgatgggccaaacaaactaagtctattaccctgga Alignment from CESAR acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG cagccaagggaaactggatatgcctcacagattcttttctctaattgcagac------AACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgtgaggcaggatagatgatgggccaaacaaactaagtctattaccctgga Alignment from Spaln_aa2Genome GCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG agggaaactggatatgcctgcgagtcacagattcttttctctaattgcagACAACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgtgaggcaggatagatgatgggccaaacaaactaagtctattaccctgga Alignment from Spaln_nt2Genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG agggaaactggatatgcctgcgagtcacagattcttttctctaattgcagA------CAACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgtgaggcaggatagatgatgggccaaacaaactaagtctattaccctgga Alignment from Pairagon ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG agggaaactggatatgcctgcgagtcacagattcttttctctaattgcagA------CAACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgtgaggcaggatagatgatgggccaaacaaactaagtctattaccctgga Alignment from Exonerate_protein2genome GCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG agggaaactggatatgcctgcgagtcacagattcttttctctaattgcagACAACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgtgaggcaggatagatgatgggccaaacaaactaagtctattaccctgga Alignment from Exonerate_coding2genome GCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG agggaaactggatatgcctgcgagtcacagattcttttctctaattgcagACAACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgtgaggcaggatagatgatgggccaaacaaactaagtctattaccctgga Alignment from GeneWise GCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG agggaaactggatatgcctgcgagtcacagattcttttctctaattgcagACAACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAAgtgaggcaggatagatgatgggccaaacaaactaagtctattaccctgga #### Kcnk4_ID1876_4 --> 0 - 1 Original Alignment AAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCg cctggtatcttgatggctctttctgtattaatatatgtatgcactttcag---------GTACCACCAGGGCTGGTGAGAAGCCTGTCTGCAGTGCTCTTCCTGCTGATTGGATGCCTGCTTTTTGTGCTCACTCCTACCTTCGCATTGCCATACATGGAGAGCTCAAGCAAGTTGGAAGCCATCTACTTTGTTATTGTGACTCTCACCACTGTGGGCTTTGGTGATTACGTCCCTggtatgcctgcctttgcccagcatttaatacttttccattccatctatgta Alignment from CESAR AAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCg ttagagtttcctggtatcttgatggtattaatatatgtatgcactttcag---------GTACCACCAGGGCTGGTGAGAAGCCTGTCTGCAGTGCTCTTCCTGCTGATTGGATGCCTGCTTTTTGTGCTCACTCCTACCTTCGCATTGCCATACATGGAGAGCTCAAGCAAGTTGGAAGCCATCTACTTTGTTATTGTGACTCTCACCACTGTGGGCTTTGGTGATTACGTCCCTggtatgcctgcctttgcccagcatttaatacttttccattccatctatgta Alignment from Spaln_aa2Genome GTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG cctggtatcttgatggctctttctgtattaatatatgtatgcactttcagGTACCACCAGGGCTGGTGAGAAGCCTGTCTGCAGTGCTCTTCCTGCTGATTGGATGCCTGCTTTTTGTGCTCACTCCTACCTTCGCATTGCCATACATGGAGAGCTCAAGCAAGTTGGAAGCCATCTACTTTGTTATTGTGACTCTCACCACTGTGGGCTTTGGTGATTACGTCCCTGgtatgcctgcctttgcccagcatttaatacttttccattccatctatgta Alignment from Spaln_nt2Genome GTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG cctggtatcttgatggctctttctgtattaatatatgtatgcactttcagGTACCACCAGGGCTGGTGAGAAGCCTGTCTGCAGTGCTCTTCCTGCTGATTGGATGCCTGCTTTTTGTGCTCACTCCTACCTTCGCATTGCCATACATGGAGAGCTCAAGCAAGTTGGAAGCCATCTACTTTGTTATTGTGACTCTCACCACTGTGGGCTTTGGTGATTACGTCCCTGgtatgcctgcctttgcccagcatttaatacttttccattccatctatgta Alignment from Pairagon ACATCGAAGCAATCTTCTTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG cctggtatcttgatggctctttctgtattaatatatgtatgcactttcag-----------------------------GTACCACCAGGGCTGGTGAGAAGCCTGTCTGCAGTGCTCTTCCTGCTGATTGGATGCCTGCTTTTTGTGCTCACTCCTACCTTCGCATTGCCATACATGGAGAGCTCAAGCAAGTTGGAAGCCATCTACTTTGTTATTGTGACTCTCACCACTGTGGGCTTTGGTGATTACGTCCCTGgtatgcctgcctttgcccagcatttaatacttttccattccatctatgta Alignment from Exonerate_protein2genome AATCTTCTTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG cctggtatcttgatggctctttctgtattaaTATATGTATGCACTTTCAGGTACCACCAGGGCTGGTGAGAAGCCTGTCTGCAGTGCTCTTCCTGCTGATTGGATGCCTGCTTTTTGTGCTCACTCCTACCTTCGCATTGCCATACATGGAGAGCTCAAGCAAGTTGGAAGCCATCTACTTTGTTATTGTGACTCTCACCACTGTGGGCTTTGGTGATTACGTCCCTGgtatgcctgcctttgcccagcatttaatacttttccattccatctatgta Alignment from Exonerate_coding2genome AATCTTCTTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG cctggtatcttgatggctctttctgtattaaTATATGTATGCACTTTCAGGTACCACCAGGGCTGGTGAGAAGCCTGTCTGCAGTGCTCTTCCTGCTGATTGGATGCCTGCTTTTTGTGCTCACTCCTACCTTCGCATTGCCATACATGGAGAGCTCAAGCAAGTTGGAAGCCATCTACTTTGTTATTGTGACTCTCACCACTGTGGGCTTTGGTGATTACGTCCCTGgtatgcctgcctttgcccagcatttaatacttttccattccatctatgta Alignment from GeneWise -----CACATCGAAGCAATCTTC---------------TTGAAGTGGCATGTGCCACCGGGGCTGGTGAGAAGTCTGTCCGCAGTGCTCTTCCTGCTGATCGGCTGCCTGCTCTTTGTCCTCACTCCTACCTTCGTGTTCTCCTACATGGAGAGCTGGAGCAAGTTAGAAGCCATCTACTTTGTTATAGTGACTCTCACCACTGTAGGCTTTGGCGATTATGTACCCG CCTGGTATCTTGATGGCTCTTTCTGTATTAATATATGTATGCACTTTCAGGTACCACCAGGGCTGGTGAGAAGCCTGTCTGCAGTGCTCTTCCTGCTGATTGGATGCCTGCTTTTTGTGCTCACTCCTACCTTCGCATTGCCATACATGGAGAGCTCAAGCAAGTTGGAAGCCATCTACTTTGTTATTGTGACTCTCACCACTGTGGGCTTTGGTGATTACGTCCCTGgtatgcctgcctttgcccagcatttaatacttttccattccatctatgta #### Kif11_ID7313_3 --> 0 - 2 Original Alignment GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTC---gc acttgcgtgatagaccttcacagttcctaattgttctcttacatcactagGTGTTTGGAGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTATAATTGTACCATTTCCATTgtgtcagtaacaacttctcaagtttagaagatatgtatgtgtgtatatgctg Alignment from CESAR GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTC---gc acttgcgtgatagaccttcacagttcctaattgttctcttacatcactagGTGTTTGGAGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTATAATTGTACCATTTCCATTgtgtcagtaacaacttctcaagtttagaagatatgtatgtgtgtatatgctg Alignment from Spaln_aa2Genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATC---TTCGC acttgcgtgatagaccttcacagttcctaattgttctcttacatcactagGTGTTTGGAGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTATAATTGTACCATTTCCATTGTgtcagtaacaacttctcaagtttagaagatatgtatgtgtgtatatgctg Alignment from Spaln_nt2Genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTC---GC acttgcgtgatagaccttcacagttcctaattgttctcttacatcactagGTGTTTGGAGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTATAATTGTACCATTTCCATTGTgtcagtaacaacttctcaagtttagaagatatgtatgtgtgtatatgctg Alignment from Pairagon GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTC---GC acttgcgtgatagaccttcacagttcctaattgttctcttacatcactagGTGTTTGGAGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTATAATTGTACCATTTCCATTGTgtcagtaacaacttctcaagtttagaagatatgtatgtgtgtatatgctg Alignment from Exonerate_protein2genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATC---TTCGC acttgcgtgatagaccttcacagttcctaattgttctcttacatcactagGTGTTTGGAGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTATAATTGTACCATTTCCATTGTgtcagtaacaacttctcaagtttagaagatatgtatgtgtgtatatgctg Alignment from Exonerate_coding2genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATC---TTCGC acttgcgtgatagaccttcacagttcctaattgttctcttacatcactagGTGTTTGGAGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTATAATTGTACCATTTCCATTGTgtcagtaacaacttctcaagtttagaagatatgtatgtgtgtatatgctg Alignment from GeneWise GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCGCA-- acttgcgtgatagaccttcacagttcctaattgttctcttacatcactagGTGTTTGGAGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGATGTAATTATGGGCTATAATTGTACCATTTCCATTGTgtcagtaacaacttctcaagtttagaagatatgtatgtgtgtatatgctg #### Kif20b_ID6998_3 --> 0 - 0 Original Alignment GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--- ttttacttttttccataaacacattctctactgtattttttctaacccag------GTGCAAATTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATACTTGGTCACTTAAGTCAGAAAAGCTCTGGACAGGTGGCACAAAAATTCAGTTTTTCTAAAATTgtgagtagtgccctgttagactgagaaagccaaaagaaactaatagcatt Alignment from CESAR GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--- ttttacttttttccataaacacattctctactgtattttttctaacccag------GTGCAAATTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATACTTGGTCACTTAAGTCAGAAAAGCTCTGGACAGGTGGCACAAAAATTCAGTTTTTCTAAAATTgtgagtagtgccctgttagactgagaaagccaaaagaaactaatagcatt Alignment from Spaln_aa2Genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--- ttttacttttttccataaacacattctctactgtattttttctaacccag------GTGCAAATTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATACTTGGTCACTTAAGTCAGAAAAGCTCTGGACAGGTGGCACAAAAATTCAGTTTTTCTAAAATTgtgagtagtgccctgttagactgagaaagccaaaagaaactaatagcatt Alignment from Spaln_nt2Genome GTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--- ttttacttttttccataaacacattctctactgtattttttctaacccagGTGCAAATTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATACTTGGTCACTTAAGTCAGAAAAGCTCTGGACAGGTGGCACAAAAATTCAGTTTTTCTAAAATTgtgagtagtgccctgttagactgagaaagccaaaagaaactaatagcatt Alignment from Pairagon GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--- ttttacttttttccataaacacattctctactgtattttttctaacccag------GTGCAAATTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATACTTGGTCACTTAAGTCAGAAAAGCTCTGGACAGGTGGCACAAAAATTCAGTTTTTCTAAAATTgtgagtagtgccctgttagactgagaaagccaaaagaaactaatagcatt Alignment from Exonerate_protein2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--- ttttacttttttccataaacacattctctactgtattttttctaACCCAGGTGCAAATTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATACTTGGTCACTTAAGTCAGAAAAGCTCTGGACAGGTGGCACAAAAATTCAGTTTTTCTAAAATTgtgagtagtgccctgttagactgagaaagccaaaagaaactaatagcatt Alignment from Exonerate_coding2genome GGCTGTGTGCAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAG--- ttttacttttttccataaacacattctctactgtattttttctaACCCAGGTGCAAATTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATACTTGGTCACTTAAGTCAGAAAAGCTCTGGACAGGTGGCACAAAAATTCAGTTTTTCTAAAATTgtgagtagtgccctgttagactgagaaagccaaaagaaactaatagcatt Alignment from GeneWise ---CAAGTTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGCATCCTTGGCCACTTAAGTGAGAAGAGCTCTGGACAGGTGGCACAGAAATTCAGTTTTTCTAAGGTT ttttacttttttccataaacacattctctactgtattttttctaacccagGTGCAAATTTTGGATTCACAGTCTGTTCTGCTGAAAGACCCTCAAAGTATACTTGGTCACTTAAGTCAGAAAAGCTCTGGACAGGTGGCACAAAAATTCAGTTTTTCTAAAATTgtgagtagtgccctgttagactgagaaagccaaaagaaactaatagcatt #### Kif20b_ID7004_9 --> 1 - 2 Original Alignment t------CACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTga gcattgaaatgtggaatgaaaatatttgaagtctttcttgtttccaccagtGAAGGTCATAGCATATTCACTATCAGAATATTACAGATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTgagtgagttggaaccttttttaagttgggagttttttcggaatgaaaaactt Alignment from CESAR t------CACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTga gcattgaaatgtggaatgaaaatatttgaagtctttcttgtttccaccagtGAAGGTCATAGCATATTCACTATCAGAATATTACAGATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTgagtgagttggaaccttttttaagttgggagttttttcggaatgaaaaactt Alignment from Spaln_aa2Genome T------CACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTGA gcattgaaatgtggaatgaaaatatttgaagtctttcttgtttccaccagTGAAGGTCATAGCATATTCACTATCAGAATATTACAGATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTGAgtgagttggaaccttttttaagttgggagttttttcggaatgaaaaactt Alignment from Spaln_nt2Genome GTCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTGA gcattgaaatgtggaatgaaaatatttgaagtctttcttgtttccaccagtgaagGTCATAGCATATTCACTATCAGAATATTACAGATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTGAgtgagttggaaccttttttaagttgggagttttttcggaatgaaaaactt Alignment from Pairagon ------TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTGA gcattgaaatgtggaatgaaaatatttgaagtctttcttgtttccaccagTGAAGGTCATAGCATATTCACTATCAGAATATTACAGATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTGAgtgagttggaaccttttttaagttgggagttttttcggaatgaaaaactt Alignment from Exonerate_protein2genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTGA gcattgaaatgtggaatgaaaatatttgaagtctttcttgtttccaccagtgaaggTCATAGCATATTCACTATCAGAATATTACAGATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTGAgtgagttggaaccttttttaagttgggagttttttcggaatgaaaaactt Alignment from Exonerate_coding2genome TCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTGA gcattgaaatgtggaatgaaaatatttgaagtctttcttgtttccaccagtgaaggTCATAGCATATTCACTATCAGAATATTACAGATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTGAgtgagttggaaccttttttaagttgggagttttttcggaatgaaaaactt Alignment from GeneWise ----AGTCACAGCATATTCACTATTAGAATATTACAGATAGAAGATTCTGAAATACCTCGTGTAACACGAGTTAGTGA gcattgaaatgtggaatgaaaatatttgaagtctttcttgtttccaccagTGAAGGTCATAGCATATTCACTATCAGAATATTACAGATAGAAGATTCTGAGATACCTCGTGTTACACGAGTTAGTGAgtgagttggaaccttttttaagttgggagttttttcggaatgaaaaactt #### Kif20b_ID7008_13 --> 0 - 2 Original Alignment GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTT------------aa tcaaagatgcaatcatagatgactgggattacactctttcccacttgcagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAAAATCAAGAAAAATTATCATTGGAACTTAAGATCCGAGAAGACGTTACACAGGAATTCACACAGTATTGGAGCCAACGGGAAGCTGATTTTTCCGATAATGGGaagtaatatattcctctgtcatatcctggcaaagatttagacttatttttta Alignment from CESAR GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTT------------aa tcaaagatgcaatcatagatgactgggattacactctttcccacttgcagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAAAATCAAGAAAAATTATCATTGGAACTTAAGATCCGAGAAGACGTTACACAGGAATTCACACAGTATTGGAGCCAACGGGAAGCTGATTTTTCCGATAATGGGaagtaatatattcctctgtcatatcctggcaaagatttagacttatttttta Alignment from Spaln_aa2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAAG----------- tcaaagatgcaatcatagatgactgggattacactctttcccacttgcagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAAAATCAAGAAAAATTATCATTGGAACTTAAGATCCGAGAAGACGTTACACAGGAATTCACACAGTATTGGAGCCAACGGGAAGCTGATTTTTCCGATAATGGGAAgtaatatattcctctgtcatatcctggcaaagatttagacttatttttta Alignment from Spaln_nt2Genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTT------------AA tcaaagatgcaatcatagatgactgggattacactctttcccacttgcagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAAAATCAAGAAAAATTATCATTGGAACTTAAGATCCGAGAAGACGTTACACAGGAATTCACACAGTATTGGAGCCAACGGGAAGCTGATTTTTCCGATAATGGGAAgtaatatattcctctgtcatatcctggcaaagatttagacttatttttta Alignment from Pairagon GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTT------------AA tcaaagatgcaatcatagatgactgggattacactctttcccacttgcagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAAAATCAAGAAAAATTATCATTGGAACTTAAGATCCGAGAAGACGTTACACAGGAATTCACACAGTATTGGAGCCAACGGGAAGCTGATTTTTCCGATAATGGGAAgtaatatattcctctgtcatatcctggcaaagatttagacttatttttta Alignment from Exonerate_protein2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAAGG tcaaagatgcaatcatagatgactgggattacactctttcccacttgcagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAAAATCAAGAAAAATTATCATTGGAACTTAAGATCCGAGAAGACGTTACACAGGAATTCACACAGTATTGGAGCCAACGGGAAGCTGATTTTTCCGataatgggaagtaatatattcctctgtcatatcctggcaaagatttagacttatttttta Alignment from Exonerate_coding2genome GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTTAAGG tcaaagatgcaatcatagatgactgggattacactctttcccacttgcagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAAAATCAAGAAAAATTATCATTGGAACTTAAGATCCGAGAAGACGTTACACAGGAATTCACACAGTATTGGAGCCAACGGGAAGCTGATTTTTCCGataatgggaagtaatatattcctctgtcatatcctggcaaagatttagacttatttttta Alignment from GeneWise GAACTGTTGGATTTAATAGAAAAGTTGAATAAAAGACTAATAAATGAAAATAAAGAAAAATTAACATTGGAACTTAAAATCCGAGAAGAAGTTACACAGGAATTCACTCAGTATTGGAGCCAACGGGAAGCCGATTTT------------AA tcaaagatgcaatcatagatgactgggattacactctttcccacttgcagGAACTGTTGGATTTGATAGAAAAGTTGAATAAAAGATTAATAAATGAAAATCAAGAAAAATTATCATTGGAACTTAAGATCCGAGAAGACGTTACACAGGAATTCACACAGTATTGGAGCCAACGGGAAGCTGATTTTTCCGATAATGGGAAgtaatatattcctctgtcatatcctggcaaagatttagacttatttttta #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ctgtaagactaccatgaatggacgtggcatgaagtctgttttctccaaag------AGTGGCTCTCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGTAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTaggtatggcattagctctcccttcattctgagaacatactatcactcataag Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTag ggtgggctgtaagactaccatgaatggcatgaagtctgttttctccaaag------AGTGGCTCTCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGTAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTaggtatggcattagctctcccttcattctgagaacatactatcactcataag Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ctgtaagactaccatgaatggacgtggcatgaagtctgttttctccaaag------AGTGGCTCTCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGTAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTAGgtatggcattagctctcccttcattctgagaacatactatcactcataag Alignment from Spaln_nt2Genome AGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ctgtaagactaccatgaatggacgtggcatgaagtctgttttctccaaagAGTGGCTCTCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGTAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTAGgtatggcattagctctcccttcattctgagaacatactatcactcataag Alignment from Pairagon GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ctgtaagactaccatgaatggacgtggcatgaagtctgttttctccaaag------AGTGGCTCTCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGTAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTAGgtatggcattagctctcccttcattctgagaacatactatcactcataag Alignment from Exonerate_protein2genome CAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ctgtaagactaccatgaatggacgtggcatgaagtctgttttctccaaaGAGTGGCTCTCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGTAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTAGgtatggcattagctctcccttcattctgagaacatactatcactcataag Alignment from Exonerate_coding2genome CAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAG ctgtaagactaccatgaatggacgtggcatgaagtctgttttctccaaaGAGTGGCTCTCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGTAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTAGgtatggcattagctctcccttcattctgagaacatactatcactcataag Alignment from GeneWise AGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCT-- ctgtaagactaccatgaatggacgtggcatgaagtctgttttctccaaagAGTGGCTCTCTTCAGTGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGTAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTAGgtatggcattagctctcccttcattctgagaacatactatcactcataag #### Klc2_ID854_12 --> 0 - 0 Original Alignment GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tacaagacttcatgtatactttggtcacgtctctctttcttgcctcacagGGCCTAGATCCCGCCAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTGGACCTGGAAGAGTCAGAGCCTGCGGCAGAGTGGAGT---gtaagtagtgtgtaaccagaggtgggctgtaagactaccatgaattaaaa Alignment from CESAR GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG tacaagacttcatgtatactttggtcacgtctctctttcttgcctcacagGGCCTAGATCCCGCCAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTGGACCTGGAAGAGTCAGAGCCTGCGGCAGAGTGGAGT---gtaagtagtgtgtaaccagaggtgggctgtaagactaccatgggacg Alignment from Spaln_aa2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGT tacaagacttcatgtatactttggtcacgtctctctttcttgcctcacagGGCCTAGATCCCGCCAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTGGACCTGGAAGAGTCAGAGCCTGCGGCAGAGTGGAGTgtaagtagtgtgtaaccagaggtgggctgtaagactaccatgaattaaaa Alignment from Spaln_nt2Genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTGGG- tacaagacttcatgtatactttggtcacgtctctctttcttgcctcacagGGCCTAGATCCCGCCAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGTAGAGATGTGGTTGGGCCTC---CTGAGTTGGACCTGGAAGAGTCAGAGCCTGCGGCAGAGTGGAGTGTAAgtagtgtgtaaccagaggtgggctgtaagactaccatgaattaaaa Alignment from Pairagon GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGTG------------------------------------------------- tacaagacttcatgtatactttggtcacgtctctctttcttgcctcacagGGCCTAGATCCCGCCAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGTAGAGATGTGGTTGGGCCTC---CTGAGTTGGACCTGGAAGAGTCAGAGCCTGCGGCAGAGTGGAGTGTAAGTAGTGTGTAACCAGAGGTGGGCTGTAAGACTACCATGAATTAAAA Alignment from Exonerate_protein2genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGT tacaagacttcatgtatactttggtcacgtctctctttcttgcctcacagGGCCTAGATCCCGCCAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTGGACCTGGAAGAGTCAGAGCCTGCGGCAGAGTGGAGTgtaagtagtgtgtaaccagaggtgggctgtaagactaccatgaattaaaa Alignment from Exonerate_coding2genome GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGT tacaagacttcatgtatactttggtcacgtctctctttcttgcctcacagGGCCTAGATCCCGCCAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGTAGAGATGTGGTTGGGCCT---CCTGAGTTGGACCTGGAAGAGTCAGAGCCTGCGGCAGAGTGGAGTgtaagtagtgtgtaaccagaggtgggctgtaagactaccatgaattaaaa Alignment from GeneWise GGCCTGGATCCTGCCAGCCAGACCAAGGTGGTAGAACTGTTAAAAGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGCAGAGATGTGGCTGGGCCTCAATCTGAGTCGGACCTGGAGGAGTCAGGGCCTGCAGCTGAGTGGAGT------GGG tacaagacttcatgtatactttggtcacgtctctctttcttgcctcacagGGCCTAGATCCCGCCAGTCAGACCAAGGTGGTAGAACTGTTAAAGGATGGCAGTGGTGGACGAGGACACCGCCGTGGCAGTAGAGATGTGGTTGGGCCTCCT---GAGTTGGACCTGGAAGAGTCAGAGCCTGCGGCAGAGTGGAGTGTAAGTAGTgtgtaaccagaggtgggctgtaagactaccatgaattaaaa #### Klc2_ID860_6 --> 0 - 0 Original Alignment GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG ctgcctgctagggccctgaatgaagacaaccatgttctctctgaacccagGTGGCCGCAACCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTGTGCAAGAGGGCACTTGAAATCCGAGAG---gtgaggagtacaggtacgacagcatggcaagagtgccaagcaaacagtag Alignment from CESAR GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG ctgcctgctagggccctgaatgaagacaaccatgttctctctgaacccagGTGGCCGCAACCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTGTGCAAGAGGGCACTTGAAATCCGAGAG---gtgaggagtacaggtacgacagcatggcaagagtgccaagcaaacag Alignment from Spaln_aa2Genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAG ctgcctgctagggccctgaatgaagacaaccatgttctctctgaacccagGTGGCCGCAACCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTGTGCAAGAGGGCACTTGAAATCCGAGAGgtgaggagtacaggtacgacagcatggcaagagtgccaagcaaacagtag Alignment from Spaln_nt2Genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGA----------AG ctgcctgctagggccctgaatgaagacaaccatgttctctctgaacccagGTGGCCGCAACCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTGTGCAAGAGGGCACTTGAAATCCGAGAGGTGAGGAGTACAGgtacgacagcatggcaagagtgccaagcaaacagtag Alignment from Pairagon GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAG ctgcctgctagggccctgaatgaagacaaccatgttctctctgaacccagGTGGCCGCAACCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTGTGCAAGAGGGCACTTGAAATCCGAGAGgtgaggagtacaggtacgacagcatggcaagagtgccaagcaaacagtag Alignment from Exonerate_protein2genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG ctgcctgctagggccctgaatgaagacaaccatgttctctctgaacccagGTGGCCGCAACCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTGTGCAAGAGGGCACTTGAAATCCGAGAG---gtgaggagtacaggtacgacagcatggcaagagtgccaagcaaacag Alignment from Exonerate_coding2genome GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG ctgcctgctagggccctgaatgaagacaaccatgttctctctgaacccagGTGGCCGCAACCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTGTGCAAGAGGGCACTTGAAATCCGAGAG---gtgaggagtacaggtacgacagcatggcaagagtgccaagcaaacag Alignment from GeneWise GTGGCTGCGACCCTCAACAATCTGGCTGTTCTCTACGGCAAACGGGGCAAGTACAAAGAGGCTGAGCCACTGTGCAAGAGAGCACTGGAGATCCGGGAGAAG ctgcctgctagggccctgaatgaagacaaccatgttctctctgaacccagGTGGCCGCAACCCTCAATAATCTGGCTGTGCTTTATGGCAAACGGGGCAAGTACCAAGAAGCTGAGCCACTGTGCAAGAGGGCACTTGAAATCCGA---GAGgtgaggagtacaggtacgacagcatggcaagagtgccaagcaaacagtag #### Klc2_ID863_3 --> 0 - 1 Original Alignment GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA---------g ccgatacatctgctgctcaggccaacaaccttttgcctttctggttgcagAAGGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCACTTGTAAATggtacagaggggcaattagctatggcaattagctatgagttcggagagggt Alignment from CESAR GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA--g ccgatacatctgctgctcaggccaacaaccttttgcctttctggttgcagAAGGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCACTtgtaaatggtacagaggggcaattagctatggcaattagctatgagttcggagagggt Alignment from Spaln_aa2Genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA---------G ccgatacatctgctgctcaggccaacaaccttttgcctttctggttgcagAAGGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCACTTGTAAATGgtacagaggggcaattagctatggcaattagctatgagttcggagagggt Alignment from Spaln_nt2Genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG-- ccgatacatctgctgctcaggccaacaaccttttgcctttctggttgcagAAGGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCACTTgtaaatggtacagaggggcaattagctatggcaattagctatgagttcggagagggt Alignment from Pairagon GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAG ccgatacatctgctgctcaggccaacaaccttttgcctttctggttgcagAAGGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGgtcacttgtaaatggtacagaggggcaattagctatggcaattagctatgagttcggagagggt Alignment from Exonerate_protein2genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAG ccgatacatctgctgctcaggccaacaaccttttgcctttctggttgcagAAGGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGgtcacttgtaaatggtacagaggggcaattagctatggcaattagctatgagttcggagagggt Alignment from Exonerate_coding2genome GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAG ccgatacatctgctgctcaggccaacaaccttttgcctttctggttgcagAAGGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGgtcacttgtaaatggtacagaggggcaattagctatggcaattagctatgagttcggagagggt Alignment from GeneWise GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCA---------G ccgatacatctgctgctcaggccaacaaccttttgcctttctggttgcagAAGGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCACTTGTAAATGgtacagaggggcaattagctatggcaattagctatgagttcggagagggt #### Ldb1_ID9691_9 --> 0 - 1 Original Alignment CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCC---g ccttcctctgtttccagtagaggtcaattcttctgtctcttccaacccagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCTTATggtaatgcccttgccccatcctgctaaaatagctgtggtcctagcttcttc Alignment from CESAR CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCC---g ccttcctctgtttccagtagaggtcaattcttctgtctcttccaacccagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCTTATggtaatgcccttgccccatcctgctaaaatagctgtggtcctagcttcttc Alignment from Spaln_aa2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCGCGG ccttcctctgtttccagtagaggtcaattcttctgtctcttccaacccagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCTTATGgtaatgcccttgccccatcctgctaaaatagctgtggtcctagcttcttc Alignment from Spaln_nt2Genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCGCGG ccttcctctgtttccagtagaggtcaattcttctgtctcttccaacccagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCTTATGgtaatgcccttgccccatcctgctaaaatagctgtggtcctagcttcttc Alignment from Pairagon CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCC---CG ccttcctctgtttccagtagaggtcaattcttctgtctcttccaacccagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCTTATGgtaatgcccttgccccatcctgctaaaatagctgtggtcctagcttcttc Alignment from Exonerate_protein2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCGCGG ccttcctctgtttccagtagaggtcaattcttctgtctcttccaacccagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCTTATGgtaatgcccttgccccatcctgctaaaatagctgtggtcctagcttcttc Alignment from Exonerate_coding2genome CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCGCGG ccttcctctgtttccagtagaggtcaattcttctgtctcttccaacccagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCTTATGgtaatgcccttgccccatcctgctaaaatagctgtggtcctagcttcttc Alignment from GeneWise CTCTGTGTGATACTAGAGCCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCGCCTCCCGCG- ccttcctctgtttccagtagaggtcaattcttctgtctcttccaacccagCTCTGTGTGATACTAGAACCCATGCAGGAACTTATGTCCCGCCACAAGACCTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTCTTCCAGAAGTGGCAGCGAATGGTAGCACCTCCTTATGgtaatgcccttgccccatcctgctaaaatagctgtggtcctagcttcttc #### Ldb1_ID9693_7 --> 0 - 0 Original Alignment GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC--- tagtagtaaaagaccaagggcaaaggatggtgcatttacctaccgtgcagGTGTGTGTGGAAGGACGGTTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCAAGAAGTATCCTGGCCATGCATATGgtactgttgtgccagcacctgagataagggttggggagaccacttcgatt Alignment from CESAR GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC--- tagtagtaaaagaccaagggcaaaggatggtgcatttacctaccgtgcagGTGTGTGTGGAAGGACGGTTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCAAGAAGTATCCTGGCCATGCATATGgtactgttgtgccagcacctgagataagggttggggagaccacttcgatt Alignment from Spaln_aa2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC--- tagtagtaaaagaccaagggcaaaggatggtgcatttacctaccgtgcagGTGTGTGTGGAAGGACGGTTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCAAGAAGTATCCTGGCCATGCATATGgtactgttgtgccagcacctgagataagggttggggagaccacttcgatt Alignment from Spaln_nt2Genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC--- tagtagtaaaagaccaagggcaaaggatggtgcatttacctaccgtgcagGTGTGTGTGGAAGGACGGTTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCAAGAAGTATCCTGGCCATGCATATGgtactgttgtgccagcacctgagataagggttggggagaccacttcgatt Alignment from Pairagon GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC----------------------------------------------------- tagtagtaaaagaccaagggcaaaggatggtgcatttacctaccgtgcagGTGTGTGTGGAAGGACGGTTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCAAGAAGTATCCTGGCCATGCATATGGTACTGTTGTGCCAGCACCTGAGATAAGGGTTGGGGAGACCACTTCGATT Alignment from Exonerate_protein2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tagtagtaaaagaccaagggcaaaggatggtgcatttacctaccgtgcagGTGTGTGTGGAAGGACGGTTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCAAGAAGTATCCTGGCCATGCATatggtactgttgtgccagcacctgagataagggttggggagaccacttcgatt Alignment from Exonerate_coding2genome GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCAC tagtagtaaaagaccaagggcaaaggatggtgcatttacctaccgtgcagGTGTGTGTGGAAGGACGGTTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCAAGAAGTATCCTGGCCATGCATatggtactgttgtgccagcacctgagataagggttggggagaccacttcgatt Alignment from GeneWise GTGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACGTGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCCAGAAGTATCCTGGCCATGCACGCC tagtagtaaaagaccaagggcaaaggatggtgcatttacctaccgtgcagGTGTGTGTGGAAGGACGGTTGTACTTGGAGTTCATGTTTGATGACATGATGCGGATAAAGACATGGCACTTCAGCATCCGGCAACACAGAGAGCTCATCCCAAGAAGTATCCTGGCCATGCATATGgtactgttgtgccagcacctgagataagggttggggagaccacttcgatt #### Ldb1_ID9694_6 --> 2 - 0 Original Alignment ccATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- tcactatgtgacctctacctgtcctgaatgtatttattcattcccatcagccATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGGGATACAAAgtatgtaagccataagcacagtgaaacccaatatgatggccctaggggga Alignment from CESAR ccATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- tcactatgtgacctctacctgtcctgaatgtatttattcattcccatcagccATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGGGATACAAAgtatgtaagccataagcacagtgaaacccaatatgatggccctaggggga Alignment from Spaln_aa2Genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- tcactatgtgacctctacctgtcctgaatgtatttattcattcccatcagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGGGATACAAAgtatgtaagccataagcacagtgaaacccaatatgatggccctaggggga Alignment from Spaln_nt2Genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- tcactatgtgacctctacctgtcctgaatgtatttattcattcccatcagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGGGATACAAAgtatgtaagccataagcacagtgaaacccaatatgatggccctaggggga Alignment from Pairagon CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG------------- tcactatgtgacctctacctgtcctgaatgtatttattcattcccatcagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGGGATACAAAGTATgtaagccataagcacagtgaaacccaatatgatggccctaggggga Alignment from Exonerate_protein2genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG tcactatgtgacctctacctgtcctgaatgtatttattcattcccatcagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGggatacaaagtatgtaagccataagcacagtgaaacccaatatgatggccctaggggga Alignment from Exonerate_coding2genome CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG tcactatgtgacctctacctgtcctgaatgtatttattcattcccatcagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGggatacaaagtatgtaagccataagcacagtgaaacccaatatgatggccctaggggga Alignment from GeneWise CCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGCTGTACTACGTGCTCAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCACGGCAAACCCATGTTTACCCAG--------- tcactatgtgacctctacctgtcctgaatgtatttattcattcccatcagCCATTGGCCGGACCCTAATACCACGCTACTTCCGAAGCATTTTTGAGGGGGGTGCCACAGAGTTGTACTACGTGCTCAAGCACCCTAAGGAGGCATTCCACAGCAACTTCGTGTCCCTTGAATGTGATGAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGGGATACAAAgtatgtaagccataagcacagtgaaacccaatatgatggccctaggggga #### Ldb1_ID9695_5 --> 0 - 1 Original Alignment GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---a tgcctgggggacctcttatctaacccatccgtatctcaccactgtgacagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATTTGagtgaggtatctctgtgggagacactgttacaccttcgttatgtgtttctt Alignment from CESAR GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---a tgcctgggggacctcttatctaacccatccgtatctcaccactgtgacagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATTTGagtgaggtatctctgtgggagacactgttacaccttcgttatgtgtttctt Alignment from Spaln_aa2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---A tgcctgggggacctcttatctaacccatccgtatctcaccactgtgacagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATTTGAgtgaggtatctctgtgggagacactgttacaccttcgttatgtgtttctt Alignment from Spaln_nt2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---A tgcctgggggacctcttatctaacccatccgtatctcaccactgtgacagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATTTGAgtgaggtatctctgtgggagacactgttacaccttcgttatgtgtttctt Alignment from Pairagon ------------------------------------------------AGGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---A TGCCTGGGGGACCTCTTATCTAACCCATCCGTATCTCACCACTGTGACAGGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATTTGAgtgaggtatctctgtgggagacactgttacaccttcgttatgtgtttctt Alignment from Exonerate_protein2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---A tgcctgggggacctcttatctaacccatccgtatctcaccactgtgacagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATTTGAgtgaggtatctctgtgggagacactgttacaccttcgttatgtgtttctt Alignment from Exonerate_coding2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---A tgcctgggggacctcttatctaacccatccgtatctcaccactgtgacagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATTTGAgtgaggtatctctgtgggagacactgttacaccttcgttatgtgtttctt Alignment from GeneWise GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATACC- tgcctgggggacctcttatctaacccatccgtatctcaccactgtgacagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATTTGAgtgaggtatctctgtgggagacactgttacaccttcgttatgtgtttctt #### Ldb1_ID9696_4 --> 1 - 0 Original Alignment gAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG--------- gatggaataccacaacacacctactactcatcaattatttctatttctaggAGGCACACTCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGAACCATTGGAAgtaactcagggagagaggtccagaggagagtgcctgggggacctcttatc Alignment from CESAR gAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACA---------GAG gatggaataccacaacacacctactactcatcaattatttctatttctaggAGGCACACTCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGAACCATTGGAAgtaactcagggagagaggtccagaggagagtgcctgggggacctcttatc Alignment from Spaln_aa2Genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG--------- gatggaataccacaacacacctactactcatcaattatttctatttctagGAGGCACACTCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGAACCATTGGAAgtaactcagggagagaggtccagaggagagtgcctgggggacctcttatc Alignment from Spaln_nt2Genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG--------- gatggaataccacaacacacctactactcatcaattatttctatttctagGAGGCACACTCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGAACCATTGGAAgtaactcagggagagaggtccagaggagagtgcctgggggacctcttatc Alignment from Pairagon GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAG------------------------------------------------------------- gatggaataccacaacacacctactactcatcaattatttctatttctagGAGGCACACTCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGAACCATTGGAAGTAACTCAGGGAGAGAGGTCCAGAGGAGAGTGCCTGGGGGACCTCTTATC Alignment from Exonerate_protein2genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG gatggaataccacaacacacctactactcatcaattatttctatttctagGAGGCACACTCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGAAccattggaagtaactcagggagagaggtccagaggagagtgcctgggggacctcttatc Alignment from Exonerate_coding2genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG gatggaataccacaacacacctactactcatcaattatttctatttctagGAGGCACACTCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGAAccattggaagtaactcagggagagaggtccagaggagagtgcctgggggacctcttatc Alignment from GeneWise GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG------GAG gatggaataccacaacacacctactactcatcaattatttctatttctagGAGGCACACTCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGAACCATTGGAAgtaactcagggagagaggtccagaggagagtgcctgggggacctcttatc #### Ldb1_ID9697_3 --> 1 - 2 Original Alignment cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATC---------gg agtcagttttctgttccatggtcactctggaattttcttgccattcacagcCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGTTTATGGTgggtgagtggactgcagtataccacgaagtcttgcctctgcatgcacctgtg Alignment from CESAR cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATC---------gg agtcagttttctgttccatggtcactctggaattttcttgccattcacagcCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGTTTATGGTgggtgagtggactgcagtataccacgaagtcttgcctctgcatgcacctgtg Alignment from Spaln_aa2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGGG-------- agtcagttttctgttccatggtcactctggaattttcttgccattcacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGTTTATGGTGGgtgagtggactgcagtataccacgaagtcttgcctctgcatgcacctgtg Alignment from Spaln_nt2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCG-----G agtcagttttctgttccatggtcactctggaattttcttgccattcacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGTTTATGgtgggtgagtggactgcagtataccacgaagtcttgcctctgcatgcacctgtg Alignment from Pairagon CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCG---------G agtcagttttctgttccatggtcactctggaattttcttgccattcacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGTTTATGGTGGgtgagtggactgcagtataccacgaagtcttgcctctgcatgcacctgtg Alignment from Exonerate_protein2genome agtcagttttctgttccatggtcactctggaattttcttgccattcacagcccaactcccatgtacccacctacatacctggagcctgggatcgtttatggtgggtgagtggactgcagtataccacgaagtcttgcctctgcatgcacctgtg Alignment from Exonerate_coding2genome agtcagttttctgttccatggtcactctggaattttcttgccattcacagcccaactcccatgtacccacctacatacctggagcctgggatcgtttatggtgggtgagtggactgcagtataccacgaagtcttgcctctgcatgcacctgtg Alignment from GeneWise CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATC------GGG-- agtcagttttctgttccatggtcactctggaattttcttgccattcacagCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGTTTATGGTGGgtgagtggactgcagtataccacgaagtcttgcctctgcatgcacctgtg #### Lpxn_ID3473_6 --> 0 - 0 Original Alignment GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT--------- tcaggtatattctgctacacagccccgtgttttctgttcctctccttcagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATAAACTCTTAgtaagggaagccccacactgacagcacacatgcactaactgataatcaca Alignment from CESAR GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT--------- tcaggtatattctgctacacagccccgtgttttctgttcctctccttcagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATAAACTCTTAgtaagggaagccccacactgacagcacacatgcactaactgataatcact Alignment from Spaln_aa2Genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT--------- tcaggtatattctgctacacagccccgtgttttctgttcctctccttcagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATAAACTCTTAgtaagggaagccccacactgacagcacacatgcactaactgataatcaca Alignment from Spaln_nt2Genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGATAAAG----- tcaggtatattctgctacacagccccgtgttttctgttcctctccttcagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATAAACTCTTAgtaagggaagccccacactgacagcacacatgcactaactgataatcaca Alignment from Pairagon GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGAT----------------------------------------------------------- tcaggtatattctgctacacagccccgtgttttctgttcctctccttcagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATAAACTCTTAGTAAGGGAAGCCCCACACTGACAGCACACATGCACTAACTGATAATCACA Alignment from Exonerate_protein2genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAG tcaggtatattctgctacacagccccgtgttttctgttcctctccttcagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGataaactcttagtaagggaagccccacactgacagcacacatgcactaactgataatcaca Alignment from Exonerate_coding2genome GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAG tcaggtatattctgctacacagccccgtgttttctgttcctctccttcagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGataaactcttagtaagggaagccccacactgacagcacacatgcactaactgataatcaca Alignment from GeneWise GTGATCCATGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCAAAAGACTACCACCGCCTGTTCTCTCCACGCTGTGCCTACTGTGCTGCTCCCATCACAGATAAA------ tcaggtatattctgctacacagccccgtgttttctgttcctctccttcagGTGATCCACGCTCTGGGGCAATCCTGGCACCCAGAGCACTTTGTCTGCACTCACTGCAAGGAGGAGCTCGGCTCCAGTCCCTTCTTTGAGCGGAGTGGCCTGGCCTACTGCTCCAAAGACTACCACCGCCTGTTCTCTCCACACTGTGCCTACTGTGCTACTCCCATCACAGATAAACTCTTAgtaagggaagccccacactgacagcacacatgcactaactgataatcaca #### Ltbp3_ID1253_5 --> 2 - 1 Original Alignment atACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg gtgttcccccccgttttgtcgctatacatacagtaatgttcctcctgtagat---GGAGTTCAGAAACCTGGACCTGTACGCGGGGAGGTGGGTGCTGACTGTCCCCAGGGCTATAAGAGGCTTAACAGCACCCACTGCCAGggtaagtttacctggagatcctgtggactgttagatgggccggaggtcatg Alignment from CESAR atACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGg ccagtgttcccccccgttttgtcgcacatacagtaatgttcctcctgtagat---GGAGTTCAGAAACCTGGACCTGTACGCGGGGAGGTGGGTGCTGACTGTCCCCAGGGCTATAAGAGGCTTAACAGCACCCACTGCCAGggtaagtttacctggagatcctgtggactgttagatgggccggaggtcatg Alignment from Spaln_aa2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG gtgttcccccccgttttgtcgctatacatacagtaatgttcctcctgtagATGGAGTTCAGAAA---CCTGGACCTGTACGCGGGGAGGTGGGTGCTGACTGTCCCCAGGGCTATAAGAGGCTTAACAGCACCCACTGCCAGGgtaagtttacctggagatcctgtggactgttagatgggccggaggtcatg Alignment from Spaln_nt2Genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG gtgttcccccccgttttgtcgctatacatacagtaatgttcctcctgtagAT---GGAGTTCAGAAACCTGGACCTGTACGCGGGGAGGTGGGTGCTGACTGTCCCCAGGGCTATAAGAGGCTTAACAGCACCCACTGCCAGGgtaagtttacctggagatcctgtggactgttagatgggccggaggtcatg Alignment from Pairagon ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG gtgttcccccccgttttgtcgctatacatacagtaatgttcctcctgtagAT---GGAGTTCAGAAACCTGGACCTGTACGCGGGGAGGTGGGTGCTGACTGTCCCCAGGGCTATAAGAGGCTTAACAGCACCCACTGCCAGGgtaagtttacctggagatcctgtggactgttagatgggccggaggtcatg Alignment from Exonerate_protein2genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG gtgttcccccccgttttgtcgctatacatacagtaatgttcctcctgtagAT---GGAGTTCAGAAACCTGGACCTGTACGCGGGGAGGTGGGTGCTGACTGTCCCCAGGGCTATAAGAGGCTTAACAGCACCCACTGCCAGGgtaagtttacctggagatcctgtggactgttagatgggccggaggtcatg Alignment from Exonerate_coding2genome ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG gtgttcccccccgttttgtcgctatacatacagtaatgttcctcctgtagAT---GGAGTTCAGAAACCTGGACCTGTACGCGGGGAGGTGGGTGCTGACTGTCCCCAGGGCTATAAGAGGCTTAACAGCACCCACTGCCAGGgtaagtttacctggagatcctgtggactgttagatgggccggaggtcatg Alignment from GeneWise ATACAGGGGTGCAGAAGCCTGGACCTGTACGTGGGGAGGTGGGTGCTGACTGCCCCCAGGGCTACAAGAGGCTCAACAGCACCCACTGCCAGG gtgttcccccccgttttgtcgctatacatacagtaatgttcctcctgtagAT---GGAGTTCAGAAACCTGGACCTGTACGCGGGGAGGTGGGTGCTGACTGTCCCCAGGGCTATAAGAGGCTTAACAGCACCCACTGCCAGGgtaagtttacctggagatcctgtggactgttagatgggccggaggtcatg #### Ltbp3_ID1261_13 --> 2 - 1 Original Alignment at------GTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg aacataactcacccagtccacccacatccttgattgttctctgcccatagatCCTGATGTGAATGAGTGTGGGGCAGAGCCCTGCGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGggtaagaacaaatgggctagcccacacctgggtgtgggctgtttctactct Alignment from CESAR at------GTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGg aacataactcacccagtccacccacatccttgattgttctctgcccatagatCCTGATGTGAATGAGTGTGGGGCAGAGCCCTGCGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGggtaagaacaaatgggctagcccacacctgggtgtgggctgtttctactct Alignment from Spaln_aa2Genome ATGTGAACGAG------TGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aacataactcacccagtccacccacatccttgattgttctctgcccatagATCCTGATGTGAATGAGTGTGGGGCAGAGCCCTGCGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtaagaacaaatgggctagcccacacctgggtgtgggctgtttctactct Alignment from Spaln_nt2Genome TGATGTGAACGAG----TGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aacataactcacccagtccacccacatccttgattgttctctgcccatagATCCTGATGTGAATGAGTGTGGGGCAGAGCCCTGCGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtaagaacaaatgggctagcccacacctgggtgtgggctgtttctactct Alignment from Pairagon ------ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aacataactcacccagtccacccacatccttgattgttctctgcccatagATCCTGATGTGAATGAGTGTGGGGCAGAGCCCTGCGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtaagaacaaatgggctagcccacacctgggtgtgggctgtttctactct Alignment from Exonerate_protein2genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aacataactcacccagtccacccacatccttgattgttctctgcccatagatcctgATGTGAATGAGTGTGGGGCAGAGCCCTGCGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtaagaacaaatgggctagcccacacctgggtgtgggctgtttctactct Alignment from Exonerate_coding2genome ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aacataactcacccagtccacccacatccttgattgttctctgcccatagatcctgATGTGAATGAGTGTGGGGCAGAGCCCTGCGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtaagaacaaatgggctagcccacacctgggtgtgggctgtttctactct Alignment from GeneWise -----GATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG aacataactcacccagtccacccacatccttgattgttctctgcccatagATCCTGATGTGAATGAGTGTGGGGCAGAGCCCTGCGGCCCTGGAAAAGGTATCTGTATGACCACTGGTGGCTCTTACAATTGTCACTGCAACCGAGGCTACCGCCTCCATGTGGGTGCAGGGGGCCGCTCATGTGTGGgtaagaacaaatgggctagcccacacctgggtgtgggctgtttctactct #### Ltbp3_ID1268_20 --> 2 - 1 Original Alignment agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCA---------g tcagggctattatgactgtctctatgaacgtgtgccaattatctttacagagGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTACTGGCGACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCATTCGAAAGAggtacgtgggatatatcgaatcgtggatctatcaaatcgttcctagaactc Alignment from CESAR agGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCA---------g tcagggctattatgactgtctctatgaacgtgtgccaattatctttacagagGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTACTGGCGACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCATTCGAAAGAggtacgtgggatatatcgaatcgtggatctatcaaatcgttcctagaactc Alignment from Spaln_aa2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCA---------G tcagggctattatgactgtctctatgaacgtgtgccaattatctttacagAGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTACTGGCGACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCATTCGAAAGAGgtacgtgggatatatcgaatcgtggatctatcaaatcgttcctagaactc Alignment from Spaln_nt2Genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCA---------G tcagggctattatgactgtctctatgaacgtgtgccaattatctttacagAGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTACTGGCGACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCATTCGAAAGAGgtacgtgggatatatcgaatcgtggatctatcaaatcgttcctagaactc Alignment from Pairagon AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTC---------AG tcagggctattatgactgtctctatgaacgtgtgccaattatctttacagAGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTACTGGCGACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCATTCGAAAGAGgtacgtgggatatatcgaatcgtggatctatcaaatcgttcctagaactc Alignment from Exonerate_protein2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAG tcagggctattatgactgtctctatgaacgtgtgccaattatctttacagAGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTACTGGCGACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGctcattcgaaagaggtacgtgggatatatcgaatcgtggatctatcaaatcgttcctagaactc Alignment from Exonerate_coding2genome AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAG tcagggctattatgactgtctctatgaacgtgtgccaattatctttacagAGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTACTGGCGACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGctcattcgaaagaggtacgtgggatatatcgaatcgtggatctatcaaatcgttcctagaactc Alignment from GeneWise AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCA---------G tcagggctattatgactgtctctatgaacgtgtgccaattatctttacagAGGTGGAGCAGCCCCACCATAAGAAGGAGTGCTACCTTAACTTTGATGACACAGTGTTCTGTGACAGCGTACTGGCGACTAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGTGAAATCTATCCCTGTCCCATCTACAGCTCATTCGAAAGAGgtacgtgggatatatcgaatcgtggatctatcaaatcgttcctagaactc #### Ltbp3_ID1271_23 --> 2 - 1 Original Alignment acGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg agtgctactcagggaaccagctgaactccctgtgtggtgacttttcacagatTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCAC------------------------ggtgagtgctagtgaaacagtttgccgctttccagagttaggctctacgtg Alignment from CESAR acGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg agtgctactcagggaaccagctgaactccctgtgtggtgacttttcacagatTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCAC------------------------ggtgagtgctagtgaaacagtttgccgctttccagagttaggctctacgtg Alignment from Spaln_aa2Genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGC---CAGTGTCT agtgctactcagggaaccagctgaactccctgtgtggtgacttttcacagATTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACGGTGAGTGCTAgtgaaacagtttgccgctttccagagttaggctctacgtg Alignment from Spaln_nt2Genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCC agtgctactcagggaaccagctgaactccctgtgtggtgacttttcacagATTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACGgtgagtgctagtgaaacagtttgccgctttccagagttaggctctacgtg Alignment from Pairagon ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG agtgctactcagggaaccagctgaactccctgtgtggtgacttttcacagATTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCAC------------------------Ggtgagtgctagtgaaacagtttgccgctttccagagttaggctctacgtg Alignment from Exonerate_protein2genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCC agtgctactcagggaaccagctgaactccctgtgtggtgacttttcacagATTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACGgtgagtgctagtgaaacagtttgccgctttccagagttaggctctacgtg Alignment from Exonerate_coding2genome ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCC agtgctactcagggaaccagctgaactccctgtgtggtgacttttcacagATTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACGgtgagtgctagtgaaacagtttgccgctttccagagttaggctctacgtg Alignment from GeneWise ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGC---CAGTGT-- agtgctactcagggaaccagctgaactccctgtgtggtgacttttcacagATTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTTTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACGGTGAGTGCTAgtgaaacagtttgccgctttccagagttaggctctacgtg #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCC gtctcttttccccctccctccctcttgtcccttctttaactgttttacagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTCGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCACCA---------ggtgaggtatcatagggacccctgctcaatttcttaccccttaagggTCCC Alignment from CESAR agCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCC gtctcttttccccctccctccctcttgtcccttctttaactgttttacagagCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTCGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCACCA---------ggtgaggtatcatagggacctgaaccttttcatcttgtgcttcagggTCCC Alignment from Spaln_aa2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCA- CGTGGCA gtctcttttccccctccctccctcttgtcccttctttaactgttttacagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTCGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCACCAGgtgaggtatcatagggacccctgctcaatttcttaccccttaa Alignment from Spaln_nt2Genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GG gtctcttttccccctccctccctcttgtcccttctttaactgttttacagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTCGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCACCAGGTG----AGgtatcatagggacccctgctcaatttcttaccccttaagGG Alignment from Pairagon AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGT-----------GGCACC------------------------GGGTCCC gtctcttttccccctccctccctcttgtcccttctttaactgttttacagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTCGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCACCAGGTGAGGTATCATAGGGACCCCTGCTCAATTTCTTACCCCTTAAGGGTCCC Alignment from Exonerate_protein2genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCAC GTGGCACCGGGTCCC gtctcttttccccctccctccctcttgtcccttctttaactgttttacagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTCGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCACCAGgtgaggtatcatagggacccctgctcaatttcttaCCCCTTAAGGGTCCC Alignment from Exonerate_coding2genome AGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCAC GTGGCACCGGGTCCC gtctcttttccccctccctccctcttgtcccttctttaactgttttacagAGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTCGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCACCAGgtgaggtatcatagggacccctgctcaatttcttaCCCCTTAAGGGTCCC Alignment from GeneWise ACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCAC GTGGCA gtctcttttccccctccctccctcttgtcccttctttaactgttttacagagcatgccccagaaagATGTGAAGTATGCTGGGGACAGCGAGGAGAAGATGGTATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTCGATGACTGTTGCTGCCGCCAGGGCCGTGGCTGGGGGACCCAGTGCAGACCATGCCCACCAGgtgaggtatcatagggacccctgctcaatttcttaccccttaagGG---- #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment GCACCg gg---TCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg GTACTggtatagtatccctgatggatgatttaactttttctcaatttcagggTCGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCCCTGCTACTCGGT---------CGAggtgagtgaggctaaggggccaaacgtatagaagcccacttttagattttc Alignment from CESAR GCACCg gg---TCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg GTACTggtaagatatccctgatggatgatttaactttttctcaatttcagggTCGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCCCTGCTACTCGGT---------CGAggtgagtgaggctaaggggccaaacgtatagaagcccacttttagatgcct Alignment from Spaln_aa2Genome GCACCG GGTCCCAGTGC---CCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGgtatagtatccctgatggatgatttaactttttctcaatttcagGGTCGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCCCTGCTACTCGGT---------CGAGgtgagtgaggctaaggggccaaacgtatagaagcccacttttagattttc Alignment from Spaln_nt2Genome GCACCG GGTC---CCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGgtatagtatccctgatggatgatttaactttttctcaatttcagGGTCGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCCCTGCTACTCGG---------TCGAGgtgagtgaggctaaggggccaaacgtatagaagcccacttttagattttc Alignment from Pairagon GCACCGG-----------------------------------------------GTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGGTATAGTATCCCTGATGGATGATTTAACTTTTTCTCAATTTCAGGGTCGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCCCTGCTACTCGG---------TCGAGgtgagtgaggctaaggggccaaacgtatagaagcccacttttagattttc Alignment from Exonerate_protein2genome GCACCG GG---TCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGgtatagtatccctgatggatgatttaactttttctcaatttcagGGTCGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCCCTGCTACTCGGTCGAGGTGAGTGAGgctaaggggccaaacgtatagaagcccacttttagattttc Alignment from Exonerate_coding2genome GCACCG GG---TCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAG GTACTGgtatagtatccctgatggatgatttaactttttctcaatttcagGGTCGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCCCTGCTACTCGGTCGAGGTGAGTGAGgctaaggggccaaacgtatagaagcccacttttagattttc Alignment from GeneWise GCACC- --GGGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAG- ------ GTACTGgtatagtatccctgatggatgatttaactttttctcaatttcagGGTCGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCCCTGCTACTCGGTCGAGgtgagtgaggctaaggggccaaacgtatagaagcccacttttagATTTTC #### Ltbp3_ID1274_26 --> 2 - 1 Original Alignment acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG---------g ccaaacgtatagaagcccacttttagatgcctgacacagctcactcgcagacGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTGATTGGGCACTGTGTGCCACGCCCAGGCGGGGCGGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTTGTGTACTGGAAAGGggtacatatgacattagggactgagggacagagtgcactgggtgcagactg Alignment from CESAR acGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG---------g ccaaacgtatagaagcccacttttagatgcctgacacagctcactcgcagacGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTGATTGGGCACTGTGTGCCACGCCCAGGCGGGGCGGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTTGTGTACTGGAAAGGggtacatatgacattagggactgagggacagagtgcactgggtgcagactg Alignment from Spaln_aa2Genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG---------G ccaaacgtatagaagcccacttttagatgcctgacacagctcactcgcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTGATTGGGCACTGTGTGCCACGCCCAGGCGGGGCGGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTTGTGTACTGGAAAGGGgtacatatgacattagggactgagggacagagtgcactgggtgcagactg Alignment from Spaln_nt2Genome GTCTCCGCGAGACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCC ccaaacgtatagaagcccacttttagatgcctgacacagCTCACTCGCAGACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTGATTGGGCACTGTGTGCCACGCCCAGGCGGGGCGGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCgttgtgtactggaaaggggtacatatgacattagggactgagggacagagtgcactgggtgcagactg Alignment from Pairagon ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGT---------GG ccaaacgtatagaagcccacttttagatgcctgacacagctcactcgcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTGATTGGGCACTGTGTGCCACGCCCAGGCGGGGCGGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTTGTGTACTGGAAAGGGgtacatatgacattagggactgagggacagagtgcactgggtgcagactg Alignment from Exonerate_protein2genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG ccaaacgtatagaagcccacttttagatgcctgacacagctcactcgcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTGATTGGGCACTGTGTGCCACGCCCAGGCGGGGCGGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTTGTGTACtggaaaggggtacatatgacattagggactgagggacagagtgcactgggtgcagactg Alignment from Exonerate_coding2genome ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTGG ccaaacgtatagaagcccacttttagatgcctgacacagctcactcgcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTGATTGGGCACTGTGTGCCACGCCCAGGCGGGGCGGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTTGTGTACtggaaaggggtacatatgacattagggactgagggacagagtgcactgggtgcagactg Alignment from GeneWise ACGAAGACAGCTCAGAGGAGGATTCAGATGAGTGCCGTTGTGTGAGCGGACGCTGTGTGCCACGGCCAGGCGGGGCGGTATGCGAGTGTCCTGGAGGCTTTCAGCTGGACGCCTCCCGTGCCCGCTGCGTG---------G ccaaacgtatagaagcccacttttagatgcctgacacagctcactcgcagACGAAGACAGCTCAGAGGAAGATTCAGATGAGTGCCGTTGTGTGATTGGGCACTGTGTGCCACGCCCAGGCGGGGCGGTATGTGAGTGTCCTGGTGGTTTTCAATTGGATGCCTCCCGTGCCCGTTGTGTACTGGAAAGGGgtacatatgacattagggactgagggacagagtgcactgggtgcagactg #### Macrod1_ID2051_6 --> 2 - 0 Original Alignment atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG caaaagagaatgattgaaagattgaaactgacttgcgtttatccctgcagatGTCATCCACACGGTGGGGCCCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGCTA---------gtatgtttccaccactcgaagtggtagaagcgtcatgtcaagctttaccc Alignment from CESAR atGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTG caaaagagaatgattgaaagattgaaactgacttgcgtttatccctgcagatGTCATCCACACGGTGGGGCCCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGCTA---------gtatgtttccaccactcgaagtggtagaagcgtcatgtccg Alignment from Spaln_aa2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTG caaaagagaatgattgaaagattgaaactgacttgcgtttatccctgcagATGTCATCCACACGGTGGGGCCCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGCTAgtatgtttccaccactcgaagtggtagaagcgtcatgtcaagctttaccc Alignment from Spaln_nt2Genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTG caaaagagaatgattgaaagattgaaactgacttgcgtttatccctgcagATGTCATCCACACGGTGGGGCCCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGCTAgtatgtttccaccactcgaagtggtagaagcgtcatgtcaagctttaccc Alignment from Pairagon ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGT------------------------------------------------ caaaagagaatgattgaaagattgaaactgacttgcgtttatccctgcagATGTCATCCACACGGTGGGGCCCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGCT------AGTATGTTTCCACCACTCGAAGTGGTAGAAGCGTCATGTCAAGCTTTACCC Alignment from Exonerate_protein2genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTG caaaagagaatgattgaaagattgaaactgacttgcgtttatccctgcagATGTCATCCACACGGTGGGGCCCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGCTAgtatgtttccaccactcgaagtggtagaagcgtcatgtcaagctttaccc Alignment from Exonerate_coding2genome ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCA-CTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCTCAGTGGCTTTCCCGTGCATCTCCACAGGCGTGT caaaagagaatgattgaaagattgaaactgacttgcgtttatccctgcagATGTCATCCACACGGTGGGGCCCATTGCAGTGGGCCGA-CCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGCTAGTATGTTTCCACCACTCGAAGTGGTAGAAGCGTCATGtcaagctttaccc Alignment from GeneWise ATGTCATCCACACGGTGGGGCCCATCGCCGTGGGCCAACCCACTGCCAGCCAGGCGGCCGAGCTCCGCAGCTGCTACTTGAGCAGCCTGGACCTGCTGCTGGAGCACCGGCTGCGCT caaaagagaatgattgaaagattgaaactgacttgcgtttatccctgcagATGTCATCCACACGGTGGGGCCCATTGCAGTGGGCCGACCAACTGCCAGTGAGGCAGCTGAACTCCACAGCTGTTATTTGAGCAGTCTGGATCTGCTGCTGGAGCACAGGCTAGTATgtttccaccactcgaagtggtagaagcgtcatgtcaagctttaccc #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--------- cagggtggggccagatatgaattcacagtcttctctgggttcctccccaggcTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGCTCATGTTTgtgagtccagacagaagttagcagtggaccacctgagcttgggtgccaca Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--------- cagggtggggccagatatgaattcacagtcttctctgggttcctccccaggcTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGCTCATGTTTgtgagtccagacagaagttagcagtggaccacctgagcttgggtgccaca Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--------- cagggtggggccagatatgaattcacagtcttctctgggttcctccccagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGCTCATGTTTgtgagtccagacagaagttagcagtggaccacctgagcttgggtgccaca Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG----- cagggtggggccagatatgaattcacagtcttctctgggttcctccccagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGCTCATgtttgtgagtccagacagaagttagcagtggaccacctgagcttgggtgccaca Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--------- cagggtggggccagatatgaattcacagtcttctctgggttcctccccagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGCTCATGTTTgtgagtccagacagaagttagcagtggaccacctgagcttgggtgccaca Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG cagggtggggccagatatgaattcacagtcttctctgggttcctccccagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGctcatgtttgtgagtccagacagaagttagcagtggaccacctgagcttgggtgccaca Alignment from Exonerate_coding2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG cagggtggggccagatatgaattcacagtcttctctgggttcctccccagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGctcatgtttgtgagtccagacagaagttagcagtggaccacctgagcttgggtgccaca Alignment from GeneWise GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--------- cagggtggggccagatatgaattcacagtcttctctgggttcctccccagGCTACCCTAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAACACAAGGACAAGCTCATGTTTgtgagtccagacagaagttagcagtggaccacctgagcttgggtgccaca #### Map3k11_ID1203_4 --> 2 - 0 Original Alignment ac------TGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG cctcccaacccagccacaatgttcacagttgtcttcttttttctttatagacCATGAATGCTGGGCACAGGACCCCCACCGCAGGCCCCACTTTGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTCCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGCTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtatgaaggatgtgggacacaagggggggtagaggatagggtgggggtct Alignment from CESAR ac------TGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG cctcccaacccagccacaatgttcacagttgtcttcttttttctttatagacCATGAATGCTGGGCACAGGACCCCCACCGCAGGCCCCACTTTGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTCCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGCTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtatgaaggatgtgggacacaagggggggtagaggatagggtgggggtct Alignment from Spaln_aa2Genome ACTGCTGG------GCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG cctcccaacccagccacaatgttcacagttgtcttcttttttctttatagACCATGAATGCTGGGCACAGGACCCCCACCGCAGGCCCCACTTTGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTCCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGCTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtatgaaggatgtgggacacaagggggggtagaggatagggtgggggtct Alignment from Spaln_nt2Genome ACTGCTGGGCA------CAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG cctcccaacccagccacaatgttcacagttgtcttcttttttctttatagACCATGAATGCTGGGCACAGGACCCCCACCGCAGGCCCCACTTTGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTCCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGCTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtatgaaggatgtgggacacaagggggggtagaggatagggtgggggtct Alignment from Pairagon AC------TGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG cctcccaacccagccacaatgttcacagttgtcttcttttttctttatagACCATGAATGCTGGGCACAGGACCCCCACCGCAGGCCCCACTTTGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTCCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGCTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtatgaaggatgtgggacacaagggggggtagaggatagggtgggggtct Alignment from Exonerate_protein2genome AC------TGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG cctcccaacccagccacaatgttcacagttgtcttcttttttctttatagACCATGAATGCTGGGCACAGGACCCCCACCGCAGGCCCCACTTTGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTCCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGCTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtatgaaggatgtgggacacaagggggggtagaggatagggtgggggtct Alignment from Exonerate_coding2genome AC------TGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG cctcccaacccagccacaatgttcacagttgtcttcttttttctttatagACCATGAATGCTGGGCACAGGACCCCCACCGCAGGCCCCACTTTGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTCCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGCTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtatgaaggatgtgggacacaagggggggtagaggatagggtgggggtct Alignment from GeneWise -----GACTGCTGGGCACAGGACCCCCACCGCAGGCCCGACTTCGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCGCAGGTGCTGCGGGAGATGCCACGGGACTCCTTCCATTCCATGCAGGAAGGCTGGAAACGCGAGATCCAGGGCCTGTTTGATGAGCTGCGGGCCAAGGAAAAG cctcccaacccagccacaatgttcacagttgtcttcttttttctttatagACCATGAATGCTGGGCACAGGACCCCCACCGCAGGCCCCACTTTGCCTCCATCCTGCAGCAGTTGGAAGCTCTAGAAGCACAGGTGCTGCGGGAGATGCCACGAGACTCCTTCCATTCCATGCAGGAAGGCTGGAAATGTGAGATAGAGGGCTTGTTTGATGAGCTGCGGGCCAAGGAAAAGgtatgaaggatgtgggacacaagggggggtagaggatagggtgggggtct #### Map3k11_ID1204_5 --> 0 - 1 Original Alignment GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ggcgccgagtagcttggtacattaacctattaaatcatcttcccatgcag------------------------------TGGGCTGCACGTGTGCAACGGTCCCAGGCAGAGCAGCTGCGACGACGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACGTGCGCTAACACTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGGCGCCGGGGCACCTCCAAGTGGAGCAAACTTCGAGCAAGAGATGGTGGAGAACGCATCAGCATGCCCCTGggtatgagctggggcttcaatgcctgcctgcaatttgttattgttggtggc Alignment from CESAR GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGg ctaggacaattcctagataaattaacctattaaatcatcttcccatgcag------------------------------TGGGCTGCACGTGTGCAACGGTCCCAGGCAGAGCAGCTGCGACGACGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACGTGCGCTAACACTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGGCGCCGGGGCACCTCCAAGTGGAGCAAACTTCGAGCAAGAGATGGTGGAGAACGCATCAGCATGCCCCTGggtatgagctggggcttcaatgcctgcctgcaatttgttattgttggtggc Alignment from Spaln_aa2Genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ggcgccgagtagcttggtacATTAACCTATTAAATCATCTTCCCATGCAGTGGGCTGCACGTGTGCAACGGTCCCAGGCAGAGCAGCTGCGACGACGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACGTGCGCTAACACTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGGCGCCGGGGCACCTCCAAGTGGAGCAAACTTCGAGCAAGAGATGGTGGAGAACGCATCAGCATGCCCCTGGgtatgagctggggcttcaatgcctgcctgcaatttgttattgttggtggc Alignment from Spaln_nt2Genome CGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ggcgccgagtagcttggtacattaacctattaaatcatcttcccatgcagTGGGCTGCACGTGTGCAACGGTCCCAGGCAGAGCAGCTGCGACGACGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACGTGCGCTAACACTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGGCGCCGGGGCACCTCCAAGTGGAGCAAACTTCGAGCAAGAGATGGTGGAGAACGCATCAGCATGCCCCTGGgtatgagctggggcttcaatgcctgcctgcaatttgttattgttggtggc Alignment from Pairagon GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ggcgccgagtagcttggtacattaacctattaaatcatcttcccatgcag------------------------------TGGGCTGCACGTGTGCAACGGTCCCAGGCAGAGCAGCTGCGACGACGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACGTGCGCTAACACTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGGCGCCGGGGCACCTCCAAGTGGAGCAAACTTCGAGCAAGAGATGGTGGAGAACGCATCAGCATGCCCCTGGgtatgagctggggcttcaatgcctgcctgcaatttgttattgttggtggc Alignment from Exonerate_protein2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ggcgccgagtagcttggtacATTAACCTATTAAATCATCTTCCCATGCAGTGGGCTGCACGTGTGCAACGGTCCCAGGCAGAGCAGCTGCGACGACGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACGTGCGCTAACACTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGGCGCCGGGGCACCTCCAAGTGGAGCAAACTTCGAGCAAGAGATGGTGGAGAACGCATCAGCATGCCCCTGGgtatgagctggggcttcaatgcctgcctgcaatttgttattgttggtggc Alignment from Exonerate_coding2genome GAACTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ggcgccgagtagcttggtacATTAACCTATTAAATCATCTTCCCATGCAGTGGGCTGCACGTGTGCAACGGTCCCAGGCAGAGCAGCTGCGACGACGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACGTGCGCTAACACTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGGCGCCGGGGCACCTCCAAGTGGAGCAAACTTCGAGCAAGAGATGGTGGAGAACGCATCAGCATGCCCCTGGgtatgagctggggcttcaatgcctgcctgcaatttgttattgttggtggc Alignment from GeneWise -----------CTACTGAGCCGGGAGGAGGAACTGACGCGCGCTGCACGTGAGCAGCGGTCCCAGGCGGAGCAGCTGCGACGGCGCGAGCACCTGCTGGCGCAGTGGGAGCTGGAGGTGTTCGAGCGCGAGCTGACGCTGCTACTGCAGCAGGTGGACCGAGAACGGCCGCACGTGCGCCGCCGCCGGGGCACCTTCAAGCGGAGCAAACTCCGAGCAAGGGACGGCGGAGAACGCATCAGCATGCCCCTGG ggcgccgagtagCTTGGTACATTAACCTATTAAATCATCTTCCCATGCAGTGGGCTGCACGTGTGCAACGGTCCCAGGCAGAGCAGCTGCGACGACGTGAGCACTTGCTGGCACAATGGGAGCTGGAGGTATTTGAACGTGCGCTAACACTGCTACTGCAGCAGGTGGATCGAGAACAGCCACATGTACACCGGCGCCGGGGCACCTCCAAGTGGAGCAAACTTCGAGCAAGAGATGGTGGAGAACGCATCAGCATGCCCCTGGgtatgagctggggcttcaatgcctgcctgcaatttgttattgttggtggc #### Map4k2_ID1623_3 --> 2 - 2 Original Alignment ggGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag ataccatttaggcactgaacaatgcatgggacttctcttgtgtctttcagggGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGC------aggtaggagctctcctgtttatccctctcaccctccggtgtccatttgaagg Alignment from CESAR ggGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag ataccatttaggcactgaacaatgcatgggacttctcttgtgtctttcagggGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGC------aggtaggagctctcctgtttatccctctcaccctccggtgtccccactaccc Alignment from Spaln_aa2Genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTA ataccatttaggcactgaacaatgcatgggacttctcttgtgtctttcagGGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCAGgtaggagctctcctgtttatccctctcaccctccggtgtccatttgaagg Alignment from Spaln_nt2Genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG ataccatttaggcactgaacaatgcatgggacttctcttgtgtctttcagGGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAG------CAGgtaggagctctcctgtttatccctctcaccctccggtgtccatttgaagg Alignment from Pairagon GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGC---------------------TACCTC------------------------- ataccatttaggcactgaacaatgcatgggacttctcttgtgtctttcagGGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCAGGTAGGAGCTCTCCTGTTTATCCCTCTCACCCTCCGGTGTCCATTTGAAGG Alignment from Exonerate_protein2genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTA ataccatttaggcactgaacaatgcatgggacttctcttgtgtctttcagGGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCAGgtaggagctctcctgtttatccctctcaccctccggtgtccatttgaagg Alignment from Exonerate_coding2genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTA ataccatttaggcactgaacaatgcatgggacttctcttgtgtctttcagGGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCAGgtaggagctctcctgtttatccctctcaccctccggtgtccatttgaagg Alignment from GeneWise GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTA ataccatttaggcactgaacaatgcatgggacttctcttgtgtctttcagGGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCAGCAGCAGgtaggagctctcctgtttatccctctcaccctccggtgtccatttgaagg #### Map4k2_ID1625_5 --> 2 - 0 Original Alignment cc---------ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaagatctcaaggtccttctattcactcccatgattctttccgacagccAGAGGACAGACTGGGCCCTTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAGGgtatttgacttgcaaacagcacccatttgggaaccctcagaaatgtgggc Alignment from CESAR cc---------ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaagatctcaaggtccttctattcactcccatgattctttccgacagccAGAGGACAGACTGGGCCCTTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAGGgtatttgacttgcaaacagcacccatttgggaaccctcagaaatgtgggc Alignment from Spaln_aa2Genome CC---------ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaagatctcaaggtccttctattcactcccatgattctttccgacagCCAGAGGACAGACTGGGCCCTTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAGGgtatttgacttgcaaacagcacccatttgggaaccctcagaaatgtgggc Alignment from Spaln_nt2Genome CCA---------CTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaagatctcaaggtccttctattcactcccatgattctttccgacagCCAGAGGACAGACTGGGCCCTTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAGGgtatttgacttgcaaacagcacccatttgggaaccctcagaaatgtgggc Alignment from Pairagon CC---------ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaagatctcaaggtccttctattcactcccatgattctttccgacagCCAGAGGACAGACTGGGCCCTTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAGGgtatttgacttgcaaacagcacccatttgggaaccctcagaaatgtgggc Alignment from Exonerate_protein2genome CC---ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaagatctcaaggtccttctattcactcccatgattctttccgacagccagagGACAGACTGGGCCCTTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAGGgtatttgacttgcaaacagcacccatttgggaaccctcagaaatgtgggc Alignment from Exonerate_coding2genome CC---ACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaagatctcaaggtccttctattcactcccatgattctttccgacagccagagGACAGACTGGGCCCTTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAGGgtatttgacttgcaaacagcacccatttgggaaccctcagaaatgtgggc Alignment from GeneWise --GCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaagatctcaaggtccttctattcactcccatgattctttccgacagccagagGACAGACTGGGCCCTTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAGGgtatttgacttgcaaacagcacccatttgggaaccctcagaaatgtgggc #### Map4k2_ID1628_7 --> 0 - 1 Original Alignment GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGg aagcctagaggcgcacctagcataattttccaattttgcctttgtggtagGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTGAAG---ggtaggtagcagctgggggactttctgggaccacacaactgagtgctggag Alignment from CESAR GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGg aagcctagaggcgcacctagcataattttccaattttgcctttgtggtagGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTGAAG---ggtaggtagcagctgggggactttctgggaccacacaactgagtgctggag Alignment from Spaln_aa2Genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAG- aagcctagaggcgcacctagcataattttccaattttgcctttgtggtagGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTGAAGGgtaggtagcagctgggggactttctgggaccacacaactgagtgctggag Alignment from Spaln_nt2Genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG aagcctagaggcgcacctagcataattttccaattttgcctttgtggtagGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTGAA---GGgtaggtagcagctgggggactttctgggaccacacaactgagtgctggag Alignment from Pairagon GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG aagcctagaggcgcacctagcataattttccaattttgcctttgtggtagGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTGAA---GGgtaggtagcagctgggggactttctgggaccacacaactgagtgctggag Alignment from Exonerate_protein2genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG aagcctagaggcgcacctagcataattttccaattttgcctttgtggtagGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTGAAG---Ggtaggtagcagctgggggactttctgggaccacacaactgagtgctggag Alignment from Exonerate_coding2genome GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGCTGG aagcctagaggcgcacctagcataattttccaattttgcctttgtggtagGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTGAAG---Ggtaggtagcagctgggggactttctgggaccacacaactgagtgctggag Alignment from GeneWise GGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTCAAGC aagcctagaggcgcacctagcataattttccaattttgcctttgtggtagGGTGCCAACCTTCTGCTCACTCTGCAGGGTGATGTGAAGGgtaggtagcagctgggggactttctgggaccacacaactgagtgctggag #### Map4k2_ID1629_8 --> 2 - 2 Original Alignment cgGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC---------tg gtgtgggaagcaaatgtggccctgggtctgattttatatttccaaaacagcaGATTTCGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGACATTCTTTCATTGGCACTCCATACTTCGCCCCAtggtgaggtgttccatggcaatgggtaaagggcatatggagaggacacccag Alignment from CESAR cgGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC---------tg gtgtgggaagcaaatgtggccctgggtctgattttatatttccaaaacagcaGATTTCGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGACATTCTTTCATTGGCACTCCATACTTCGCCCCAtggtgaggtgttccatggcaatgggtaaagggcatatggagaggacacccag Alignment from Spaln_aa2Genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTGG-------- gtgtgggaagcaaatgtggccctgggtctgattttatatttccaaaacagCAGATTTCGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGACATTCTTTCATTGGCACTCCATACTTCGCCCCATGgtgaggtgttccatggcaatgggtaaagggcatatggagaggacacccag Alignment from Spaln_nt2Genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACT---------G gtgtgggaagcaaatgtggccctgggtctgattttatatttccaaaacagCAGATTTCGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGACATTCTTTCATTGGCACTCCATACTTCGCCCCATGgtgaggtgttccatggcaatgggtaaagggcatatggagaggacacccag Alignment from Pairagon CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACT------------------------------------------------------------ gtgtgggaagcaaatgtggccctgggtctgattttatatttccaaaacagCAGATTTCGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGACATTCTTTCATTGGCACTCCATACTTCGCCCCATGGTGAGGTGTTCCATGGCAATGGGTAAAGGGCATATGGAGAGGACACCCAG Alignment from Exonerate_protein2genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTGG------AT gtgtgggaagcaaatgtggccctgggtctgattttatatttccaaaacagCAGATTTCGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGACATTCTTTCATTGGCACTCCATACTTCGCCCCATGgtgaggtgttccatggcaatgggtaaagggcatatggagaggacacccag Alignment from Exonerate_coding2genome CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATACTGG------AT gtgtgggaagcaaatgtggccctgggtctgattttatatttccaaaacagCAGATTTCGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGACATTCTTTCATTGGCACTCCATACTTCGCCCCATGgtgaggtgttccatggcaatgggtaaagggcatatggagaggacacccag Alignment from GeneWise CGGACTTTGGGGTGTCAGGCGAGCTGACAGCATCTGTGGCCAAAAGACGTTCTTTCATTGGCACTCCATAC---------TG gtgtgggaagcaaatgtggccctgggtctgattttatatttccaaaacagCAGATTTCGGGGTGTCGGGTGAGGCAACAGCATCTGTTGCCAAGAGACATTCTTTCATTGGCACTCCATACTTCGCCCCATGgtgaggtgttccatggcaatgggtaaagggcatatggagaggacacccag #### Map4k2_ID1630_9 --> 1 - 2 Original Alignment gATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG------ag gggcatatggagaggacacccagacttctatgcttctcaattgctatcaggATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTCTGGGCATTGGGTATCACTACAATTGAATTGAGTGAGCTCCAACCTCCACTGTTCCACCTGCACCCCATGTCAGCTaggtgagtttagcactcgcctcttacctgtccccctgatgatccttgaccct Alignment from CESAR gATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG------ag gggcatatggagaggacacccagacttctatgcttctcaattgctatcaggATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTCTGGGCATTGGGTATCACTACAATTGAATTGAGTGAGCTCCAACCTCCACTGTTCCACCTGCACCCCATGTCAGCTaggtgagtttagcactcgcctcttacctgtccccctgatgatccttgacttg Alignment from Spaln_aa2Genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAGG----- gggcatatggagaggacacccagacttctatgcttctcaattgctatcagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTCTGGGCATTGGGTATCACTACAATTGAATTGAGTGAGCTCCAACCTCCACTGTTCCACCTGCACCCCATGTCAGCTAGgtgagtttagcactcgcctcttacctgtccccctgatgatccttgaccct Alignment from Spaln_nt2Genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG------AG gggcatatggagaggacacccagacttctatgcttctcaattgctatcagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTCTGGGCATTGGGTATCACTACAATTGAATTGAGTGAGCTCCAACCTCCACTGTTCCACCTGCACCCCATGTCAGCTAGgtgagtttagcactcgcctcttacctgtccccctgatgatccttgaccct Alignment from Pairagon GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG---------------------------------------------------------- gggcatatggagaggacacccagacttctatgcttctcaattgctatcagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTCTGGGCATTGGGTATCACTACAATTGAATTGAGTGAGCTCCAACCTCCACTGTTCCACCTGCACCCCATGTCAGCTAGGTGAGTTTAGCACTCGCCTCTTACCTGTCCCCCTGATGATCCTTGACCCT Alignment from Exonerate_protein2genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG------AG gggcatatggagaggacacccagacttctatgcttctcaattgctatcagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTCTGGGCATTGGGTATCACTACAATTGAATTGAGTGAGCTCCAACCTCCACTGTTCCACCTGCACCCCATGTCAGCTAGgtgagtttagcactcgcctcttacctgtccccctgatgatccttgaccct Alignment from Exonerate_coding2genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG------AG gggcatatggagaggacacccagacttctatgcttctcaattgctatcagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTCTGGGCATTGGGTATCACTACAATTGAATTGAGTGAGCTCCAACCTCCACTGTTCCACCTGCACCCCATGTCAGCTAGgtgagtttagcactcgcctcttacctgtccccctgatgatccttgaccct Alignment from GeneWise ------------------------------------------GCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAGGGCC-- gggcatatggagAGGACACCCAGACTTCTATGCTTCTCAATTGCTATCAGGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTATGTGACGTCTGGGCATTGGGTATCACTACAATTGAATTGAGTGAGCTCCAACCTCCACTGTTCCACCTGCACCCCATGTCAGCTAGgtgagtttagcactcgcctcttacctgtccccctgatgatccttgaccct #### Map4k2_ID1632_11 --> 1 - 0 Original Alignment gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tcagtgtctaatttgaatttgggtgggttatcctttattatttgccttaggACCCAGAATTTCCACCACTTCCGCAAGCTGGCCCTAACCAAAAACCCCAAGAAGAGGCCCACAGCAGAGAGGCTT------gtgagttgcggtagcagggaataactggtgacttgagcctttgaagacat Alignment from CESAR gACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tcagtgtctaatttgaatttgggtgggttatcctttattatttgccttaggACCCAGAATTTCCACCACTTCCGCAAGCTGGCCCTAACCAAAAACCCCAAGAAGAGGCCCACAGCAGAGAGGCTT------gtgagttgcggtagcagggaataactggtgacttgagcctttga Alignment from Spaln_aa2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTT tcagtgtctaatttgaatttgggtgggttatcctttattatttgccttagGACCCAGAATTTCCACCACTTCCGCAAGCTGGCCCTAACCAAAAACCCCAAGAAGAGGCCCACAGCAGAGAGGCTTgtgagttgcggtagcagggaataactggtgacttgagcctttgaagacat Alignment from Spaln_nt2Genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCA----G tcagtgtctaatttgaatttgggtgggttatcctttattatttgccttagGACCCAGAATTTCCACCACTTCCGCAAGCTGGCCCTAACCAAAAACCCCAAGAAGAGGCCCACAGCAGAGAGGCTTGTGAGTTGCGgtagcagggaataactggtgacttgagcctttgaagacat Alignment from Pairagon GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTG----------------------------------------------- tcagtgtctaatttgaatttgggtgggttatcctttattatttgccttagGACCCAGAATTTCCACCACTTCCGCAAGCTGGCCCTAACCAAAAACCCCAAGAAGAGGCCCACAGCAGAGAGGCTTGTGAGTTGCGGTAGCAGGGAATAACTGGTGACTTGAGCCTTTGAAGACAT Alignment from Exonerate_protein2genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGC tcagtgtctaatttgaatttgggtgggttatcctttattatttgccttagGACCCAGAATTTCCACCACTTCCGCAAGCTGGCCCTAACCAAAAACCCCAAGAAGAGGCCCACAGCAGAGAGGCTTGTGAgttgcggtagcagggaataactggtgacttgagcctttgaagacat Alignment from Exonerate_coding2genome GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGC tcagtgtctaatttgaatttgggtgggttatcctttattatttgccttagGACCCAGAATTTCCACCACTTCCGCAAGCTGGCCCTAACCAAAAACCCCAAGAAGAGGCCCACAGCAGAGAGGCTTGTGAgttgcggtagcagggaataactggtgacttgagcctttgaagacat Alignment from GeneWise GACCCAGAATTTCCACCACTTCCTCAAGCTGGCCCTAACCAAGAACCCCAAGAAGAGGCCTACAGCAGAGAGGCTTCTGCAG tcagtgtctaatttgaatttgggtgggttatcctttattatttgccttagGACCCAGAATTTCCACCACTTCCGCAAGCTGGCCCTAACCAAAAACCCCAAGAAGAGGCCCACAGCAGAGAGG------CTTgtgagttgcggtagcagggaataactggtgacttgagcctttgaagacat #### Map4k2_ID1636_15 --> 0 - 2 Original Alignment TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTgg cccattttgtgtctacttctcttcaagtattatcttctcccatctgccag---GAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTgggtgggcgagtgaggttgggaaagcagaggtgcaggcagaaccctattgaa Alignment from CESAR TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTgg cttcccattttgtgtctacttctctagtattatcttctcccatctgccag---GAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTgggtgggcgagtgaggttgggaaagcagaggtgcaggcagaaccctattgaa Alignment from Spaln_aa2Genome TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cccattttgtgtctacttctcttcaagtattatcttctcccatctgccag---GAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgtgggcgagtgaggttgggaaagcagaggtgcaggcagaaccctattgaa Alignment from Spaln_nt2Genome GAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cccattttgtgtctacttctcttcaagtattatcttctcccatctgccagGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgtgggcgagtgaggttgggaaagcagaggtgcaggcagaaccctattgaa Alignment from Pairagon TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cccattttgtgtctacttctcttcaagtattatcttctcccatctgccag---GAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgtgggcgagtgaggttgggaaagcagaggtgcaggcagaaccctattgaa Alignment from Exonerate_protein2genome GAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cccattttgtgtctacttctcttcaagtattatcttctcccatctgccagGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgtgggcgagtgaggttgggaaagcagaggtgcaggcagaaccctattgaa Alignment from Exonerate_coding2genome GAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cccattttgtgtctacttctcttcaagtattatcttctcccatctgccagGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgtgggcgagtgaggttgggaaagcagaggtgcaggcagaaccctattgaa Alignment from GeneWise TGGGAGGAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGG cccattttgtgtctacttctcttcaagtattatcttctcccatctgccagGAG---GAGGAGTGGACGCTCCTGGGAAAAGAGGAACTGAGTGGgtgggcgagtgaggttgggaaagcagaggtgcaggcagaaccctattgaa #### Map4k2_ID1637_16 --> 1 - 2 Original Alignment gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag tgaagattgagtctttttttaaagaaactcttctttgataccatttgtagg---------------GTGCAGGAAGCTCTGGAGGACaggtacctgttcctcacttggtgagaaggtgagaaggggccttcaggcctgg Alignment from CESAR gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag caggcagaaccctattgaagattgaaactcttctttgataccatttgtagg---------------GTGCAGGAAGCTCTGGAGGACaggtacctgttcctcacttggtgagaaggtgagaaggggccttcaggcctgg Alignment from Spaln_aa2Genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG tgaagattgagtctttttttaaagaaactcttctttgataccatttgtagG---------------GTGCAGGAAGCTCTGGAGGACAGgtacctgttcctcacttggtgagaaggtgagaaggggccttcaggcctgg Alignment from Spaln_nt2Genome AGTCCAGGAGGCCCTGGAGGAAAG tgaagattgagtctttttttaaagaaactcttctttgataccatttgtagGGTGCAGGAAGCTCTGGAGGACAGgtacctgttcctcacttggtgagaaggtgagaaggggccttcaggcctgg Alignment from Pairagon GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG tgaagattgagtctttttttaaagaaactcttctttgataccatttgtagG---------------GTGCAGGAAGCTCTGGAGGACAGgtacctgttcctcacttggtgagaaggtgagaaggggccttcaggcctgg Alignment from Exonerate_protein2genome AGTCCAGGAGGCCCTGGAGGAAAG tgaagattgagtctttttttaaagaaactcttctttgataccatttgtagGGTGCAGGAAGCTCTGGAGGACAGgtacctgttcctcacttggtgagaaggtgagaaggggccttcaggcctgg Alignment from Exonerate_coding2genome tgaagattgagtctttttttaaagaaactcttctttgataccatttgtagggtgcaggaagctctggaggacaggtacctgttcctcacttggtgagaaggtgagaaggggccttcaggcctgg Alignment from GeneWise tgaagattgagtctttttttaaagaaactcttctttgataccatttgtagggtgcaggaagctctggaggacaggtacctgttcctcacttggtgagaaggtgagaaggggccttcaggcctgg #### Map4k2_ID1639_18 --> 0 - 1 Original Alignment GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg tcacgggacacctgctaatgggaccaagactctcactttgtctccaacagGAGCTCGACTCCCCAGATGATGCCATTGGAACTATCAAACGGGCTCCATTTTTGGGGCTACCCCACACCGAGTCAACATCTGGTGATAATGCCCAGTCCTGC------ggtgagcgattttgccaaggactggtaagccacacagtattttggggtagt Alignment from CESAR GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCAg tcacgggacacctgctaatgggaccaagactctcactttgtctccaacagGAGCTCGACTCCCCAGATGATGCCATTGGAACTATCAAACGGGCTCCATTTTTGGGGCTACCCCACACCGAGTCAACATCTGGTGATAATGCCCAGTCCTGC------ggtgagcgattttgccaaggactggtaagccacacagtattttggggtagt Alignment from Spaln_aa2Genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGC- tcacgggacacctgctaatgggaccaagactctcactttgtctccaacagGAGCTCGACTCCCCAGATGATGCCATTGGAACTATCAAACGGGCTCCATTTTTGGGGCTACCCCACACCGAGTCAACATCTGGTGATAATGCCCAGTCCTGCGgtgagcgattttgccaaggactggtaagccacacagtattttggggtagt Alignment from Spaln_nt2Genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCTCCCCA tcacgggacacctgctaatgggaccaagactctcactttgtctccaacagGAGCTCGACTCCCCAGATGATGCCATTGGAACTATCAAACGGGCTCCATTTTTGGGGCTACCCCACACCGAGTCAACATCTGGTGATAATGCCCAGTCCTGCGGTGA-gcgattttgccaaggactggtaagccacacagtattttggggtag Alignment from Pairagon GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGC--------------------------------------------------- tcacgggacacctgctaatgggaccaagactctcactttgtctccaacagGAGCTCGACTCCCCAGATGATGCCATTGGAACTATCAAACGGGCTCCATTTTTGGGGCTACCCCACACCGAGTCAACATCTGGTGATAATGCCCAGTCCTGCGGTGAGCGATTTTGCCAAGGACTGGTAAGCCACACAGTATTTTGGGGTAGT Alignment from Exonerate_protein2genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCT tcacgggacacctgctaatgggaccaagactctcactttgtctccaacagGAGCTCGACTCCCCAGATGATGCCATTGGAACTATCAAACGGGCTCCATTTTTGGGGCTACCCCACACCGAGTCAACATCTGGTGATAATGCCCAGTCCTGCGgtgagcgattttgccaaggactggtaagccacacagtattttggggtagt Alignment from Exonerate_coding2genome GAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGCT tcacgggacacctgctaatgggaccaagactctcactttgtctccaacagGAGCTCGACTCCCCAGATGATGCCATTGGAACTATCAAACGGGCTCCATTTTTGGGGCTACCCCACACCGAGTCAACATCTGGTGATAATGCCCAGTCCTGCGgtgagcgattttgccaaggactggtaagccacacagtattttggggtagt Alignment from GeneWise AGGAAAGGAGCCTGACTATCCGGCCAGCCTTAGAACTC---------CAGGAGCTGGACTCCCCGGATGATGCCATCGGAACCATCAAACGGGCTCCATTTTTGGGGCTGCCCCACACTGAGTCAACATCTGGTGACAATGCCCAGTCCTGC--------------------------------------------------- TCACGGGACACCTGCTAATGGGACCAAGACTCTCACTTTGTCTCCAACAGGAGCTCGACTCCCCAGATGATGCCATTGGAACTATCAAACGGGCTCCATTTTTGGGGCTACCCCACACCGAGTCAACATCTGGTGATAATGCCCAGTCCTGCGGTGAGCGATTTTGCCAAGGACTGGTAAGCCACACAGTATTTTGGGGTAGT #### Map4k2_ID1641_20 --> 0 - 0 Original Alignment CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gcagggcgccatctgagtcctgtaacagcactttgtttttgccttttcag------TCCTGCCATGGGCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggctgtccctaggccctggtgtcctggccctgcacatt Alignment from CESAR CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gatgctgcagggcgccatctgagtccagcactttgtttttgccttttcag------TCCTGCCATGGGCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggctgtccctaggccctggtgtcctggccctgcacatt Alignment from Spaln_aa2Genome TCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gcagggcgccatctgagtcctgtaacagcactttgtttttgccttttcagTCCTGCCATGGGCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggctgtccctaggccctggtgtcctggccctgcacatt Alignment from Spaln_nt2Genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gcagggcgccatctgagtcctgtaacagcactttgtttttgccttttcag------TCCTGCCATGGGCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggctgtccctaggccctggtgtcctggccctgcacatt Alignment from Pairagon CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gcagggcgccatctgagtcctgtaacagcactttgtttttgccttttcag------TCCTGCCATGGGCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggctgtccctaggccctggtgtcctggccctgcacatt Alignment from Exonerate_protein2genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gcagggcgccatctgagtcctgtaacagcactttgtttttgcctTTTCAGTCCTGCCATGGGCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggctgtccctaggccctggtgtcctggccctgcacatt Alignment from Exonerate_coding2genome CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gcagggcgccatctgagtcctgtaacagcactttgtttttgcctTTTCAGTCCTGCCATGGGCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggctgtccctaggccctggtgtcctggccctgcacatt Alignment from GeneWise CGATCATCCTGCCATGGGCTTCCTCCCACCCCCAAGGTGCAC gcagggcgccatctgagtcctgtaacagcactttgtttttgccttttcagTCC------TGCCATGGGCTTCCTCCCACCCCTAAGGTCCATgtgagtggtcatggctgtccctaggccctggtgtcctggccctgcacatt #### Map4k2_ID1650_29 --> 2 - 1 Original Alignment gcTGTGTGAGAATTGTTAACCTGCAGGGGGAACCCACGGCTGCACTTGCCCCTGAACTAACCTTTGACTTCACTATTGAGACTGTGg tttaagcaagcaagccaggtgtaaatacctatcccattaatattttgcaggcTGTGTAAGGATTGTTAACCTACAGGGGGAACCTACTGCTGCACTTGCACCTGAACTAACCTTTGACTTCACCATTGAGACT---ggtaagtctaatggcagtggtggacgcaataatatctagtctagaagtctg Alignment from CESAR gcTGTGTGAGAATTGTTAACCTGCAGGGGGAACCCACGGCTGCACTTGCCCCTGAACTAACCTTTGACTTCACTATTGAGACTGTGg tttaagcaagcaagccaggtgtaaatacctatcccattaatattttgcaggcTGTGTAAGGATTGTTAACCTACAGGGGGAACCTACTGCTGCACTTGCACCTGAACTAACCTTTGACTTCACCATTGAGACT---ggtaagtctaatggcagtggtggacgcaataatatctagtctagaagtctg Alignment from Spaln_aa2Genome GCTGTGTGAGAATTGTTAACCTGCAGGGGGAACCCACGGCTGCACTTGCCCCTGAACTAACCTTTGACTTCACTATTGAGACT- tttaagcaagcaagccaggtgtaaatacctatcccattaatattttgcagGCTGTGTAAGGATTGTTAACCTACAGGGGGAACCTACTGCTGCACTTGCACCTGAACTAACCTTTGACTTCACCATTGAGACTGgtaagtctaatggcagtggtggacgcaataatatctagtctagaagtctg Alignment from Spaln_nt2Genome GCTGTGTGAGAATTGTTAACCTGCAGGGGGAACCCACGGCTGCACTTGCCCCTGAACTAACCTTTGACTTCACTATTGAGACTG tttaagcaagcaagccaggtgtaaatacctatcccattaatattttgcagGCTGTGTAAGGATTGTTAACCTACAGGGGGAACCTACTGCTGCACTTGCACCTGAACTAACCTTTGACTTCACCATTGAGACTGgtaagtctaatggcagtggtggacgcaataatatctagtctagaagtctg Alignment from Pairagon GCTGTGTGAGAATTGTTAACCTGCAGGGGGAACCCACGGCTGCACTTGCCCCTGAACTAACCTTTGACTTCACTATTGAGACTG tttaagcaagcaagccaggtgtaaatacctatcccattaatattttgcagGCTGTGTAAGGATTGTTAACCTACAGGGGGAACCTACTGCTGCACTTGCACCTGAACTAACCTTTGACTTCACCATTGAGACTGgtaagtctaatggcagtggtggacgcaataatatctagtctagaagtctg Alignment from Exonerate_protein2genome GCTGTGTGAGAATTGTTAACCTGCAGGGGGAACCCACGGCTGCACTTGCCCCTGAACTAACCTTTGACTTCACTATTGAGACTG tttaagcaagcaagccaggtgtaaatacctatcccattaatattttgcagGCTGTGTAAGGATTGTTAACCTACAGGGGGAACCTACTGCTGCACTTGCACCTGAACTAACCTTTGACTTCACCATTGAGACTGgtaagtctaatggcagtggtggacgcaataatatctagtctagaagtctg Alignment from Exonerate_coding2genome GCTGTGTGAGAATTGTTAACCTGCAGGGGGAACCCACGGCTGCACTTGCCCCTGAACTAACCTTTGACTTCACTATTGAGACTG tttaagcaagcaagccaggtgtaaatacctatcccattaatattttgcagGCTGTGTAAGGATTGTTAACCTACAGGGGGAACCTACTGCTGCACTTGCACCTGAACTAACCTTTGACTTCACCATTGAGACTGgtaagtctaatggcagtggtggacgcaataatatctagtctagaagtctg Alignment from GeneWise GCTGTGTGAGAATTGTTAACCTGCAGGGGGAACCCACGGCTGCACTTGCCCCTGAACTAACCTTTGACTTCACTATTGAGACT- tttaagcaagcaagccaggtgtaaatacctatcccattaatattttgcagGCTGTGTAAGGATTGTTAACCTACAGGGGGAACCTACTGCTGCACTTGCACCTGAACTAACCTTTGACTTCACCATTGAGACTGgtaagtctaatggcagtggtggacgcaataatatctagtctagaagtctg #### Map4k2_ID1651_30 --> 2 - 0 Original Alignment tgTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagtcgtacagtgcagggatagtacagttaattctgctcaccgatctagtaTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAAGGCCGAAGCCTTGATACCAAT---gtaagtggtgaccctaggggtttaattacctccctgaggccctatcctga Alignment from CESAR tgTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagtcgtacagtgcagggatagtacagttaattctgctcaccgatctagtaTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAAGGCCGAAGCCTTGATACCAAT---gtaagtggtgaccctaggggtttaattacctccctgaggccctatcc Alignment from Spaln_aa2Genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC acagtcgtacagtgcagggatagtacagttaattctgctcaccgatctagTATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAAGGCCGAAGCCTTGATACCAATgtaagtggtgaccctaggggtttaattacctccctgaggccctatcctga Alignment from Spaln_nt2Genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC acagtcgtacagtgcagggatagtacagttaattctgctcaccgatctagTATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAAGGCCGAAGCCTTGATACCAATgtaagtggtgaccctaggggtttaattacctccctgaggccctatcctga Alignment from Pairagon TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACG------------------------------------------------- acagtcgtacagtgcagggatagtacagttaattctgctcaccgatctagTATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAAGGCCGAAGCCTTGATACCAATGTAAGTGGTGACCCTAGGGGTTTAATTACCTCCCTGAGGCCCTATCCTGA Alignment from Exonerate_protein2genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC acagtcgtacagtgcagggatagtacagttaattctgctcaccgatctagTATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAAGGCCGAAGCCTTGATACCAATgtaagtggtgaccctaggggtttaattacctccctgaggccctatcctga Alignment from Exonerate_coding2genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAAC acagtcgtacagtgcagggatagtacagttaattctgctcaccgatctagTATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAAGGCCGAAGCCTTGATACCAATgtaagtggtgaccctaggggtttaattacctccctgaggccctatcctga Alignment from GeneWise TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagtcgtacagtgcagggatagtacagttaattctgctcaccgatctagTATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAAGGCCGAAGCCTTGATACC---AATgtaagtggtgaccctaggggtttaattacctccctgaggccctatcctga #### Map4k2_ID1652_31 --> 0 - 2 Original Alignment GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACag tgagagggtcattgggatggcctcaggggctcttgctctcccgcctgcagGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCC---aggtgagatgggcaacaaacccgtaatttcagatgctgcctctaggctaggt Alignment from CESAR GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACag tgagagggtcattgggatggcctcaggggctcttgctctcccgcctgcagGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCC---aggtgagatgggcaacaaacccgtaatttcagatgctgcctctaggctaggt Alignment from Spaln_aa2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCA tgagagggtcattgggatggcctcaggggctcttgctctcccgcctgcagGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCAGgtgagatgggcaacaaacccgtaatttcagatgctgcctctaggctaggt Alignment from Spaln_nt2Genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG tgagagggtcattgggatggcctcaggggctcttgctctcccgcctgcagGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGC---CAGgtgagatgggcaacaaacccgtaatttcagatgctgcctctaggctaggt Alignment from Pairagon GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG tgagagggtcattgggatggcctcaggggctcttgctctcccgcctgcagGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGC---CAGgtgagatgggcaacaaacccgtaatttcagatgctgcctctaggctaggt Alignment from Exonerate_protein2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG tgagagggtcattgggatggcctcaggggctcttgctctcccgcctgcagGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCC---AGgtgagatgggcaacaaacccgtaatttcagatgctgcctctaggctaggt Alignment from Exonerate_coding2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG tgagagggtcattgggatggcctcaggggctcttgctctcccgcctgcagGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCC---AGgtgagatgggcaacaaacccgtaatttcagatgctgcctctaggctaggt Alignment from GeneWise GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCT-- tgagagggtcattgggatggcctcaggggctcttgctctcccgcctgcagGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCAGgtgagatgggcaacaaacccgtaatttcagatgctgcctctaggctaggt #### Mark2_ID2108_13 --> 2 - 0 Original Alignment ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ggatcttcaggtgactgtagtcttataccagacccctctcctttcctcagct---CCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAAACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtgagtcttgagctactacccacgggcctggcctcccccttctctgctct Alignment from CESAR ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG attggatcttcaggtgactgtagtctaccagacccctctcctttcctcagct---CCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAAACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtgagtcttgagctactacccacgggcctggcctcccccttctctgctct Alignment from Spaln_aa2Genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ggatcttcaggtgactgtagtcttataccagacccctctcctttcctcagCT---CCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAAACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtgagtcttgagctactacccacgggcctggcctcccccttctctgctct Alignment from Spaln_nt2Genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ggatcttcaggtgactgtagtcttataccagacccctctcctttcctcagC---TCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAAACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtgagtcttgagctactacccacgggcctggcctcccccttctctgctct Alignment from Pairagon CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ggatcttcaggtgactgtagtcttataccagacccctctcctttcctcagC---TCCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAAACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtgagtcttgagctactacccacgggcctggcctcccccttctctgctct Alignment from Exonerate_protein2genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ggatcttcaggtgactgtagtcttataccagacccctctcctttcctcagCT---CCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAAACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtgagtcttgagctactacccacgggcctggcctcccccttctctgctct Alignment from Exonerate_coding2genome CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ggatcttcaggtgactgtagtcttataccagacccctctcctttcctcagCT---CCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAAACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtgagtcttgagctactacccacgggcctggcctcccccttctctgctct Alignment from GeneWise CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG ggatcttcaggtgactgtagtcttataccagacccctctcctttcctcagCT---CCTGGCATTCCCACCTCCAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAAACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtgagtcttgagctactacccacgggcctggcctcccccttctctgctct #### Mark2_ID2114_7 --> 0 - 0 Original Alignment ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctccttgtttcactctcagatgtctttttcccttcgctctactcccgcag------TCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtgagttatgttcctgtccctatgacttgctgtgagtgggccaggtggcc Alignment from CESAR ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ttccgcctccttgtttcactctcagttttcccttcgctctactcccgcag------TCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtgagttatgttcctgtccctatgacttgctgtgagtgggccaggtggcc Alignment from Spaln_aa2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctccttgtttcactctcagatgtctttttcccttcgctctactcccgcag------TCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtgagttatgttcctgtccctatgacttgctgtgagtgggccaggtggcc Alignment from Spaln_nt2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctccttgtttcactctcagatgtctttttcccttcgctctactcccgcag------TCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtgagttatgttcctgtccctatgacttgctgtgagtgggccaggtggcc Alignment from Pairagon ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctccttgtttcactctcagatgtctttttcccttcgctctactcccgcag------TCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtgagttatgttcctgtccctatgacttgctgtgagtgggccaggtggcc Alignment from Exonerate_protein2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctccttgtttcactctcagatgtctttttcccttcgctctactcCCGCAGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtgagttatgttcctgtccctatgacttgctgtgagtgggccaggtggcc Alignment from Exonerate_coding2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctccttgtttcactctcagatgtctttttcccttcgctctactcCCGCAGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtgagttatgttcctgtccctatgacttgctgtgagtgggccaggtggcc Alignment from GeneWise TCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctccttgtttcactctcagatgtctttttcccttcgctctactcccgcagTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAGgtgagttatgttcctgtccctatgacttgctgtgagtgggccaggtggcc #### Mark2_ID2115_6 --> 2 - 0 Original Alignment gaGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG--- caaccctcacccattatactcacagtcgtcttcattcctgttctttctaggaGAGGTGTTTGATTACCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGATGgtaagtgtgtctccactcttggctgtagatgtagcatgaggatatggcac Alignment from CESAR gaGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG--- caaccctcacccattatactcacagtcgtcttcattcctgttctttctaggaGAGGTGTTTGATTACCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGATGgtaagtgtgtctccactcttggctgtagatgtagcatgaggatatggcac Alignment from Spaln_aa2Genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG--- caaccctcacccattatactcacagtcgtcttcattcctgttctttctagGAGAGGTGTTTGATTACCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGATGgtaagtgtgtctccactcttggctgtagatgtagcatgaggatatggcac Alignment from Spaln_nt2Genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG--- caaccctcacccattatactcacagtcgtcttcattcctgttctttctagGAGAGGTGTTTGATTACCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGATGgtaagtgtgtctccactcttggctgtagatgtagcatgaggatatggcac Alignment from Pairagon GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG--- caaccctcacccattatactcacagtcgtcttcattcctgttctttctagGAGAGGTGTTTGATTACCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGATGgtaagtgtgtctccactcttggctgtagatgtagcatgaggatatggcac Alignment from Exonerate_protein2genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG--- caaccctcacccattatactcacagtcgtcttcattcctgttctttctagGAGAGGTGTTTGATTACCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGATGgtaagtgtgtctccactcttggctgtagatgtagcatgaggatatggcac Alignment from Exonerate_coding2genome GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG--- caaccctcacccattatactcacagtcgtcttcattcctgttctttctagGAGAGGTGTTTGATTACCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGATGgtaagtgtgtctccactcttggctgtagatgtagcatgaggatatggcac Alignment from GeneWise GAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAGATA caaccctcacccattatactcacagtcgtcttcattcctgttctttctagGAGAGGTGTTTGATTACCTAGTGGCTCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGATGgtaagtgtgtctccactcttggctgtagatgtagcatgaggatatggcac #### Mark2_ID2116_5 --> 2 - 1 Original Alignment ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCg acaggtgtgcctctgagccacttaatcacggattcccatccacgtctcagtt---------GAGGTCATTGATACTGAGAAGACACTCTACCTTGTTATGGAGTATGCCAGTGGTggtaagtctgaaactgtcccccatgtttgtccctcgcctctctgctcttgg Alignment from CESAR ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCg aatctggacacaggtgtgcctctgatcacggattcccatccacgtctcagtt---------GAGGTCATTGATACTGAGAAGACACTCTACCTTGTTATGGAGTATGCCAGTGGTggtaagtctgaaactgtcccccatgtttgtccctcgcctctctgctcttgg Alignment from Spaln_aa2Genome TTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG acaggtgtgcctctgagccacttaatcacggattcccatccacgtctcagTTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTTATGGAGTATGCCAGTGGTGgtaagtctgaaactgtcccccatgtttgtccctcgcctctctgctcttgg Alignment from Spaln_nt2Genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG acaggtgtgcctctgagccacttaatcacggattcccatccacgtctcag---------TTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTTATGGAGTATGCCAGTGGTGgtaagtctgaaactgtcccccatgtttgtccctcgcctctctgctcttgg Alignment from Pairagon TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG acaggtgtgcctctgagccacttaatcacggattcccatccacgtctcag---------TTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTTATGGAGTATGCCAGTGGTGgtaagtctgaaactgtcccccatgtttgtccctcgcctctctgctcttgg Alignment from Exonerate_protein2genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG acaggtgtgcctctgagccacttaatcacggattcccatccacgTCTCAGTT---GAGGTCATTGATACTGAGAAGACACTCTACCTTGTTATGGAGTATGCCAGTGGTGgtaagtctgaaactgtcccccatgtttgtccctcgcctctctgctcttgg Alignment from Exonerate_coding2genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG acaggtgtgcctctgagccacttaatcacggattcccatccacgTCTCAGTT---GAGGTCATTGATACTGAGAAGACACTCTACCTTGTTATGGAGTATGCCAGTGGTGgtaagtctgaaactgtcccccatgtttgtccctcgcctctctgctcttgg Alignment from GeneWise TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG acaggtgtgcctctgagccacttaatcacggattcccatccacgtctcagTT---------GAGGTCATTGATACTGAGAAGACACTCTACCTTGTTATGGAGTATGCCAGTGGTGgtaagtctgaaactgtcccccatgtttgtccctcgcctctctgctcttgg #### Men1_ID1613_4 --> 0 - 0 Original Alignment AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG ctgggagcaggccaagaccatacatcctgagacatgtgttttttcatcttttgtagAGCTGGCTGTACCTCAAGGGGTCATACATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCCATCAACCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCAA---------gtgagttgacataacgtgctgccatagtctgggagcttccctcc Alignment from CESAR AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG ctgggagcaggccaagaccatacatcctgagacatgtgttttttcatcttttgtagAGCTGGCTGTACCTCAAGGGGTCATACATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCCATCAACCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCAA---------gtgagttgacataacgtgctgccatagtctgggagcttccc Alignment from Spaln_aa2Genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAA ctgggagcaggccaagaccatacatcctgagacatgtgttttttcatcttttgtagAGCTGGCTGTACCTCAAGGGGTCATACATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCCATCAACCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCAAgtgagttgacataacgtgctgccatagtctgggagcttccctccctcctc Alignment from Spaln_nt2Genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAA ctgggagcaggccaagaccatacatcctgagacatgtgttttttcatcttttgtagAGCTGGCTGTACCTCAAGGGGTCATACATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCCATCAACCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCAAgtgagttgacataacgtgctgccatagtctgggagcttccctccctcctc Alignment from Pairagon AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAA ctgggagcaggccaagaccatacatcctgagacatgtgttttttcatcttttgtagAGCTGGCTGTACCTCAAGGGGTCATACATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCCATCAACCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCAAgtgagttgacataacgtgctgccatagtctgggagcttccctccctcctc Alignment from Exonerate_protein2genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAA ctgggagcaggccaagaccatacatcctgagacatgtgttttttcatcttttgtagAGCTGGCTGTACCTCAAGGGGTCATACATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCCATCAACCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCAAgtgagttgacataacgtgctgccatagtctgggagcttccctccctcctc Alignment from Exonerate_coding2genome AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAA ctgggagcaggccaagaccatacatcctgagacatgtgttttttcatcttttgtagAGCTGGCTGTACCTCAAGGGGTCATACATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCCATCAACCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTGCAAgtgagttgacataacgtgctgccatagtctgggagcttccctccctcctc Alignment from GeneWise AGCTGGCTGTACCTGAAGGGGTCGTACATGCGCTGCGACCGTAAGATGGAGGTGGCGTTCATGGTGTGTGCCATCAACCCTTCCATCGATCTTCACACTGACTCTTTGGAACTGTTGCAACTACAGCAG ctgggagcaggccaagaccatacatcctgagacatgtgttttttcatcttttgtagAGCTGGCTGTACCTCAAGGGGTCATACATGCGGTGTGACCGTAAGATGGAGGTGGCATTCATGGTGTGTGCCATCAACCCTTCTATTGACCTTCACACTGACTCTTTGGAACTGCTG---------CAAgtgagttgacataacgtgctgccatagtctgggagcttccctccctcctc #### Men1_ID1618_9 --> 0 - 0 Original Alignment GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG tagggggggaggtttgcaatccctgtgacctccagtccttgtctgcatcctttcagGGCACACAGGGACAAGGTTCTGCTCTCCAAGACCCAGAATGCTTTGCCCACTTGCTGCGATTTTATGACGGCATATGCAAATGGGAGGAGGGTAGTCCCACCCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTC---------gtaagtgggaaggattccgtctttccagagcacagggagaacca Alignment from CESAR GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGACAG tagggggggaggtttgcaatccctgtgacctccagtccttgtctgcatcctttcagGGCACACAGGGACAAGGTTCTGCTCTCCAAGACCCAGAATGCTTTGCCCACTTGCTGCGATTTTATGACGGCATATGCAAATGGGAGGAGGGTAGTCCCACCCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTC---------gtaagtgggaaggattccgtctttccagagcacagggagaa Alignment from Spaln_aa2Genome GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTC tagggggggaggtttgcaatccctgtgacctccagtccttgtctgcatcctttcagGGCACACAGGGACAAGGTTCTGCTCTCCAAGACCCAGAATGCTTTGCCCACTTGCTGCGATTTTATGACGGCATATGCAAATGGGAGGAGGGTAGTCCCACCCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCgtaagtgggaaggattccgtctttccagagcacagggagaaccagtggtg Alignment from Spaln_nt2Genome GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTC tagggggggaggtttgcaatccctgtgacctccagtccttgtctgcatcctttcagGGCACACAGGGACAAGGTTCTGCTCTCCAAGACCCAGAATGCTTTGCCCACTTGCTGCGATTTTATGACGGCATATGCAAATGGGAGGAGGGTAGTCCCACCCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCgtaagtgggaaggattccgtctttccagagcacagggagaaccagtggtg Alignment from Pairagon GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTC tagggggggaggtttgcaatccctgtgacctccagtccttgtctgcatcctttcagGGCACACAGGGACAAGGTTCTGCTCTCCAAGACCCAGAATGCTTTGCCCACTTGCTGCGATTTTATGACGGCATATGCAAATGGGAGGAGGGTAGTCCCACCCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCgtaagtgggaaggattccgtctttccagagcacagggagaaccagtggtg Alignment from Exonerate_protein2genome GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGAC tagggggggaggtttgcaatccctgtgacctccagtccttgtctgcatcctttcagGGCACACAGGGACAAGGTTCTGCTCTCCAAGACCCAGAATGCTTTGCCCACTTGCTGCGATTTTATGACGGCATATGCAAATGGGAGGAGGGTAGTCCCACCCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGTAAGTGggaaggattccgtctttccagagcacagggagaaccagtggtg Alignment from Exonerate_coding2genome GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTCGAGGGAC tagggggggaggtttgcaatccctgtgacctccagtccttgtctgcatcctttcagGGCACACAGGGACAAGGTTCTGCTCTCCAAGACCCAGAATGCTTTGCCCACTTGCTGCGATTTTATGACGGCATATGCAAATGGGAGGAGGGTAGTCCCACCCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGTAAGTGggaaggattccgtctttccagagcacagggagaaccagtggtg Alignment from GeneWise GGCACCCAGGGCCAAGGTTCTGCTCTCCAGGACCCAGAATGCTTTGCCCACCTGCTGCGATTTTATGATGGCATCTGCAAATGGGAGGAGGGTAGCCCCACACCAGTACTGCACGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGCCGCTTC---------GAGGGACAG tagggggggaggtttgcaatccctgtgacctccagtccttgtctgcatcctttcagGGCACACAGGGACAAGGTTCTGCTCTCCAAGACCCAGAATGCTTTGCCCACTTGCTGCGATTTTATGACGGCATATGCAAATGGGAGGAGGGTAGTCCCACCCCAGTCCTGCATGTAGGCTGGGCAACTTTCCTTGTGCAGTCCCTAGGGCGCTTCGTAAGTGGGAAGGATTCCgtctttccagagcacagggagaaccagtggtg #### Mrpl11_ID768_3 --> 0 - 1 Original Alignment ---------CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ttgaactggatggaaaatggagagattcattccccgtctctctggaacagACCATCAGCCCTGACAGGACTTTTGAACTCAAGATTGGGCAGCCTACTGTTTCTTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAggtgaatacaagtttgacagctgggtgtctgaggaatctcgagaaatgtaa Alignment from CESAR ---------CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAg ttgaactggatggaaaatggagagattcattccccgtctctctggaacagACCATCAGCCCTGACAGGACTTTTGAACTCAAGATTGGGCAGCCTACTGTTTCTTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAggtgaatacaagtttgacagctgggtgtctgaggaatctcgagaaatgtaa Alignment from Spaln_aa2Genome -------CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ttgaactggatggaaaatggagagattcattccccgtctctctggaacagACCATCAGCCCTGACAGGACTTTTGAACTCAAGATTGGGCAGCCTACTGTTTCTTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGgtgaatacaagtttgacagctgggtgtctgaggaatctcgagaaatgtaa Alignment from Spaln_nt2Genome CCC-GACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ttgaactggatggaaaatggagagattcattccccgtctctctggaacagaccatcagCCCTGACAGGACTTTTGAACTCAAGATTGGGCAGCCTACTGTTTCTTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGgtgaatacaagtttgacagctgggtgtctgaggaatctcgagaaatgtaa Alignment from Pairagon CCC-GACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ttgaactggatggaaaatggagagattcattccccgtctctctggaacagaccatcagCCCTGACAGGACTTTTGAACTCAAGATTGGGCAGCCTACTGTTTCTTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGgtgaatacaagtttgacagctgggtgtctgaggaatctcgagaaatgtaa Alignment from Exonerate_protein2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ttgaactggatggaaaatggagagattcattccccgtctctctggaacagaccatcagcCCTGACAGGACTTTTGAACTCAAGATTGGGCAGCCTACTGTTTCTTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGgtgaatacaagtttgacagctgggtgtctgaggaatctcgagaaatgtaa Alignment from Exonerate_coding2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ttgaactggatggaaaatggagagattcattccccgtctctctggaacagaccatcagcCCTGACAGGACTTTTGAACTCAAGATTGGGCAGCCTACTGTTTCTTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGgtgaatacaagtttgacagctgggtgtctgaggaatctcgagaaatgtaa Alignment from GeneWise ---------CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ttgaactggatggaaaatggagagattcattccccgtctctctggaacagACCATCAGCCCTGACAGGACTTTTGAACTCAAGATTGGGCAGCCTACTGTTTCTTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGgtgaatacaagtttgacagctgggtgtctgaggaatctcgagaaatgtaa #### Mrpl43_ID9260_2 --> 1 - 1 Original Alignment gGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc catgggctatgaggctgggtctctctacacaacaacttcatctcttataggGAGTTGGTGGAACGTGAGGTGACTGACTTTGCCCGATGGAACCCAGGAGTTGTGGTATATGTGAACCCACGGCCATGCACCATGCCACGAATGGTG---------cgtaagtggaactctaaatgctgagtgagggcaggggtgtgcagggcatga Alignment from CESAR gGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACc catgggctatgaggctgggtctctctacacaacaacttcatctcttataggGAGTTGGTGGAACGTGAGGTGACTGACTTTGCCCGATGGAACCCAGGAGTTGTGGTATATGTGAACCCACGGCCATGCACCATGCCACGAATGGTG---------cgtaagtggaactctaaatgctgagtgagggcaggggtgtgcagggcatga Alignment from Spaln_aa2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTG- catgggctatgaggctgggtctctctacacaacaacttcatctcttatagGGAGTTGGTGGAACGTGAGGTGACTGACTTTGCCCGATGGAACCCAGGAGTTGTGGTATATGTGAACCCACGGCCATGCACCATGCCACGAATGGTGCgtaagtggaactctaaatgctgagtgagggcaggggtgtgcagggcatga Alignment from Spaln_nt2Genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC catgggctatgaggctgggtctctctacacaacaacttcatctcttatagGGAGTTGGTGGAACGTGAGGTGACTGACTTTGCCCGATGGAACCCAGGAGTTGTGGTATATGTGAACCCACGGCCATGCACCATGCCACGAATGGTG---------Cgtaagtggaactctaaatgctgagtgagggcaggggtgtgcagggcatga Alignment from Pairagon GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGGCCGAATACC catgggctatgaggctgggtctctctacacaacaacttcatctcttatagGGAGTTGGTGGAACGTGAGGTGACTGACTTTGCCCGATGGAACCCAGGAGTTGTGGTATATGTGAACCCACGGCCATGCACCATGCCACGAATGGTG---------Cgtaagtggaactctaaatgctgagtgagggcaggggtgtgcagggcatga Alignment from Exonerate_protein2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATA catgggctatgaggctgggtctctctacacaacaacttcatctcttatagGGAGTTGGTGGAACGTGAGGTGACTGACTTTGCCCGATGGAACCCAGGAGTTGTGGTATATGTGAACCCACGGCCATGCACCATGCCACGAATGgtgcgtaagtggaactctaaatgctgagtgagggcaggggtgtgcagggcatga Alignment from Exonerate_coding2genome GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATA catgggctatgaggctgggtctctctacacaacaacttcatctcttatagGGAGTTGGTGGAACGTGAGGTGACTGACTTTGCCCGATGGAACCCAGGAGTTGTGGTATATGTGAACCCACGGCCATGCACCATGCCACGAATGgtgcgtaagtggaactctaaatgctgagtgagggcaggggtgtgcagggcatga Alignment from GeneWise GGAGTTCGTGGAACGCGAGGTGACCGACTTCGCCCGACGGAACCCAGGAGTCGTAGTATACGTGAACCCGCGCCCGTGCGCCATGCCACGAATAGTGG catgggctatgaggctgggtctctctacacaacaacttcatctcttatagGGAGTTGGTGGAACGTGAGGTGACTGACTTTGCCCGATGGAACCCAGGAGTTGTGGTATATGTGAACCCACGGCCATGCACCATGCCACGAATGGTGCgtaagtggaactctaaatgctgagtgagggcaggggtgtgcagggcatga #### Ms4a2_ID3240_5 --> 0 - 0 Original Alignment GTGAGAGGCAGCCTGGGAGCAAACATTGTCAGTAGCATCGCTGCAGGGACGGGGATCGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTAACCGAAGACGACGGCTGCTTTGTGGCTTCTTTCACCACA acttacaaaccttgggagttttccatctctgactaggagaggggggccag------------------GCAAACATTGTCAGTAGCATTGCTGCAGGGACGGGGATTGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTTACCGAAGACGACGGTTGTTTTGTGGCTTCTTTCACGACAgtgaggatttctggggaaaatccaaactctctgtgacctgtggtacccta Alignment from CESAR GTGAGAGGCAGCCTGGGAGCAAACATTGTCAGTAGCATCGCTGCAGGGACGGGGATCGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTAACCGAAGACGACGGCTGCTTTGTGGCTTCTTTCACCACA cacacttacattgggagttttccatctctgactagGAGAGGG-GGGCCAG---GCAAACATTGTCAGTAGCATTGCTGCAGGGACGGGGATTGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTTACCGAAGACGACGGTTGTTTTGTGGCTTCTTTCACGACAgtgaggatttctggggaaaatccaaactctctgtgacctgtggtacccta Alignment from Spaln_aa2Genome GCAGCCTGGGAGCAAACATTGTCAGTAGCATCGCTGCAGGGACGGGGATCGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTAACCGAAGACGACGGCTGCTTTGTGGCTTCTTTCACCACA acttacaaaccttgggagttttccatctctgactaggagAGGGGGGCCAGGCAAACATTGTCAGTAGCATTGCTGCAGGGACGGGGATTGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTTACCGAAGACGACGGTTGTTTTGTGGCTTCTTTCACGACAgtgaggatttctggggaaaatccaaactctctgtgacctgtggtacccta Alignment from Spaln_nt2Genome GTGAGAGGCAGCCTGGGAGCAAACATTGTCAGTAGCATCGCTGCAGGGACGGGGATCGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTAACCGAAGACGACGGCTGCTTTGTGGCTTCTTTCACCACA cttacaaaccttgggagttttccatctctgactagGAGAG-GGGGGCCAG---GCAAACATTGTCAGTAGCATTGCTGCAGGGACGGGGATTGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTTACCGAAGACGACGGTTGTTTTGTGGCTTCTTTCACGACAgtgaggatttctggggaaaatccaaactctctgtgacctgtggtacccta Alignment from Pairagon GTGAGAGGCAGCCTGGGAGCAAACATTGTCAGTAGCATCGCTGCAGGGACGGGGATCGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTAACCGAAGACGACGGCTGCTTTGTGGCTTCTTTCACCACA acttacaaaccttgggagttttccatctctgactaggagaggggggccag------------------GCAAACATTGTCAGTAGCATTGCTGCAGGGACGGGGATTGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTTACCGAAGACGACGGTTGTTTTGTGGCTTCTTTCACGACAgtgaggatttctggggaaaatccaaactctctgtgacctgtggtacccta Alignment from Exonerate_protein2genome GTGAGAGGCAGCCTGGGAGCAAACATTGTCAGTAGCATCGCTGCAGGGACGGGGATCGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTAACCGAAGACGACGGCTGCTTTGTGGCTTCTTTCACCACA acttacaaaccttgggagttttccatctctgaCTAGGAGAGGGGGGCCAGGCAAACATTGTCAGTAGCATTGCTGCAGGGACGGGGATTGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTTACCGAAGACGACGGTTGTTTTGTGGCTTCTTTCACGACAgtgaggatttctggggaaaatccaaactctctgtgacctgtggtacccta Alignment from Exonerate_coding2genome GTGAGAGGCAGCCTGGGAGCAAACATTGTCAGTAGCATCGCTGCAGGGACGGGGATCGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTAACCGAAGACGACGGCTGCTTTGTGGCTTCTTTCACCACA acttacaaaccttgggagttttccatctctgaCTAGGAGAGGGGGGCCAGGCAAACATTGTCAGTAGCATTGCTGCAGGGACGGGGATTGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTTACCGAAGACGACGGTTGTTTTGTGGCTTCTTTCACGACAgtgaggatttctggggaaaatccaaactctctgtgacctgtggtacccta Alignment from GeneWise GCAAACATTGTCAGTAGCATCGCTGCAGGGACGGGGATCGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTAACCGAAGACGACGGCTGCTTTGTGGCTTCTTTCACCACA acttacaaaccttgggagttttccatctctgactaggagaggggggccagGCAAACATTGTCAGTAGCATTGCTGCAGGGACGGGGATTGCCATGCTGATCCTCAATCTGACCAATAACTTCGCTTATATGAACAACTGCAAGAATGTTACCGAAGACGACGGTTGTTTTGTGGCTTCTTTCACGACAgtgaggatttctggggaaaatccaaactctctgtgacctgtggtacccta #### Ms4a2_ID3243_2 --> 1 - 0 Original Alignment tGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacaggggattagaagactctaagaagtgacaccgtcgtgcttcctcagtGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAA------------------gtaagtgcctggcttttacatcgatatgaggatgacttcccagaccaaaa Alignment from CESAR tGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacaggggattagaagactctaagaagtgacaccgtcgtgcttcctcagtGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAA------------------gtaagtgcctggcttttacatcgatatgagga Alignment from Spaln_aa2Genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTTCCTGGGA acacaggggattagaagactctaagaagtgacaccgtcgtgcttcctcagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAA------------GTAAGTgcctggcttttacatcgatatgaggatgactt Alignment from Spaln_nt2Genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAA acacaggggattagaagactctaagaagtgacaccgtcgtgcttcctcagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAgtaagtgcctggcttttacatcgatatgaggatgacttcccagaccaaaa Alignment from Pairagon TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAA acacaggggattagaagactctaagaagtgacaccgtcgtgcttcctcagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAgtaagtgcctggcttttacatcgatatgaggatgacttcccagaccaaaa Alignment from Exonerate_protein2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTT acacaggggattagaagactctaagaagtgacaccgtcgtgcttcctcagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGTAAGTGCCTGgcttttacatcgatatgaggatgacttcccagaccaaaa Alignment from Exonerate_coding2genome TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGAGTTGGAGTT acacaggggattagaagactctaagaagtgacaccgtcgtgcttcctcagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAGTAAGTGCCTGgcttttacatcgatatgaggatgacttcccagaccaaaa Alignment from GeneWise TGCACCTGACATTGAACTCTTGGAAGCATCTCCTGCCAAAGCAGCCCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAA acacaggggattagaagactctaagaagtgacaccgtcgtgcttcctcagTGCACCTGACATTGAACTCCTGGAAGCATCACCTGCCAAAGCAGCTCCACCAAAGCAGACATGGCGGACATTTTTGAAGAAAgtaagtgcctggcttttacatcgatatgaggatgacttcccagaccaaaa #### Mta2_ID2532_5 --> 1 - 0 Original Alignment gGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG------ ggtatgatggactgctcatcccggatttttgtgtcctgtttaaacttcaggGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAATCAACCgtaagcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from CESAR gGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG------ ggtatgatggactgctcatcccggatttttgtgtcctgtttaaacttcaggGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAATCAACCgtaagcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Spaln_aa2Genome GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG------ ggtatgatggactgctcatcccggatttttgtgtcctgtttaaacttcagGGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAATCAACCgtaagcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Spaln_nt2Genome GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG------ ggtatgatggactgctcatcccggatttttgtgtcctgtttaaacttcagGGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAATCAACCgtaagcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Pairagon GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAG------ ggtatgatggactgctcatcccggatttttgtgtcctgtttaaacttcagGGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAATCAACCgtaagcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Exonerate_protein2genome GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAG ggtatgatggactgctcatcccggatttttgtgtcctgtttaaacttcagGGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGgaatcaaccgtaagcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from Exonerate_coding2genome GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAG ggtatgatggactgctcatcccggatttttgtgtcctgtttaaacttcagGGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGgaatcaaccgtaagcacccattggcataagagggggggaggcccctggaggtaagtgag Alignment from GeneWise GGGGAAGTGCAGCGTGACTCTCTTGAACGAGACAGACATCTTAAACCAGTATCTAGACAAGGAGGACTGC ggtatgatggactgctcatcccggatttttgtgtcctgtttaaacttcagGGTAAAGTGCAGTGTGACTCTCTTGAATGAGACAGACATCTTAAACCAATATCTAGACAAGGAATCAACCgtaagcacccattggcataagagggggggaggcccctggaggtaagtgag #### Mta2_ID2534_7 --> 2 - 2 Original Alignment gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg tttccctttctcccacccgttcatcattgcttttcttcttgtttatctagga---------AATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTcggtttgtgagatgttcaggtaggtggcctagggtgcattggattgaaattt Alignment from CESAR gaGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg tctgacttatttccctttctcccacattgcttttcttcttgtttatctagga---------AATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTcggtttgtgagatgttcaggtaggtggcctagggtgcattggattgaaattt Alignment from Spaln_aa2Genome GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tttccctttctcccacccgttcatcattgcttttcttcttgtttatctagGA---------AATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTCGgtttgtgagatgttcaggtaggtggcctagggtgcattggattgaaattt Alignment from Spaln_nt2Genome ATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tttccctttctcccacccgttcatcattgcttttcttcttgtttatctagGAAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTCGgtttgtgagatgttcaggtaggtggcctagggtgcattggattgaaattt Alignment from Pairagon GAGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tttccctttctcccacccgttcatcattgcttttcttcttgtttatctagGA---------AATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTCGgtttgtgagatgttcaggtaggtggcctagggtgcattggattgaaattt Alignment from Exonerate_protein2genome ATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tttccctttctcccacccgttcatcattgcttttcttcttgtttatctagGAAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTCGgtttgtgagatgttcaggtaggtggcctagggtgcattggattgaaattt Alignment from Exonerate_coding2genome ATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tttccctttctcccacccgttcatcattgcttttcttcttgtttatctagGAAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTCGgtttgtgagatgttcaggtaggtggcctagggtgcattggattgaaattt Alignment from GeneWise ATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tttccctttctcccacccgttcatcattgcttttcttcttgtttatctagGAAATCGAAATCAACAGAAAATGGAGATGAAAGTCTGGGACCCAGGCAACCCCCTCACAGACCGACAGATTGACCAATTTCTTGTGGTGGCTCGgtttgtgagatgttcaggtaggtggcctagggtgcattggattgaaattt #### Mta2_ID2535_8 --> 1 - 0 Original Alignment aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATT------CGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gaaccctcctctgttcatacgtttttgtttacaaaatcactttctttcagt------------------AGAGCTCTAGACTGCACCAGCTCAATCTCAATTCGGCAATCAAGCTTGCACATGAGTGCA------GCGACCCGAGATATTACTCTGgtgagggccaactcacagatagttgagtaggttaagctgagagtggagcg Alignment from CESAR aGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCA------ATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG cttgactttcaataggaagaacccttgtttacaaaatcactttctttcagt------------------AGAGCTCTAGACTGCACCAGCTCAATCTCAATTCGGCAATCAAGCTTGCACATGAGTGCA------GCGACCCGAGATATTACTCTGgtgagggccaactcacagatagttgagtaggttaagctgagagtggagcg Alignment from Spaln_aa2Genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGC------TCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gaaccctcctctgttcatacgtttttgtttacAAAATCACTTTCTTTCAGTAGAGCTCTAGACTGCACCAGCTCAATCTCAATTCGGCAATCAAGCTTGCACATGAGTGCAGCGACC------CGAGATATTACTCTGgtgagggccaactcacagatagttgagtaggttaagctgagagtggagcg Alignment from Spaln_nt2Genome CGAGAGCCCTAGACTGCAGCAGCTCAAT------TCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gaaccctcctctgttcatacgtttttgtttacaaaatcactttctttcag-TAGAGCTCTAGACTGCACCAGCTCAATCTCAATTCGGCAATCAAGCTTGCACATGAGTGCA------GCGACCCGAGATATTACTCTGgtgagggccaactcacagatagttgagtaggttaagctgagagtggagcg Alignment from Pairagon AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCA------ATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gaaccctcctctgttcatacgtttttgtttacaaaatcactttctttcag------------------TAGAGCTCTAGACTGCACCAGCTCAATCTCAATTCGGCAATCAAGCTTGCACATGAGTGCA------GCGACCCGAGATATTACTCTGgtgagggccaactcacagatagttgagtaggttaagctgagagtggagcg Alignment from Exonerate_protein2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gaaccctcctctgttcatacgtttttgtttacAAAATCACTTTCTTTCAGTAGAGCTCTAGACTGCACCAGCTCAATCTCAATTCGGCAATCAAGCTTGCACATGAGTGCAGCGACCCGAGATATTACTCTGgtgagggccaactcacagatagttgagtaggttaagctgagagtggagcg Alignment from Exonerate_coding2genome AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGCTCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gaaccctcctctgttcatacgtttttgtttacAAAATCACTTTCTTTCAGTAGAGCTCTAGACTGCACCAGCTCAATCTCAATTCGGCAATCAAGCTTGCACATGAGTGCAGCGACCCGAGATATTACTCTGgtgagggccaactcacagatagttgagtaggttaagctgagagtggagcg Alignment from GeneWise AGCTGTGGGAACCTTCGCGAGAGCCCTAGACTGCAGCAGC------TCAATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCGTCCCGAGATATCACTCTG gaaccctcctctgttcatacgtttttgtttacaaaatcactttctttcagT------------------AGAGCTCTAGACTGCACCAGCTCAATCTCAATTCGGCAATCAAGCTTGCACATGAGT------GCAGCGACCCGAGATATTACTCTGgtgagggccaactcacagatagttgagtaggttaagctgagagtggagcg #### Mta2_ID2537_10 --> 0 - 0 Original Alignment CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG gactgagaacacatgccaatttcacactcatgtgcgttctcacctttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGAC---------------gtgtgtggcaggccaatatgaaatcaactaactgaagacctggaccagag Alignment from CESAR CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG gactgagaacacatgccaatttcacactcatgtgcgttctcacctttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGAC---------------gtgtgtggcaggccaatatgaaatcaactaactga Alignment from Spaln_aa2Genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG gactgagaacacatgccaatttcacactcatgtgcgttctcacctttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACGTGTGTGGCAGGCCAatatgaaatcaactaactgaagacctggaccagag Alignment from Spaln_nt2Genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG gactgagaacacatgccaatttcacactcatgtgcgttctcacctttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACGTGTGT----GGCAGgccaatatgaaatcaactaactgaagacctggacc Alignment from Pairagon CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGAC gactgagaacacatgccaatttcacactcatgtgcgttctcacctttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACgtgtgtggcaggccaatatgaaatcaactaactgaagacctggaccagag Alignment from Exonerate_protein2genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG gactgagaacacatgccaatttcacactcatgtgcgttctcacctttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACGTGTGTGGCAGGCCAatatgaaatcaactaactgaagacctggaccagag Alignment from Exonerate_coding2genome CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG gactgagaacacatgccaatttcacactcatgtgcgttctcacctttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACGTGTGTGGCAGGCCAatatgaaatcaactaactgaagacctggaccagag Alignment from GeneWise CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGAC gactgagaacacatgccaatttcacactcatgtgcgttctcacctttcagCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACgtgtgtggcaggccaatatgaaatcaactaactgaagacctggaccagag #### Mta2_ID2538_11 --> 0 - 2 Original Alignment AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT------ta atactgcttgaaatgctttgaatttattaacacctgggttcctcttacagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTATTCCAtagtgagtttggcagcaatgcaaatcaggaacccctcatgggccagggagac Alignment from CESAR AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT------ta atactgcttgaaatgctttgaatttattaacacctgggttcctcttacagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTATTCCAtagtgagtttggcagcaatgcaaatcaggaacccctcatgggccagggagac Alignment from Spaln_aa2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTAT----- atactgcttgaaatgctttgaatttattaacacctgggttcctcttacagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTATTCCATAgtgagtttggcagcaatgcaaatcaggaacccctcatgggccagggagac Alignment from Spaln_nt2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT------TA atactgcttgaaatgctttgaatttattaacacctgggttcctcttacagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTATTCCATAgtgagtttggcagcaatgcaaatcaggaacccctcatgggccagggagac Alignment from Pairagon AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT------TA atactgcttgaaatgctttgaatttattaacacctgggttcctcttacagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTATTCCATAgtgagtttggcagcaatgcaaatcaggaacccctcatgggccagggagac Alignment from Exonerate_protein2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT------TA atactgcttgaaatgctttgaatttattaacacctgggttcctcttacagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTATTCCATAgtgagtttggcagcaatgcaaatcaggaacccctcatgggccagggagac Alignment from Exonerate_coding2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT------TA atactgcttgaaatgctttgaatttattaacacctgggttcctcttacagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTATTCCATAgtgagtttggcagcaatgcaaatcaggaacccctcatgggccagggagac Alignment from GeneWise AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACT------TA atactgcttgaaatgctttgaatttattaacacctgggttcctcttacagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTATATCCCCACTATTCCATAgtgagtttggcagcaatgcaaatcaggaacccctcatgggccagggagac #### Mta2_ID2539_12 --> 1 - 1 Original Alignment tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa ggttatttcccttactgccatctttctcaacatgaattctgtttctgcagtACTAAGCCAAATCCTAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGT---agtaagaagttggaagtgggaacatggttggttagcatggtcccagttggc Alignment from CESAR tACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACa ggttatttcccttactgccatctttctcaacatgaattctgtttctgcagtACTAAGCCAAATCCTAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGT---agtaagaagttggaagtgggaacatggttggttagcatggtcccagttggc Alignment from Spaln_aa2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGC- ggttatttcccttactgccatctttctcaacatgaattctgtttctgcagTACTAAGCCAAATCCTAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGTAgtaagaagttggaagtgggaacatggttggttagcatggtcccagttggc Alignment from Spaln_nt2Genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA ggttatttcccttactgccatctttctcaacatgaattctgtttctgcagTACTAAGCCAAATCCTAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTG---TAgtaagaagttggaagtgggaacatggttggttagcatggtcccagttggc Alignment from Pairagon TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCCACA ggttatttcccttactgccatctttctcaacatgaattctgtttctgcagTACTAAGCCAAATCCTAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTG---TAgtaagaagttggaagtgggaacatggttggttagcatggtcccagttggc Alignment from Exonerate_protein2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCC ggttatttcccttactgccatctttctcaacatgaattctgtttctgcagTACTAAGCCAAATCCTAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGTAgtaagaagttggaagtgggaacatggttggttagcatggtcccagttggc Alignment from Exonerate_coding2genome TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCC ggttatttcccttactgccatctttctcaacatgaattctgtttctgcagTACTAAGCCAAATCCTAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGTAgtaagaagttggaagtgggaacatggttggttagcatggtcccagttggc Alignment from GeneWise TACCAAGCCAAACCCTAACCAGATCATTTCTGTGGGTTCAAAACCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGCC ggttatttcccttactgccatctttctcaacatgaattctgtttctgcagTACTAAGCCAAATCCTAACCAGATCATCTCTGTGGGTTCAAAGCCTGGCATGAATGGGGCTGGATTCCAGAAGGGCCTGACTTGTGAGAGCTGTAgtaagaagttggaagtgggaacatggttggttagcatggtcccagttggc #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ---------ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag gggttctatgggtggtagtttctgcattagtaaccagctttcttctgcagCTGAAAGACATGGCAGGAGCAGGGGTCCCTTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCaggtagggagggagtctagcatgagaggctgaggtgctggtaatccaggtca Alignment from CESAR ---------ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag gggttctatgggtggtagtttctgcattagtaaccagctttcttctgcagCTGAAAGACATGGCAGGAGCAGGGGTCCCTTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCaggtagggagggagtctagcatgagaggctgaggtgctggtaatccaggtca Alignment from Spaln_aa2Genome ATGGCAGGGGCA---------GGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttctatgggtggtagtttctgcattagtaaccagctttcttctgcagCTGAAAGACATGGCAGGAGCAGGGGTCCCTTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtagggagggagtctagcatgagaggctgaggtgctggtaatccaggtca Alignment from Spaln_nt2Genome ATGGCAGGGGC---------AGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttctatgggtggtagtttctgcattagtaaccagctttcttctgcagCTGAAAGACATGGCAGGAGCAGGGGTCCCTTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtagggagggagtctagcatgagaggctgaggtgctggtaatccaggtca Alignment from Pairagon ---------ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttctatgggtggtagtttctgcattagtaaccagctttcttctgcagCTGAAAGACATGGCAGGAGCAGGGGTCCCTTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtagggagggagtctagcatgagaggctgaggtgctggtaatccaggtca Alignment from Exonerate_protein2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttctatgggtggtagtttctgcattagtaaccagctttcttctgcagctgaaagacATGGCAGGAGCAGGGGTCCCTTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtagggagggagtctagcatgagaggctgaggtgctggtaatccaggtca Alignment from Exonerate_coding2genome ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttctatgggtggtagtttctgcattagtaaccagctttcttctgcagctgaaagacATGGCAGGAGCAGGGGTCCCTTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtagggagggagtctagcatgagaggctgaggtgctggtaatccaggtca Alignment from GeneWise ---------ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttctatgggtggtagtttctgcattagtaaccagctttcttctgcagCTGAAAGACATGGCAGGAGCAGGGGTCCCTTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtagggagggagtctagcatgagaggctgaggtgctggtaatccaggtca #### Mus81_ID1041_15 --> 1 - 2 Original Alignment tCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGag tgtctccgactacttgctagataattgggacttctgtgttttctccccagtCTCCTGGCTGCTTATCATGCTTGTGCCACTGCAAAGGAGCAGAAGATGCTCTTG---------------------------aggtgagtgtaggtgcgatctggagttattaagctgcaccacatactagtta Alignment from CESAR tCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGag tgtctccgactacttgctagataattgggacttctgtgttttctccccagtCTCCTGGCTGCTTATCATGCTTGTGCCACTGCAAAGGAGCAGAAGATGCTCTTG---------------------------aggtgagtgtaggtgcgatctggagttattaagctgcaccacatactagtta Alignment from Spaln_aa2Genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAG tgtctccgactacttgctagataattgggacttctgtgttttctccccagTCTCCTGGCTGCTTATCATGCTTGTGCCACTGCAAAGGAGCAGAAGATGCTCTTGAGgtgagtgtaggtgcgatctggagttattaagctgcaccacatactagtta Alignment from Spaln_nt2Genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAGCACCATCAAGTGTGGGCGTCTGCAGAG tgtctccgactacttgctagataattgggacttctgtgttttctccccagTCTCCTGGCTGCTTATCATGCTTGTGCCACTGCAAAGGAGCAGAAGATGCTCTTGAG-----GTGAGTGTAGGTGCGATCTGGAgttattaagctgcaccacatact Alignment from Pairagon TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAG tgtctccgactacttgctagataattgggacttctgtgttttctccccagTCTCCTGGCTGCTTATCATGCTTGTGCCACTGCAAAGGAGCAGAAGATGCTCTTGAGgtgagtgtaggtgcgatctggagttattaagctgcaccacatactagtta Alignment from Exonerate_protein2genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAG tgtctccgactacttgctagataattgggacttctgtgttttctccccagTCTCCTGGCTGCTTATCATGCTTGTGCCACTGCAAAGGAGCAGAAGATGCTCTTGAGgtgagtgtaggtgcgatctggagttattaagctgcaccacatactagtta Alignment from Exonerate_coding2genome TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAG tgtctccgactacttgctagataattgggacttctgtgttttctccccagTCTCCTGGCTGCTTATCATGCTTGTGCCACTGCAAAGGAGCAGAAGATGCTCTTGAGgtgagtgtaggtgcgatctggagttattaagctgcaccacatactagtta Alignment from GeneWise TCTCCTGGCTGCTTATGATGCCTGTGCCACCGCGAAGGAGCAGGAGATGCTCTTGAG tgtctccgactacttgctagataattgggacttctgtgttttctccccagTCTCCTGGCTGCTTATCATGCTTGTGCCACTGCAAAGGAGCAGAAGATGCTCTTGAGgtgagtgtaggtgcgatctggagttattaagctgcaccacatactagtta #### Mus81_ID1044_12 --> 0 - 0 Original Alignment ---------GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcactttgcctcctctctgtgtcagCACGACTCCGTCATTGATGGATTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTTTGACAAAGGGCCTGGAGCGACTGTATGAGgtaataagatgcgactattcaaggctgaacccttgcctggcttttattgt Alignment from CESAR ---------GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcactttgcctcctctctgtgtcagCACGACTCCGTCATTGATGGATTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTTTGACAAAGGGCCTGGAGCGACTGTATGAGgtaataagatgcgactattcaaggctgaacccttgcctggcttttattgt Alignment from Spaln_aa2Genome GTCATTGATGGCTTT---------TTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcactttgcctcctctctgtgtcagCACGACTCCGTCATTGATGGATTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTTTGACAAAGGGCCTGGAGCGACTGTATGAGgtaataagatgcgactattcaaggctgaacccttgcctggcttttattgt Alignment from Spaln_nt2Genome GTCATTGATGG---------CTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcactttgcctcctctctgtgtcagCACGACTCCGTCATTGATGGATTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTTTGACAAAGGGCCTGGAGCGACTGTATGAGgtaataagatgcgactattcaaggctgaacccttgcctggcttttattgt Alignment from Pairagon -----------------------------------------------------------GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG ACAGACCATGGCACAGTCTAGTAGCTCACTTTGCCTCCTCTCTGTGTCAGCACGACTCCGTCATTGATGGATTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTTTGACAAAGGGCCTGGAGCGACTGTATGAGgtaataagatgcgactattcaaggctgaacccttgcctggcttttattgt Alignment from Exonerate_protein2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcactttgcctcctctctgtgtcagcacgactccGTCATTGATGGATTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTTTGACAAAGGGCCTGGAGCGACTGTATGAGgtaataagatgcgactattcaaggctgaacccttgcctggcttttattgt Alignment from Exonerate_coding2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcactttgcctcctctctgtgtcagcacgactccGTCATTGATGGATTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTTTGACAAAGGGCCTGGAGCGACTGTATGAGgtaataagatgcgactattcaaggctgaacccttgcctggcttttattgt Alignment from GeneWise ---------GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcactttgcctcctctctgtgtcagCACGACTCCGTCATTGATGGATTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTTTGACAAAGGGCCTGGAGCGACTGTATGAGgtaataagatgcgactattcaaggctgaacccttgcctggcttttattgt #### Mus81_ID1046_10 --> 2 - 0 Original Alignment aa---------------------AGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaagtcaagaaattaccttctgcttggtgtttagagAAAAATGGCATTGAGCACATGAGACCTGGGGAGTTAGTCCTGGATCACATTGTGGAACGTAAGCGGATAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGAGCAGAAGgtgagtaggcgccttagtcaggccttgccccttgcatgccttagcataga Alignment from CESAR aa---------------------AGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaagtcaagaaattaccttctgcttggtgtttagagAAAAATGGCATTGAGCACATGAGACCTGGGGAGTTAGTCCTGGATCACATTGTGGAACGTAAGCGGATAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGAGCAGAAGgtgagtaggcgccttagtcaggccttgccccttgcatgccttagcataga Alignment from Spaln_aa2Genome ACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaagtcaagaaattaccttctgcttggtgtttagagaaaaatggcattgagcacatgagACCTGGGGAGTTAGTCCTGGATCACATTGTGGAACGTAAGCGGATAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGAGCAGAAGgtgagtaggcgccttagtcaggccttgccccttgcatgccttagcataga Alignment from Spaln_nt2Genome AA----AGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaagtcaagaaattaccttctgcttggtgtttagagaaaaatggcattgagCACATGAGACCTGGGGAGTTAGTCCTGGATCACATTGTGGAACGTAAGCGGATAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGAGCAGAAGgtgagtaggcgccttagtcaggccttgccccttgcatgccttagcataga Alignment from Pairagon AA-------------------AGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaagtcaagaaattaccttctgcttggtgtttagagAAAAATGGCATTGAGCACATGAGACCTGGGGAGTTAGTCCTGGATCACATTGTGGAACGTAAGCGGATAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGAGCAGAAGgtgagtaggcgccttagtcaggccttgccccttgcatgccttagcataga Alignment from Exonerate_protein2genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaagtcaagaaattaccttctgcttggtgtttagagaaaaatggcattgagcacaTGAGACCTGGGGAGTTAGTCCTGGATCACATTGTGGAACGTAAGCGGATAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGAGCAGAAGgtgagtaggcgccttagtcaggccttgccccttgcatgccttagcataga Alignment from Exonerate_coding2genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaagtcaagaaattaccttctgcttggtgtttagagaaaaatggcattgagcacaTGAGACCTGGGGAGTTAGTCCTGGATCACATTGTGGAACGTAAGCGGATAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGAGCAGAAGgtgagtaggcgccttagtcaggccttgccccttgcatgccttagcataga Alignment from GeneWise ACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaagtcaagaaattaccttctgcttggtgtttagagaaaaatggcattgagcacatgagACCTGGGGAGTTAGTCCTGGATCACATTGTGGAACGTAAGCGGATAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGAGCAGAAGgtgagtaggcgccttagtcaggccttgccccttgcatgccttagcataga #### Mus81_ID1047_9 --> 1 - 1 Original Alignment g------GCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAg gtctctgtggacaggctctctcaccttgagtttttctgttaatataccagtGTTGGAGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACACGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCCAGAGACCCAggtatgaagtccaagagtgatgagggaggccagtattggaagagacaggga Alignment from CESAR g------GCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAg gtctctgtggacaggctctctcaccttgagtttttctgttaatataccagtGTTGGAGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACACGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCCAGAGACCCAggtatgaagtccaagagtgatgagggaggccagtattggaagagacaggga Alignment from Spaln_aa2Genome GGCAGGACACAGG------CCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtctctgtggacaggctctctcaccttgagtttttctgttaatataccagTGTTGGAGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACACGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCCAGAGACCCAGgtatgaagtccaagagtgatgagggaggccagtattggaagagacaggga Alignment from Spaln_nt2Genome GGGGCAGGACACAGGCCAGAAATG----CTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtctctgtggacaggctctctcaccttgagtttttctgttaatataccagTGTTGGAGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACACGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCCAGAGACCCAGgtatgaagtccaagagtgatgagggaggccagtattggaagagacaggga Alignment from Pairagon ---------------------------------------------------------GCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG GTCTCTGTGGACAGGCTCTCTCACCTTGAGTTTTTCTGTTAATATACCAGTGTTGGAGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACACGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCCAGAGACCCAGgtatgaagtccaagagtgatgagggaggccagtattggaagagacaggga Alignment from Exonerate_protein2genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtctctgtggacaggctctctcaccttgagtttttctgttaatataccagtgttggAGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACACGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCCAGAGACCCAGgtatgaagtccaagagtgatgagggaggccagtattggaagagacaggga Alignment from Exonerate_coding2genome GGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtctctgtggacaggctctctcaccttgagtttttctgttaatataccagtgttggAGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACACGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCCAGAGACCCAGgtatgaagtccaagagtgatgagggaggccagtattggaagagacaggga Alignment from GeneWise ----GGGGCAGGACACAGGCCAGAAATGCTCCGAGAGTTACAAAGGCTGCGTGTGCCCCACACCGTACGCAAGCTACACGTTGGAGACTTTGTGTGGGTGGCACAGGAGACCAGGCCCAGAGACCCAG gtctctgtggacaggctctctcaccttgagtttttctgttaatataccagTGTTGGAGCAGGCCACAGGCCAGAAATGCTCCGAGAGTTGCAAAGGCTGCGTGTGCCCCACACTGTACGCAAGCTACACGTTGGAGACTTTGTTTGGGTAGCACAGGAGACCAGACCCAGAGACCCAGgtatgaagtccaagagtgatgagggaggccagtattggaagagacaggga #### Mus81_ID1054_2 --> 0 - 1 Original Alignment GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGC---g gatgtgtggatcttaattagacaagctctctccattgttctttcttacagGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATACTCCAGCACTTTGGGGACAGGCTCTGCTGCATGCTGGACAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTCCCggtaaccaccccatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from CESAR GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGC---g gatgtgtggatcttaattagacaagctctctccattgttctttcttacagGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATACTCCAGCACTTTGGGGACAGGCTCTGCTGCATGCTGGACAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTCCCggtaaccaccccatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Spaln_aa2Genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCGGTG gatgtgtggatcttaattagacaagctctctccattgttctttcttacagGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATACTCCAGCACTTTGGGGACAGGCTCTGCTGCATGCTGGACAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTCCCGgtaaccaccccatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Spaln_nt2Genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGG---CG gatgtgtggatcttaattagacaagctctctccattgttctttcttacagGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATACTCCAGCACTTTGGGGACAGGCTCTGCTGCATGCTGGACAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTCCCGgtaaccaccccatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Pairagon GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGG---CG gatgtgtggatcttaattagacaagctctctccattgttctttcttacagGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATACTCCAGCACTTTGGGGACAGGCTCTGCTGCATGCTGGACAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTCCCGgtaaccaccccatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Exonerate_protein2genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGC---G gatgtgtggatcttaattagacaagctctctccattgttctttcttacagGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATACTCCAGCACTTTGGGGACAGGCTCTGCTGCATGCTGGACAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTCCCGgtaaccaccccatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Exonerate_coding2genome GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGC---G gatgtgtggatcttaattagacaagctctctccattgttctttcttacagGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATACTCCAGCACTTTGGGGACAGGCTCTGCTGCATGCTGGACAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTCCCGgtaaccaccccatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from GeneWise GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCGGT- gatgtgtggatcttaattagacaagctctctccattgttctttcttacagGTATTGCGCTCCCTGCAAAAGTACCCACTACCTTTGCGCAGTGGAAGGGAAGCTAAGATACTCCAGCACTTTGGGGACAGGCTCTGCTGCATGCTGGACAAAAAGCTAAAGCAGCCCCTAGCCTCAGGTCCCGgtaaccaccccatggtggtctcctgactctctcaggtgcacactgtgtct #### Myof_ID7469_33 --> 0 - 0 Original Alignment GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--------- ataatggtatctgctggggcaatggatgctgtctcctgtttgtctcacagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCTCCCCTGGTGAAACTGAACTCACAAACAGACATCACACCCAAGCCTCTCTGGCATCCTGTTATGAACGGGGACAAGGCTTGTGCAGATGTCCTCGTTACGGCAGAGTTGATTTTGAGGAACAAGTACATCACGgtaagttatgttcatactcatacattccacaaacttcttagagcacctaa Alignment from CESAR GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--------- ataatggtatctgctggggcaatggatgctgtctcctgtttgtctcacagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCTCCCCTGGTGAAACTGAACTCACAAACAGACATCACACCCAAGCCTCTCTGGCATCCTGTTATGAACGGGGACAAGGCTTGTGCAGATGTCCTCGTTACGGCAGAGTTGATTTTGAGGAACAAGTACATCACGgtaagttatgttcatactcatacattccacaaacttcttagagcacctaa Alignment from Spaln_aa2Genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--------- ataatggtatctgctggggcaatggatgctgtctcctgtttgtctcacagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCTCCCCTGGTGAAACTGAACTCACAAACAGACATCACACCCAAGCCTCTCTGGCATCCTGTTATGAACGGGGACAAGGCTTGTGCAGATGTCCTCGTTACGGCAGAGTTGATTTTGAGGAACAAGTACATCACGgtaagttatgttcatactcatacattccacaaacttcttagagcacctaa Alignment from Spaln_nt2Genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAA ataatggtatctgctggggcaatggatgctgtctcctgtttgtctcacagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCTCCCCTGGTGAAACTGAACTCACAAACAGACATCACACCCAAGCCTCTCTGGCATCCTGTTATGAACGGGGACAAGGCTTGTGCAGATGTCCTCGTTACGGCAGAGTTGATTTTGAGGAACAAgtacatcacggtaagttatgttcatactcatacattccacaaacttcttagagcacctaa Alignment from Pairagon GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--------- ataatggtatctgctggggcaatggatgctgtctcctgtttgtctcacagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCTCCCCTGGTGAAACTGAACTCACAAACAGACATCACACCCAAGCCTCTCTGGCATCCTGTTATGAACGGGGACAAGGCTTGTGCAGATGTCCTCGTTACGGCAGAGTTGATTTTGAGGAACAAGTACATCACGgtaagttatgttcatactcatacattccacaaacttcttagagcacctaa Alignment from Exonerate_protein2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctggggcaatggatgctgtctcctgtttgtctcacagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCTCCCCTGGTGAAACTGAACTCACAAACAGACATCACACCCAAGCCTCTCTGGCATCCTGTTATGAACGGGGACAAGGCTTGTGCAGATGTCCTCGTTACGGCAGAGTTGATTTTGAGGAACAAGtacatcacggtaagttatgttcatactcatacattccacaaacttcttagagcacctaa Alignment from Exonerate_coding2genome GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG ataatggtatctgctggggcaatggatgctgtctcctgtttgtctcacagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCTCCCCTGGTGAAACTGAACTCACAAACAGACATCACACCCAAGCCTCTCTGGCATCCTGTTATGAACGGGGACAAGGCTTGTGCAGATGTCCTCGTTACGGCAGAGTTGATTTTGAGGAACAAGtacatcacggtaagttatgttcatactcatacattccacaaacttcttagagcacctaa Alignment from GeneWise GGCAAAGATGAATTTTTAGGTCGAAGCATTTGCTCTCCCTTGGTGAAACTGAACTCAGAAACGGACATCACACCTAAGCTTCTCTGGCATCCTGTTATGAATGGAGACAAGGCCTGTGGGGATGTCCTCGTAACAGCAGAGTTGATTCTGAGGAACAAG--------- ataatggtatctgctggggcaatggatgctgtctcctgtttgtctcacagGGTAAAGATGAATTTTTAGGTCAGAGCATTTGCTCTCCCCTGGTGAAACTGAACTCACAAACAGACATCACACCCAAGCCTCTCTGGCATCCTGTTATGAACGGGGACAAGGCTTGTGCAGATGTCCTCGTTACGGCAGAGTTGATTTTGAGGAACAAGTACATCACGgtaagttatgttcatactcatacattccacaaacttcttagagcacctaa #### Myof_ID7493_9 --> 0 - 0 Original Alignment GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG taaagcagaagcaaagaattttcactccccccctgtggttttcttgaaag---TATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGAATTTAAGgtgagtgacaccaccattatgttcaatgagataaggatgagagccactta Alignment from CESAR GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG taagagtccagaagcaaagaatttttccccccctgtggttttcttgaaag---TATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGAATTTAAGgtgagtgacaccaccattatgttcaatgagataaggatgagagccactta Alignment from Spaln_aa2Genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG taaagcagaagcaaagaattttcactccccccctgtggttttcttgaaagTATAATTCCCAT---TCTTTGAGAGCAGATTGTTTTATGGGAGAATTTAAGgtgagtgacaccaccattatgttcaatgagataaggatgagagccactta Alignment from Spaln_nt2Genome TT-- TATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG TAAAgcagaagcaaagaattttcactccccccctgtggttttcttgaaagTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGAATTTAAGgtgagtgacaccaccattatgttcaatgagataaggatgagagccactta Alignment from Pairagon T------------------------------------------------TTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG TAAAGCAGAAGCAAAGAATTTTCACTCCCCCCCTGTGGTTTTCTTGAAAGTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGAATTTAAGgtgagtgacaccaccattatgttcaatgagataaggatgagagccactta Alignment from Exonerate_protein2genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG taaagcagaagcaaagaattttcactccccccctgtggttttcttgaAAGTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGAATTTAAGgtgagtgacaccaccattatgttcaatgagataaggatgagagccactta Alignment from Exonerate_coding2genome GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAG taaagcagaagcaaagaattttcactccccccctgtggttttcttgaAAGTATAATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGAATTTAAGgtgagtgacaccaccattatgttcaatgagataaggatgagagccactta Alignment from GeneWise GTTTATAATTCCCATTCTTTGAGGGCAGATTGTCTGATGGGGGAATTTAAGATT- taaagcagaagcaaagaattttcactccccccctgtggttttcttgaaagTAT---AATTCCCATTCTTTGAGAGCAGATTGTTTTATGGGAGAATTTAAGGTGAgtgacaccaccattatgttcaatgagataaggatgagagccactta #### Myrf_ID2714_23 --> 1 - 2 Original Alignment g------CTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGaa gaagaaactggcaaagtggcctttattatagttcctgtcctttttttcagaATTCATCTTGGCAACTTTACATACCATATCCCAGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTACAGATGaagtgagcgctggtgcatgaccagacatgtgagtacaaagtgatgatatggg Alignment from CESAR g------CTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGaa gaagaaactggcaaagtggcctttattatagttcctgtcctttttttcagaATTCATCTTGGCAACTTTACATACCATATCCCAGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTACAGATGaagtgagcgctggtgcatgaccagacatgtgagtacaaagtgatgatatggg Alignment from Spaln_aa2Genome GCTTGGCAACTTC------ACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gaagaaactggcaaagtggcctttattatagttcctgtcctttttttcagAATTCATCTTGGCAACTTTACATACCATATCCCAGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTACAGATGAAgtgagcgctggtgcatgaccagacatgtgagtacaaagtgatgatatggg Alignment from Spaln_nt2Genome GCTTGGCAAC------TTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gaagaaactggcaaagtggcctttattatagttcctgtcctttttttcagAATTCATCTTGGCAACTTTACATACCATATCCCAGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTACAGATGAAgtgagcgctggtgcatgaccagacatgtgagtacaaagtgatgatatggg Alignment from Pairagon ------GCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gaagaaactggcaaagtggcctttattatagttcctgtcctttttttcagAATTCATCTTGGCAACTTTACATACCATATCCCAGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTACAGATGAAgtgagcgctggtgcatgaccagacatgtgagtacaaagtgatgatatggg Alignment from Exonerate_protein2genome G------CTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gaagaaactggcaaagtggcctttattatagttcctgtcctttttttcagAATTCATCTTGGCAACTTTACATACCATATCCCAGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTACAGATGAAgtgagcgctggtgcatgaccagacatgtgagtacaaagtgatgatatggg Alignment from Exonerate_coding2genome G------CTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gaagaaactggcaaagtggcctttattatagttcctgtcctttttttcagAATTCATCTTGGCAACTTTACATACCATATCCCAGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTACAGATGAAgtgagcgctggtgcatgaccagacatgtgagtacaaagtgatgatatggg Alignment from GeneWise ----AGGCTTGGCAACTTCACCTACCACATCCCTGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTGCAGATGAA gaagaaactggcaaagtggcctttattatagttcctgtcctttttttcagAATTCATCTTGGCAACTTTACATACCATATCCCAGTCAGCAGCAGCACACCACTGCACCTCAGCCTGACCCTACAGATGAAgtgagcgctggtgcatgaccagacatgtgagtacaaagtgatgatatggg #### Myrf_ID2725_12 --> 0 - 0 Original Alignment GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG ttaaaatttaccctgcccccaaatgatctctctgtgcccttgttggccag---TCTAACCCAGGACAGTTT---AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGTATCAACACCGACCTGCCAGATGAAGCATTAGTTGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCTGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagggctgtggcccatggggcttccctgcataactggagggggtaggg Alignment from CESAR GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG gccttaaaatttaccctgcccccaaatctctctgtgcccttgttggccag---TCTAACCCAGGACAGTTT---AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGTATCAACACCGACCTGCCAGATGAAGCATTAGTTGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCTGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagggctgtggcccatggggcttccctgcataactggagggggtaggg Alignment from Spaln_aa2Genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG ttaaaatttaccctgcccccaaatgatctctctgtgcccttgttggccag---TCTAACCCAGGACAGTTT---AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGTATCAACACCGACCTGCCAGATGAAGCATTAGTTGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCTGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagggctgtggcccatggggcttccctgcataactggagggggtaggg Alignment from Spaln_nt2Genome GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG ttaaaatttaccctgcccccaaatgatctctctgtgcccttgttggccag---TCTAACCCAGGACAGTTT---AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGTATCAACACCGACCTGCCAGATGAAGCATTAGTTGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCTGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagggctgtggcccatggggcttccctgcataactggagggggtaggg Alignment from Pairagon GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG ttaaaatttaccctgcccccaaatgatctctctgtgcccttgttggccag---TCTAACCCAGGACAGTTT---AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGTATCAACACCGACCTGCCAGATGAAGCATTAGTTGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCTGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagggctgtggcccatggggcttccctgcataactggagggggtaggg Alignment from Exonerate_protein2genome TCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG ttaaaatttaccctgcccccaaatgatctctctgtgcccttgttggccagTCTAACCCAGGACAGTTT---AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGTATCAACACCGACCTGCCAGATGAAGCATTAGTTGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCTGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagggctgtggcccatggggcttccctgcataactggagggggtaggg Alignment from Exonerate_coding2genome TCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG ttaaaatttaccctgcccccaaatgatctctctgtgcccttgttggccagTCTAACCCAGGACAGTTT---AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGTATCAACACCGACCTGCCAGATGAAGCATTAGTTGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCTGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagggctgtggcccatggggcttccctgcataactggagggggtaggg Alignment from GeneWise GCCTCTAACCCAGGCCAGTTTGAAAGTGACAGTGACGTGCTGTGGCAACGGGCGCAGCTGCCAGATACGGTCTTCCACCATGGCCGTGTGGGCATCAACACCGACCGGCCAGATGAGGCATTGGTCGTCCACGGCAACGTGAAGGTCATGGGTTCTCTTATGCACCCTTCCGATCTGCGGGCCAAGGAGCACGTGCAGGAG ttaaaatttaccctgcccccaaatgatctctctgtgcccttgttggccagTCT---AACCCAGGACAGTTT---AGTGATAGTGATGTACTGTGGCAACGGGCACAACTGCCAGATACAGTCTTTCACCCTGGCCGTGTGGGTATCAACACCGACCTGCCAGATGAAGCATTAGTTGTCCATGGCAATGTGAAGGTCATGGGTTCCCTTATGCACCCTTCTGATCTGCGGGCTAAGGAGCATGTGCAGGAGgtaagggctgtggcccatggggcttccctgcataactggagggggtaggg #### Myrf_ID2726_11 --> 1 - 0 Original Alignment gTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctacaggtatccctgagcgttagcatctttttggtttatgttcacagg---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttaaaggtaatgtcctccccctcctctgaactg Alignment from CESAR gTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG gaatggctacaggtatccctgagcggcatctttttggtttatgttcacagg---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttaaaggtaatgtcctccccctcctctgaactg Alignment from Spaln_aa2Genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctacaggtatccctgagcgttagcatctttttggtttatgttcacagG---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttaaaggtaatgtcctccccctcctctgaactg Alignment from Spaln_nt2Genome TTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctacaggtatccctgagcgttagcatctttttggtttatgttcacagGTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttaaaggtaatgtcctccccctcctctgaactg Alignment from Pairagon GTAT--------------------------------------TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctacagGTATCCCTGAGCGTTAGCATCTTTTTGGTTTATGTTCACAGGTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttaaaggtaatgtcctccccctcctctgaactg Alignment from Exonerate_protein2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctacaggtatccctgagcgttagcatctttttggtttatgttcacagG---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttaaaggtaatgtcctccccctcctctgaactg Alignment from Exonerate_coding2genome GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctacaggtatccctgagcgttagcatctttttggtttatgttcacagG---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttaaaggtaatgtcctccccctcctctgaactg Alignment from GeneWise GTATTTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAGAACTACACACTGGCAGCCCAGATCTCAGAGCGTATCATTGTGCGG tggctacaggtatccctgagcgttagcatctttttggtttatgttcacagG---TTCATGCTGGTGGTGGCCCTCCAGGCACATGCACAGAACCAAAACTACACCCTGGCAGCCCAGATTTCAGAGCGTATCATTGTGCGGgtgagtatcatttctccttaaaggtaatgtcctccccctcctctgaactg #### Naaladl1_ID1447_6 --> 1 - 2 Original Alignment tAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag aggtactgaaactgcctgccctacaccaaaccccagctctccctccccagt------ACGGGAACCTCTGCCCCTGCTTTCTGGCAGAGGGCCCTAGGCTGTGAGTACAAACTAGGACCTGGATTTGAGCCAAATGAAAGCTTCCCTGATGGGaggtatgtcaggacatcctttatctattccttccctctcttgttgatttgtt Alignment from CESAR tAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag aattgtaggtactgaaactgcctgcccaaaccccagctctccctccccagt------ACGGGAACCTCTGCCCCTGCTTTCTGGCAGAGGGCCCTAGGCTGTGAGTACAAACTAGGACCTGGATTTGAGCCAAATGAAAGCTTCCCTGATGGGaggtatgtcaggacatcctttatctattccttccctctcttgttgatttgtt Alignment from Spaln_aa2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aggtactgaaactgcctgccctacaccaaaccccagctctccctccccagT------ACGGGAACCTCTGCCCCTGCTTTCTGGCAGAGGGCCCTAGGCTGTGAGTACAAACTAGGACCTGGATTTGAGCCAAATGAAAGCTTCCCTGATGGGAGgtatgtcaggacatcctttatctattccttccctctcttgttgatttgtt Alignment from Spaln_nt2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aggtactgaaactgcctgccctacaccaaaccccagctctccctccccagT------ACGGGAACCTCTGCCCCTGCTTTCTGGCAGAGGGCCCTAGGCTGTGAGTACAAACTAGGACCTGGATTTGAGCCAAATGAAAGCTTCCCTGATGGGAGgtatgtcaggacatcctttatctattccttccctctcttgttgatttgtt Alignment from Pairagon TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aggtactgaaactgcctgccctacaccaaaccccagctctccctccccagT------ACGGGAACCTCTGCCCCTGCTTTCTGGCAGAGGGCCCTAGGCTGTGAGTACAAACTAGGACCTGGATTTGAGCCAAATGAAAGCTTCCCTGATGGGAGgtatgtcaggacatcctttatctattccttccctctcttgttgatttgtt Alignment from Exonerate_protein2genome CACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aggtactgaaactgcctgccctacaccaaaccccagctctccctccccagTACGGGAACCTCTGCCCCTGCTTTCTGGCAGAGGGCCCTAGGCTGTGAGTACAAACTAGGACCTGGATTTGAGCCAAATGAAAGCTTCCCTGATGGGAGgtatgtcaggacatcctttatctattccttccctctcttgttgatttgtt Alignment from Exonerate_coding2genome CACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aggtactgaaactgcctgccctacaccaaaccccagctctccctccccagTACGGGAACCTCTGCCCCTGCTTTCTGGCAGAGGGCCCTAGGCTGTGAGTACAAACTAGGACCTGGATTTGAGCCAAATGAAAGCTTCCCTGATGGGAGgtatgtcaggacatcctttatctattccttccctctcttgttgatttgtt Alignment from GeneWise CACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG aggtactgaaactgcctgccctacaccaaaccccagctctccctccccagTACGGGAACCTCTGCCCCTGCTTTCTGGCAGAGGGCCCTAGGCTGTGAGTACAAACTAGGACCTGGATTTGAGCCAAATGAAAGCTTCCCTGATGGGAGgtatgtcaggacatcctttatctattccttccctctcttgttgatttgtt #### Naaladl1_ID1452_11 --> 2 - 0 Original Alignment ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggggacgggttagctgtcaacagtgtaggcatttcccctctcttgcagcc---ACTACTCTCCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTCTCTTCAACCAAAGATgtaagaaggtgatgttcaaaggagtaaggggggactatgctgtctaggtt Alignment from CESAR ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gggaaggggacgggttagctgtcaatgtaggcatttcccctctcttgcagcc---ACTACTCTCCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTCTCTTCAACCAAAGATgtaagaaggtgatgttcaaaggagtaaggggggactatgctgtctaggtt Alignment from Spaln_aa2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggggacgggttagctgtcaacagtgtaggcatttcccctctcttgcagCC---ACTACTCTCCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTCTCTTCAACCAAAGATgtaagaaggtgatgttcaaaggagtaaggggggactatgctgtctaggtt Alignment from Spaln_nt2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggggacgggttagctgtcaacagtgtaggcatttcccctctcttgcagCCA---CTACTCTCCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTCTCTTCAACCAAAGATgtaagaaggtgatgttcaaaggagtaaggggggactatgctgtctaggtt Alignment from Pairagon CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggggacgggttagctgtcaacagtgtaggcatttcccctctcttgcagCCA---CTACTCTCCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTCTCTTCAACCAAAGATgtaagaaggtgatgttcaaaggagtaaggggggactatgctgtctaggtt Alignment from Exonerate_protein2genome ATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggggacgggttagctgtcaacagtgtaggcatttcccctctcttgcagCCACTACTCTCCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTCTCTTCAACCAAAGATgtaagaaggtgatgttcaaaggagtaaggggggactatgctgtctaggtt Alignment from Exonerate_coding2genome ATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggggacgggttagctgtcaacagtgtaggcatttcccctctcttgcagCCACTACTCTCCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTCTCTTCAACCAAAGATgtaagaaggtgatgttcaaaggagtaaggggggactatgctgtctaggtt Alignment from GeneWise CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG aaggggacgggttagctgtcaacagtgtaggcatttcccctctcttgcagCC---ACTACTCTCCAGGCCCAGGGAGCACCACCTGTACAAGGTGTGCTCTTCTCTTCAACCAAAGATgtaagaaggtgatgttcaaaggagtaaggggggactatgctgtctaggtt #### Naaladl1_ID1456_15 --> 2 - 1 Original Alignment gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------g gacaaaagggtgggatctggatgtggctcatgatgtcacttccctcccaggtTTTAGCAGCCACCAAGCTGTCGCCCGGACTGCTGGGAGTGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTAAATGTCAGTGACTATAGTGAGACCTTACAAGGTTTCCTCCAGGCTGCTCAAGAGGCCCTGGGCACCCAGTTAGAGAAGCAGAATGTTAGCCTGGTGAATggtaagtcaaggaactctgcatccacaggcagggcccacggcccttcctct Alignment from CESAR gtTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------g gacaaaagggtgggatctggatgtggctcatgatgtcacttccctcccaggtTTTAGCAGCCACCAAGCTGTCGCCCGGACTGCTGGGAGTGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTAAATGTCAGTGACTATAGTGAGACCTTACAAGGTTTCCTCCAGGCTGCTCAAGAGGCCCTGGGCACCCAGTTAGAGAAGCAGAATGTTAGCCTGGTGAATggtaagtcaaggaactctgcatccacaggcagggcctttattatgtgacac Alignment from Spaln_aa2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG------G gacaaaagggtgggatctggatgtggctcatgatgtcacttccctcccagGTTTTAGCAGCCACCAAGCTGTCGCCCGGACTGCTGGGAGTGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTAAATGTCAGTGACTATAGTGAGACCTTACAAGGTTTCCTCCAGGCTGCTCAAGAGGCCCTGGGCACCCAGTTAGAGAAGCAGAATGTTAGCCTGGTGAATGgtaagtcaaggaactctgcatccacaggcagggcccacggcccttcctct Alignment from Spaln_nt2Genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG------ gacaaaagggtgggatctggatgtggctcatgatgtcacttccctcccagGTTTTAGCAGCCACCAAGCTGTCGCCCGGACTGCTGGGAGTGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTAAATGTCAGTGACTATAGTGAGACCTTACAAGGTTTCCTCCAGGCTGCTCAAGAGGCCCTGGGCACCCAGTTAGAGAAGCAGAATGTTAGCCTGGTGAATGgtaagtcaaggaactctgcatccacaggcagggcccacggcccttcctct Alignment from Pairagon GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTGG------ gacaaaagggtgggatctggatgtggctcatgatgtcacttccctcccagGTTTTAGCAGCCACCAAGCTGTCGCCCGGACTGCTGGGAGTGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTAAATGTCAGTGACTATAGTGAGACCTTACAAGGTTTCCTCCAGGCTGCTCAAGAGGCCCTGGGCACCCAGTTAGAGAAGCAGAATGTTAGCCTGGTGAATGgtaagtcaaggaactctgcatccacaggcagggcccacggcccttcctct Alignment from Exonerate_protein2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG gacaaaagggtgggatctggatgtggctcatgatgtcacttccctcccagGTTTTAGCAGCCACCAAGCTGTCGCCCGGACTGCTGGGAGTGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTAAATGTCAGTGACTATAGTGAGACCTTACAAGGTTTCCTCCAGGCTGCTCAAGAGGCCCTGGGCACCCAGTTAGAGAAGCAGAATGTTAGCCTGgtgaatggtaagtcaaggaactctgcatccacaggcagggcccacggcccttcctct Alignment from Exonerate_coding2genome GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG gacaaaagggtgggatctggatgtggctcatgatgtcacttccctcccagGTTTTAGCAGCCACCAAGCTGTCGCCCGGACTGCTGGGAGTGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTAAATGTCAGTGACTATAGTGAGACCTTACAAGGTTTCCTCCAGGCTGCTCAAGAGGCCCTGGGCACCCAGTTAGAGAAGCAGAATGTTAGCCTGgtgaatggtaagtcaaggaactctgcatccacaggcagggcccacggcccttcctct Alignment from GeneWise GTTTCAGCAGCCACCAAGCTGTGGCCCGGACTGCTGGGAGCGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTCAATGTCAGTGACTATAGTGAGACACTACAGAGTTTCCTGCAGGCTGCTCAAGAGGCCCTTGGCACCCAGTTAGAGAAACAGAACATCAGCCTG--------------------------------------------------------- gacaaaagggtgggatctggatgtggctcatgatgtcacttccctcccagGTTTTAGCAGCCACCAAGCTGTCGCCCGGACTGCTGGGAGTGTGCTTCTCCGGCTCAGTGACAGCCTCTTCCTGCCCCTAAATGTCAGTGACTATAGTGAGACCTTACAAGGTTTCCTCCAGGCTGCTCAAGAGGCCCTGGGCACCCAGTTAGAGAAGCAGAATGTTAGCCTGGTGAATGGTAAGTCAAGGAACTCTGCATCCACAGGCAGGGCCCACGGCCCTTCCTCT #### Naaladl1_ID1457_16 --> 2 - 2 Original Alignment ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga aaggaactctgcatccacaggcagggcctttattatgtgacactctgtagggCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGC------gagtaagaacacatgccagcagagggcatgtgtcaccaggcatacatggaga Alignment from CESAR ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga aaggaactctgcatccacaggcagggcctttattatgtgacactctgtagggCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGC------gagtaagaacacatgccagcagagggcatgtgtcaccaggcatacatggaga Alignment from Spaln_aa2Genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAG aaggaactctgcatccacaggcagggcctttattatgtgacactctgtagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCGAgtaagaacacatgccagcagagggcatgtgtcaccaggcatacatggaga Alignment from Spaln_nt2Genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA aaggaactctgcatccacaggcagggcctttattatgtgacactctgtagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGC------GAgtaagaacacatgccagcagagggcatgtgtcaccaggcatacatggaga Alignment from Pairagon GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA aaggaactctgcatccacaggcagggcctttattatgtgacactctgtagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGC------GAgtaagaacacatgccagcagagggcatgtgtcaccaggcatacatggaga Alignment from Exonerate_protein2genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA aaggaactctgcatccacaggcagggcctttattatgtgacactctgtagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGC------GAgtaagaacacatgccagcagagggcatgtgtcaccaggcatacatggaga Alignment from Exonerate_coding2genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA aaggaactctgcatccacaggcagggcctttattatgtgacactctgtagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGC------GAgtaagaacacatgccagcagagggcatgtgtcaccaggcatacatggaga Alignment from GeneWise GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAG aaggaactctgcatccacaggcagggcctttattatgtgacactctgtagGGCCTTTGGTGACAGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGAGCGAgtaagaacacatgccagcagagggcatgtgtcaccaggcatacatggaga #### Ndufs8_ID193_3 --> 2 - 1 Original Alignment agTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATT---CTGATGTGGACAGAACTCATCCGA------g cctgaacttgaatggcgttgccattaaccctccctctcacatacctttagagTATGTAAACAAGAAAGAACAAGAGTCTGAGGTAGACATGAAGTCTGCGACTGACAATGCTGCTCAGATTCTGATGATGTGGACAAAACTAATCCGGATTCCAggtaggaaccagtgaagggccaaaaggggaaatccaagcagcaatgtttgg Alignment from CESAR agTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGA------g cctgaacttgaatggcgttgccattaaccctccctctcacatacctttagagTATGTAAACAAGAAAGAACAAGAGTCTGAGGTAGACATGAAGTCTGCGACTGACAATGCTGCTCAGATTCTGATGATGTGGACAAAACTAATCCGGATTCCAggtaggaaccagtgaagggccaaaaggggaaatccaagcagcaatgtttgg Alignment from Spaln_aa2Genome AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGA------G cctgaacttgaatggcgttgccattaaccctccctctcacatacctttagAGTATGTAAACAAGAAAGAACAAGAGTCTGAGGTAGACATGAAGTCTGCGACTGACAATGCTGCTCAGATTCTGATGATGTGGACAAAACTAATCCGGATTCCAGgtaggaaccagtgaagggccaaaaggggaaatccaagcagcaatgtttgg Alignment from Spaln_nt2Genome AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCG------AG cctgaacttgaatggcgttgccattaaccctccctctcacatacctttagAGTATGTAAACAAGAAAGAACAAGAGTCTGAGGTAGACATGAAGTCTGCGACTGACAATGCTGCTCAGATTCTGATGATGTGGACAAAACTAATCCGGATTCCAGgtaggaaccagtgaagggccaaaaggggaaatccaagcagcaatgtttgg Alignment from Pairagon AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTC---TGATGTGGACAGAACTCATCCG---------------------------------------------------------- cctgaacttgaatggcgttgccattaaccctccctctcacatacctttagAGTATGTAAACAAGAAAGAACAAGAGTCTGAGGTAGACATGAAGTCTGCGACTGACAATGCTGCTCAGATTCTGATGATGTGGACAAAACTAATCCGGATTCCAGGTAGGAACCAGTGAAGGGCCAAAAGGGGAAATCCAAGCAGCAATGTTTGG Alignment from Exonerate_protein2genome AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGA------G cctgaacttgaatggcgttgccattaaccctccctctcacatacctttagAGTATGTAAACAAGAAAGAACAAGAGTCTGAGGTAGACATGAAGTCTGCGACTGACAATGCTGCTCAGATTCTGATGATGTGGACAAAACTAATCCGGATTCCAGgtaggaaccagtgaagggccaaaaggggaaatccaagcagcaatgtttgg Alignment from Exonerate_coding2genome AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTG---ATGTGGACAGAACTCATCCGA------G cctgaacttgaatggcgttgccattaaccctccctctcacatacctttagAGTATGTAAACAAGAAAGAACAAGAGTCTGAGGTAGACATGAAGTCTGCGACTGACAATGCTGCTCAGATTCTGATGATGTGGACAAAACTAATCCGGATTCCAGgtaggaaccagtgaagggccaaaaggggaaatccaagcagcaatgtttgg Alignment from GeneWise AGTATGTGAATAAGAAGGAACAGGAGTCTGAGGTGGACATGAAGTCCGCAACTGACAATGCAGCTCGGATTCTGATG---TGGACAGAACTCATCCGA------G cctgaacttgaatggcgttgccattaaccctccctctcacatacctttagAGTATGTAAACAAGAAAGAACAAGAGTCTGAGGTAGACATGAAGTCTGCGACTGACAATGCTGCTCAGATTCTGATGATGTGGACAAAACTAATCCGGATTCCAGgtaggaaccagtgaagggccaaaaggggaaatccaagcagcaatgtttgg #### Ndufv1_ID274_8 --> 0 - 1 Original Alignment ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGg tattgtggggtgatggctaggatgtctgggatgctctgggtctcttgtagACAGACATTGTGAAAGCCATTGCTCATCTCATTGAGTTCTATAAGCAT---------------------------------ggtaagttttctgtaaatattggcatgttgttgcatcgtatccccggggtg Alignment from CESAR ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGCCGTGAGg tattgtggggtgatggctaggatgtctgggatgctctgggtctcttgtagACAGACATTGTGAAAGCCATTGCTCATCTCATTGAGTTCTATAAGCAT---------------------------------ggtaagttttctgtaaatattggcatgttgttgcatcgtatccccggggtg Alignment from Spaln_aa2Genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGCCAGTGTACCCCGTGC---CGTGAGG tattgtggggtgatggctaggatgtctgggatgctctgggtctcttgtagACAGACATTGTGAAAGCCATTGCTCATCTCATTGAGTTCTATAAGCATGGTAAGTTTTCTGTAAATATTGGCATGTTGTTGCATCgtatccccggggtg Alignment from Spaln_nt2Genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATG tattgtggggtgatggctaggatgtctgggatgctctgggtctcttgtagACAGACATTGTGAAAGCCATTGCTCATCTCATTGAGTTCTATAAGCATGgtaagttttctgtaaatattggcatgttgttgcatcgtatccccggggtg Alignment from Pairagon ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATG tattgtggggtgatggctaggatgtctgggatgctctgggtctcttgtagACAGACATTGTGAAAGCCATTGCTCATCTCATTGAGTTCTATAAGCATGgtaagttttctgtaaatattggcatgttgttgcatcgtatccccggggtg Alignment from Exonerate_protein2genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATG tattgtggggtgatggctaggatgtctgggatgctctgggtctcttgtagACAGACATTGTGAAAGCCATTGCTCATCTCATTGAGTTCTATAAGCATGgtaagttttctgtaaatattggcatgttgttgcatcgtatccccggggtg Alignment from Exonerate_coding2genome ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATG tattgtggggtgatggctaggatgtctgggatgctctgggtctcttgtagACAGACATTGTGAAAGCCATTGCTCATCTCATTGAGTTCTATAAGCATGgtaagttttctgtaaatattggcatgttgttgcatcgtatccccggggtg Alignment from GeneWise ACAGACATTGTGAAAGCCATCGCTCGTCTCATTGAGTTCTACAAGCATGAGAGCTGTGGC---CAGTGTACCCCGTGCCGTGAGG tattgtggggtgatggctaggatgtctgggatgctctgggtctcttgtagACAGACATTGTGAAAGCCATTGCTCATCTCATTGAGTTCTATAAGCATGGTAAGTTTTCTGTAAATATTGGCATGTTGTTGCATCgtatccccggggtg #### Nfkb2_ID9825_3 --> 2 - 0 Original Alignment ct---------GATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaagaagcttttctgtcctctccacacagctGAGCGGTTGGATGGCCCCTATCTGGTGATTGTGGAACAGACCAAACAGgtaagggtgcaacagagagttgtgtcttcacctttgggggaaaggtagga Alignment from CESAR ct---------GATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaagaagcttttctgtcctctccacacagctGAGCGGTTGGATGGCCCCTATCTGGTGATTGTGGAACAGACCAAACAGgtaagggtgcaacagagagttgtgtcttcacctttgggggaaaggtagga Alignment from Spaln_aa2Genome CT---------GATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaagaagcttttctgtcctctccacacagCTGAGCGGTTGGATGGCCCCTATCTGGTGATTGTGGAACAGACCAAACAGgtaagggtgcaacagagagttgtgtcttcacctttgggggaaaggtagga Alignment from Spaln_nt2Genome CTGA---------TGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaagaagcttttctgtcctctccacacagCTGAGCGGTTGGATGGCCCCTATCTGGTGATTGTGGAACAGACCAAACAGgtaagggtgcaacagagagttgtgtcttcacctttgggggaaaggtagga Alignment from Pairagon CT---------GATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaagaagcttttctgtcctctccacacagCTGAGCGGTTGGATGGCCCCTATCTGGTGATTGTGGAACAGACCAAACAGgtaagggtgcaacagagagttgtgtcttcacctttgggggaaaggtagga Alignment from Exonerate_protein2genome CTGAGACAGCTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaagaagcttttctgtcctctccacacagCTGAGCGGTTGGATGGCCCCTATCTGGTGATTGTGGAACAGACCAAACAGgtaagggtgcaacagagagttgtgtcttcacctttgggggaaaggtagga Alignment from Exonerate_coding2genome CTGAGACAGCTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaagaagcttttctgtcctctccacacagCTGAGCGGTTGGATGGCCCCTATCTGGTGATTGTGGAACAGACCAAACAGgtaagggtgcaacagagagttgtgtcttcacctttgggggaaaggtagga Alignment from GeneWise --------GCTGATGGCCCCTATCTGGTGATTGTGGAACAGCCCAAACAG actctaccaagaccaaaccaggaagaagcttttctgtcctctccacacagCTGAGCGGTTGGATGGCCCCTATCTGGTGATTGTGGAACAGACCAAACAGgtaagggtgcaacagagagttgtgtcttcacctttgggggaaaggtagga #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCT---ca gatgacaatgttctgtagggtgcatggacttttctgctttcgcccctcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTAACcagtaagggatgcttccctgtcctggagtggcatgattttctgcacagcctc Alignment from CESAR ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCT---ca gatgacaatgttctgtagggtgcatggacttttctgctttcgcccctcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTAACcagtaagggatgcttccctgtcctggagtggcatgattttctgcacagcctc Alignment from Spaln_aa2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCAA-- gatgacaatgttctgtagggtgcatggacttttctgctttcgcccctcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTAACCAgtaagggatgcttccctgtcctggagtggcatgattttctgcacagcctc Alignment from Spaln_nt2Genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCT---CA gatgacaatgttctgtagggtgcatggacttttctgctttcgcccctcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTAACCAgtaagggatgcttccctgtcctggagtggcatgattttctgcacagcctc Alignment from Pairagon ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCT---CA gatgacaatgttctgtagggtgcatggacttttctgctttcgcccctcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTAACCAgtaagggatgcttccctgtcctggagtggcatgattttctgcacagcctc Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCT---CA gatgacaatgttctgtagggtgcatggacttttctgctttcgcccctcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTAACCAgtaagggatgcttccctgtcctggagtggcatgattttctgcacagcctc Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCT---CA gatgacaatgttctgtagggtgcatggacttttctgctttcgcccctcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTAACCAgtaagggatgcttccctgtcctggagtggcatgattttctgcacagcctc Alignment from GeneWise ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCAA-- gatgacaatgttctgtagggtgcatggacttttctgctttcgcccctcagATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCACATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGGGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTAACCAgtaagggatgcttccctgtcctggagtggcatgattttctgcacagcctc #### Nfkb2_ID9828_6 --> 1 - 1 Original Alignment a------TTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg agagccctcatgtcaagctgcatccaaatttctgcttgtttcccctctagaGTAACATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATCCAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGTCTTGCTggtgcgttgatcaaaggtgtcctgggaggtgttcctacaggggccaaaaag Alignment from CESAR a------TTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAg agagccctcatgtcaagctgcatccaaatttctgcttgtttcccctctagaGTAACATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATCCAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGTCTTGCTggtgcgttgatcaaaggtgtcctgggaggtgttcctacaggggccaaaaag Alignment from Spaln_aa2Genome A------TTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACA agagccctcatgtcaagctgcatccaaatttctgcttgtttcccctctagAGTAACATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATCCAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGTCTTGCTGgtgcgttgatcaaaggtgtcctgggaggtgttcctacaggggccaaaaag Alignment from Spaln_nt2Genome A------TTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agagccctcatgtcaagctgcatccaaatttctgcttgtttcccctctagAGTAACATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATCCAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGTCTTGCTGgtgcgttgatcaaaggtgtcctgggaggtgttcctacaggggccaaaaag Alignment from Pairagon ------ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agagccctcatgtcaagctgcatccaaatttctgcttgtttcccctctagAGTAACATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATCCAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGTCTTGCTGgtgcgttgatcaaaggtgtcctgggaggtgttcctacaggggccaaaaag Alignment from Exonerate_protein2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agagccctcatgtcaagctgcatccaaatttctgcttgtttcccctctagAGTAACATTTAATAATTTGGGTCATGTAACCAAGAAGAACATGATGGAGATAATGATCCAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGTCTTGCTGgtgcgttgatcaaaggtgtcctgggaggtgttcctacaggggccaaaaag Alignment from Exonerate_coding2genome ATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agagccctcatgtcaagctgcatccaaatttctgcttgtttcccctctagAGTAACATTTAATAATTTGGGTCATGTAACCAAGAAGAACATGATGGAGATAATGATCCAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGTCTTGCTGgtgcgttgatcaaaggtgtcctgggaggtgttcctacaggggccaaaaag Alignment from GeneWise ----CAATTTAATAATCTGGGTGTCCTGCATGTAACCAAGAAGAACATGATGGAGATTATGATCCAGAAACTTCAGAGGCAGCGTCTCCGCTCCAAGCCTCAGGGCCTTACAG agagccctcatgtcaagctgcatccaaatttctgcttgtttcccctctagAGTAACATTTAATAATTTGGGT------CATGTAACCAAGAAGAACATGATGGAGATAATGATCCAGAAACTTCAAAGGCAGCGTCTCCAATCCAAACCACAGGGTCTTGCTGgtgcgttgatcaaaggtgtcctgggaggtgttcctacaggggccaaaaag #### Nfkb2_ID9829_7 --> 2 - 1 Original Alignment agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGC---------------------------a gggccaaaaagaacagctcagcgcttgcctttccttcattatcaatacagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCTAGTGACGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCCCATACGCCCATGTCTCCTTCCTCCATagtacagactctgcagggggccaggcacacattgacaagagtgcagttgag Alignment from CESAR agGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCa gggccaaaaagaacagctcagcgcttgcctttccttcattatcaatacagagGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCTAGTGACGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCccatacgcccatgtctccttcctccatagtacagactctgcagggggccaggcacacattgacaagagtgcagttgag Alignment from Spaln_aa2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGAC- gggccaaaaagaacagctcagcgcttgcctttccttcattatcaatacagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCTAGTGACGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAgcccatacgcccatgtctccttcctccatagtacagactctgcagggggccaggcacacattgacaagagtgcagttgag Alignment from Spaln_nt2Genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACA gggccaaaaagaacagctcagcgcttgcctttccttcattatcaatacagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCTAGTGACGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAgcccatacgcccatgtctccttcctccatagtacagactctgcagggggccaggcacacattgacaagagtgcagttgag Alignment from Pairagon ---------------------------------------------TACAGAGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGC---------------------------A GGGCCAAAAAGAACAGCTCAGCGCTTGCCTTTCCTTCATTATCAATACAGAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCTAGTGACGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCCCATACGCCCATGTCTCCTTCCTCCATAgtacagactctgcagggggccaggcacacattgacaagagtgcagttgag Alignment from Exonerate_protein2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCAA gggccaaaaagaacagctcagcgcttgcctttccttcattatcaatacagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCTAGTGACGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCCCatacgcccatgtctccttcctccatagtacagactctgcagggggccaggcacacattgacaagagtgcagttgag Alignment from Exonerate_coding2genome AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGCAA gggccaaaaagaacagctcagcgcttgcctttccttcattatcaatacagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCTAGTGACGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCCCatacgcccatgtctccttcctccatagtacagactctgcagggggccaggcacacattgacaagagtgcagttgag Alignment from GeneWise AGGCTGAGCGGCGGGAGCTAGAGCAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCAGCTTTCCTTCGAGCTAGCGATGGCTCCTTCTCCTTGCCCCTGAAGCCTGTGATCTCCCAGCCCATCCATGACAGC---------------------------A gggccaaaaagaacagctcagcgcttgcctttccttcattatcaatacagAGGCTGAGCGCCGAGAGCTTGAACAGGAGGCCAAGGAGCTGAAGAAAGTCATGGATCTGAGCATTGTACGGCTGCGCTTCTCTGCTTTCCTTCGGGCTAGTGACGGTTCTTTCTCCTTGCCCCTGAAGCCTGTAATCTCCCAGCCGATCCATGACAGCCCATACGCCCATGTCTCCTTCCTCCATAgtacagactctgcagggggccaggcacacattgacaagagtgcagttgag #### Nfkb2_ID9830_8 --> 2 - 1 Original Alignment agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg taagtcattcaatgtgtcccttaatgttatagaaaaaaatatgattctagaa------GGGGCCTTGAACCTGAAGATCTCCCAGATGGACAAAACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAAGAggtaatgcaccctggggcaggctgtagtggtagtaatctggaaatcacttc Alignment from CESAR agTCT------------CCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg tgtgtccttcaatgtgtcccttaatgttatagaaAAAAATATGATTCTAGAAGGGGCCTTGAACCTGAAGATCTCCCAGATGGACAAAACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAAGAggtaatgcaccctggggcaggctgtagtggtagtaatctggaaatcacttc Alignment from Spaln_aa2Genome CCTCG---AACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG taagtcattcaatgtgtcccttaatgttatagaaaaaaatatgattctagaagGGGCCTTGAACCTGAAGATCTCCCAGATGGACAAAACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAAGAGgtaatgcaccctggggcaggctgtagtggtagtaatctggaaatcacttc Alignment from Spaln_nt2Genome CAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG taagtcattcaatgtgtcccttaatgttatagaaaaaaatatgattctagAAGGGGCCTTGAACCTGAAGATCTCCCAGATGGACAAAACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAAGAGgtaatgcaccctggggcaggctgtagtggtagtaatctggaaatcacttc Alignment from Pairagon AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG taagtcattcaatgtgtcccttaatgttatagaaaaaaatatgattctagA------AGGGGCCTTGAACCTGAAGATCTCCCAGATGGACAAAACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAAGAGgtaatgcaccctggggcaggctgtagtggtagtaatctggaaatcacttc Alignment from Exonerate_protein2genome GGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG taagtcattcaatgtgtcccttaatgttatagaaaaaaatatgattctagaagGGGCCTTGAACCTGAAGATCTCCCAGATGGACAAAACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAAGAGgtaatgcaccctggggcaggctgtagtggtagtaatctggaaatcacttc Alignment from Exonerate_coding2genome GGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG taagtcattcaatgtgtcccttaatgttatagaaaaaaatatgattctagaagGGGCCTTGAACCTGAAGATCTCCCAGATGGACAAAACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAAGAGgtaatgcaccctggggcaggctgtagtggtagtaatctggaaatcacttc Alignment from GeneWise CAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG taagtcattcaatgtgtcccttaatgttatagaaaaaaatatgattctagAAGGGGCCTTGAACCTGAAGATCTCCCAGATGGACAAAACAGCAGGTTCAGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAAGAGgtaatgcaccctggggcaggctgtagtggtagtaatctggaaatcacttc #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment acGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- agcagggctgcgccccctccgtatggctcataccttgttcttcccaccagacGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTCATAAACAGTGGgtaagcagcagcctgagcctgtctggatacagaactatggacatacattg Alignment from CESAR acGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- agcagggctgcgccccctccgtatggctcataccttgttcttcccaccagacGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTCATAAACAGTGGgtaagcagcagcctgagcctgtctggatacagaactatggacatacattg Alignment from Spaln_aa2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- agcagggctgcgccccctccgtatggctcataccttgttcttcccaccagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTCATAAACAGTGGgtaagcagcagcctgagcctgtctggatacagaactatggacatacattg Alignment from Spaln_nt2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- agcagggctgcgccccctccgtatggctcataccttgttcttcccaccagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTCATAAACAGTGGgtaagcagcagcctgagcctgtctggatacagaactatggacatacattg Alignment from Pairagon ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG--- agcagggctgcgccccctccgtatggctcataccttgttcttcccaccagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTCATAAACAGTGGgtaagcagcagcctgagcctgtctggatacagaactatggacatacattg Alignment from Exonerate_protein2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGTAT agcagggctgcgccccctccgtatggctcataccttgttcttcccaccagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTCATAAACAGTGGgtaagcagcagcctgagcctgtctggatacagaactatggacatacattg Alignment from Exonerate_coding2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGTAT agcagggctgcgccccctccgtatggctcataccttgttcttcccaccagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTCATAAACAGTGGgtaagcagcagcctgagcctgtctggatacagaactatggacatacattg Alignment from GeneWise ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAGTAT agcagggctgcgccccctccgtatggctcataccttgttcttcccaccagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCTTTTGGGGACTTTTCTCCCACAGATGTTCATAAACAGTGGgtaagcagcagcctgagcctgtctggatacagaactatggacatacattg #### Nfkb2_ID9832_10 --> 0 - 1 Original Alignment ------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTAC---CCTCTGGTGGAAg tatggacatacattgctggcactatgttaaatctggcttttcttgtacagAATTCATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAGAGGCCCGTAACAGTGTTCCTTCAGCTGAAGCGTAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGggtaagacaggcttcagcattcttaaaagctagatggaatcaggccagtga Alignment from CESAR ------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAg tatggacatacattgctggcactatgttaaatctggcttttcttgtacagAATTCATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAGAGGCCCGTAACAGTGTTCCTTCAGCTGAAGCGTAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGggtaagacaggcttcagcattcttaaaagctagatggaatcaggccagtga Alignment from Spaln_aa2Genome TATGCCATTGTG------TTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttaaatctggcttttcttgtacagAATTCATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAGAGGCCCGTAACAGTGTTCCTTCAGCTGAAGCGTAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacaggcttcagcattcttaaaagctagatggaatcaggccagtga Alignment from Spaln_nt2Genome TATGCCATT------GTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTA---CCCTCTGGTGGAAG tatggacatacattgctggcactatgttaaatctggcttttcttgtacagAATTCATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAGAGGCCCGTAACAGTGTTCCTTCAGCTGAAGCGTAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacaggcttcagcattcttaaaagctagatggaatcaggccagtga Alignment from Pairagon ------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttaaatctggcttttcttgtacagAATTCATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAGAGGCCCGTAACAGTGTTCCTTCAGCTGAAGCGTAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacaggcttcagcattcttaaaagctagatggaatcaggccagtga Alignment from Exonerate_protein2genome ------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttaaatctggcttttcttgtacagAATTCATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAGAGGCCCGTAACAGTGTTCCTTCAGCTGAAGCGTAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacaggcttcagcattcttaaaagctagatggaatcaggccagtga Alignment from Exonerate_coding2genome ------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttaaatctggcttttcttgtacagAATTCATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAGAGGCCCGTAACAGTGTTCCTTCAGCTGAAGCGTAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacaggcttcagcattcttaaaagctagatggaatcaggccagtga Alignment from GeneWise ------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACA---TATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttaaatctggcttttcttgtacagAATTCATATGCCATTGTGTTCCAGACTCCACCCTATCACAAGATGAAGATTGAGAGGCCCGTAACAGTGTTCCTTCAGCTGAAGCGTAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTATTACCCTTTGGTAGAGGgtaagacaggcttcagcattcttaaaagctagatggaatcaggccagtga #### Nfkb2_ID9836_14 --> 1 - 0 Original Alignment gCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ggggttttgaagaacaagtgaagaacaactggatcccacctgccctgcagcCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTGTCATTGAGCAGATCGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCAT---gtattcagaggaagcattttttaagagattgaaagcaagaagtctaaagc Alignment from CESAR gCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ggggttttgaagaacaagtgaagaacaactggatcccacctgccctgcagcCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTGTCATTGAGCAGATCGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCAT---gtattcagaggaagcattttttaagagattgaaagcaagaagtctaa Alignment from Spaln_aa2Genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCAC ggggttttgaagaacaagtgaagaacaactggatcccacctgccctgcagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTGTCATTGAGCAGATCGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATgtattcagaggaagcattttttaagagattgaaagcaagaagtctaaagc Alignment from Spaln_nt2Genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCAC ggggttttgaagaacaagtgaagaacaactggatcccacctgccctgcagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTGTCATTGAGCAGATCGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATgtattcagaggaagcattttttaagagattgaaagcaagaagtctaaagc Alignment from Pairagon GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCA--------------------------------------------------- ggggttttgaagaacaagtgaagaacaactggatcccacctgccctgcagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTGTCATTGAGCAGATCGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATGTATTCAGAGGAAGCATTTTTTAAGAGATTGAAAGCAAGAAGTCTAAAGC Alignment from Exonerate_protein2genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ggggttttgaagaacaagtgaagaacaactggatcccacctgccctgcagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTGTCATTGAGCAGATCGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATGTAttcagaggaagcattttttaagagattgaaagcaagaagtctaaagc Alignment from Exonerate_coding2genome GCCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCACCAG ggggttttgaagaacaagtgaagaacaactggatcccacctgccctgcagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTGTCATTGAGCAGATCGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATGTAttcagaggaagcattttttaagagattgaaagcaagaagtctaaagc Alignment from GeneWise -CCACTGCACCTGGCCATCATCCATGGGCAGACTGGTGTCATTGAGCAGATAGCCCACGTCATTTATCACGCTCAGTACCTCGGCGTCATCAACCTCACCAACCACCTGCAC ggggttttgaagaacaagtgaagaacaactggatcccacctgccctgcagCCCACTGCACTTAGCCATTATCCATGGGCAGACAGGTGTCATTGAGCAGATCGCCCATGTCATTTACCATGCTCAGTACCTTGGCGTAATAAACCTCACCAACCACCTGCATgtattcagaggaagcattttttaagagattgaaagcaagaagtctaaagc #### Nfkb2_ID9839_17 --> 0 - 1 Original Alignment CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gcttggttggctgtggccagactttgcttatttctaatttcaattcctagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCCGGACTCGGATCCCCAACACTTTCTCGCCTCCTT---------ggtgggccttcgtaagcgcgccattagtgtatgaagggccagggggggaag Alignment from CESAR CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTg gcttggttggctgtggccagactttgcttatttctaatttcaattcctagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCCGGACTCGGATCCCCAACACTTTCTCGCCTCCTT---------ggtgggccttcgtaagcgcgccattagtgtatgaagggccagggggggaag Alignment from Spaln_aa2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTT- gcttggttggctgtggccagactttgcttatttctaatttcaattcctagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCCGGACTCGGATCCCCAACACTTTCTCGCCTCCTTGgtgggccttcgtaagcgcgccattagtgtatgaagggccagggggggaag Alignment from Spaln_nt2Genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG- gcttggttggctgtggccagactttgcttatttctaatttcaattcctagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCCGGACTCGGATCCCCAACACTTTCTCGCCTCCTTGGTGGGCCTTCgtaagcgcgccattagtgtatgaagggccagggggggaag Alignment from Pairagon CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTCTAAAGGCTG gcttggttggctgtggccagactttgcttatttctaatttcaattcctagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCCGGACTCGGATCCCCAACACTTTCTCGCCTCCT---------TGgtgggccttcgtaagcgcgccattagtgtatgaagggccagggggggaag Alignment from Exonerate_protein2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTC gcttggttggctgtggccagactttgcttatttctaatttcaattcctagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCCGGACTCGGATCCCCAACACTTTCTCGCCTCCTTGgtgggccttcgtaagcgcgccattagtgtatgaagggccagggggggaag Alignment from Exonerate_coding2genome CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTTC gcttggttggctgtggccagactttgcttatttctaatttcaattcctagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCCGGACTCGGATCCCCAACACTTTCTCGCCTCCTTGgtgggccttcgtaagcgcgccattagtgtatgaagggccagggggggaag Alignment from GeneWise CTCCATGCTAATGTGAATGCCCGGACCTTTGCTGGAAACACACCCCTCCACCTGGCAGCTGGACTCGGGTCCCCAACTCTTACTCGCCTCCTT- gcttggttggctgtggccagactttgcttatttctaatttcaattcctagCTCCATGCCAATGTGAATGCTTGGACCTTTGCTGGAAACACACCACTCCATCTGGCAGCCGGACTCGGATCCCCAACACTTTCTCGCCTCCTTGgtgggccttcgtaagcgcgccattagtgtatgaagggccagggggggaag #### Nfkb2_ID9840_18 --> 2 - 0 Original Alignment gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG ttccatgtaatgagaaatggcgctttttcttgtttctgttctgtttgcaggt---------------------------CCTCTGTGTCCACTGCCTTCACCCTCAACCTCTGGGAGTGACTCCGACTCTGAGGGGCCTGAAAGAGATACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCAAGgtatgaccacccttggagaagatgggctgagggacatgggatctgctgca Alignment from CESAR gtGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG cgatttaggaaccttcactagtctttttcttgtttctgttctgtttgcaggt---------------------------CCTCTGTGTCCACTGCCTTCACCCTCAACCTCTGGGAGTGACTCCGACTCTGAGGGGCCTGAAAGAGATACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCAAGgtatgaccacccttggagaagatgggctgagggacatgggatctgctgca Alignment from Spaln_aa2Genome ---CCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAA ttccatgtaatgagaaatggcgctttttcttgtttctgttctgtttgcagGTCCTCTGTGTCCACTGCCTTCACCCTCAACCTCTGGGAGTGACTCCGACTCTGAGGGGCCTGAAAGAGATACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCAAGgtatgaccacccttggagaagatgggctgagggacatgggatctgctgca Alignment from Spaln_nt2Genome G-CCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG ttccatgtaatgagaaatggcgctttttcttgtttctgttctgtttgcagGTCCTCTGTGTCCACTGCCTTCACCCTCAACCTCTGGGAGTGACTCCGACTCTGAGGGGCCTGAAAGAGATACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCAAGgtatgaccacccttggagaagatgggctgagggacatgggatctgctgca Alignment from Pairagon GTGCTGACATCCATGCAGAGAATGAGGAGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG ttccatgtaatgagaaatggcgctttttcttgtttctgttctgtttgcagGT---------------------------CCTCTGTGTCCACTGCCTTCACCCTCAACCTCTGGGAGTGACTCCGACTCTGAGGGGCCTGAAAGAGATACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCAAGgtatgaccacccttggagaagatgggctgagggacatgggatctgctgca Alignment from Exonerate_protein2genome AGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG ttccatgtaatgagaaatggcgctttttcttgtttctgttctgtttgcagGTCCTCTGTGTCCACTGCCTTCACCCTCAACCTCTGGGAGTGACTCCGACTCTGAGGGGCCTGAAAGAGATACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCAAGgtatgaccacccttggagaagatgggctgagggacatgggatctgctgca Alignment from Exonerate_coding2genome AGCCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG ttccatgtaatgagaaatggcgctttttcttgtttctgttctgtttgcagGTCCTCTGTGTCCACTGCCTTCACCCTCAACCTCTGGGAGTGACTCCGACTCTGAGGGGCCTGAAAGAGATACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCAAGgtatgaccacccttggagaagatgggctgagggacatgggatctgctgca Alignment from GeneWise --CCTCTGTGCCCGCTGCCCTCACCCTCGACCTCTGGGAGCGACTCCGACTCTGAAGGGCCTGAGAGGGATACCCAAAGAAACTTCCGAGGCCATACCCCTCTTGACCTCACTTGCAGTACCAAG ttccatgtaatgagaaatggcgctttttcttgtttctgttctgtttgcagGTCCTCTGTGTCCACTGCCTTCACCCTCAACCTCTGGGAGTGACTCCGACTCTGAGGGGCCTGAAAGAGATACTCAAAGAACCTTCCGAGGGCATACCCCTCTTGATCTCACTTGCAGTACCAAGgtatgaccacccttggagaagatgggctgagggacatgggatctgctgca #### Noc3l_ID7659_16 --> 2 - 1 Original Alignment gtGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCA---g gagtgatttaaccaaatttgagtatgtgatttttcaacttttttttataggaGATGTTTTGAATATTGACCCCATGAAATTTTATACACATCTCTTCCAGACACTGTTTACGTTACATGCACACggtgagtcattgtggccgaaagcctttttgatcagagtagtagccaatgag Alignment from CESAR gtGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCA---g gagtgatttaaccaaatttgagtatgtgatttttcaacttttttttataggaGATGTTTTGAATATTGACCCCATGAAATTTTATACACATCTCTTCCAGACACTGTTTACGTTACATGCACACggtgagtcattgtggccgaaagcctttttgatcagagtagtagccaatgag Alignment from Spaln_aa2Genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCA---G gagtgatttaaccaaatttgagtatgtgatttttcaacttttttttatagGAGATGTTTTGAATATTGACCCCATGAAATTTTATACACATCTCTTCCAGACACTGTTTACGTTACATGCACACGgtgagtcattgtggccgaaagcctttttgatcagagtagtagccaatgag Alignment from Spaln_nt2Genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCA---G gagtgatttaaccaaatttgagtatgtgatttttcaacttttttttatagGAGATGTTTTGAATATTGACCCCATGAAATTTTATACACATCTCTTCCAGACACTGTTTACGTTACATGCACACGgtgagtcattgtggccgaaagcctttttgatcagagtagtagccaatgag Alignment from Pairagon GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCA---G gagtgatttaaccaaatttgagtatgtgatttttcaacttttttttatagGAGATGTTTTGAATATTGACCCCATGAAATTTTATACACATCTCTTCCAGACACTGTTTACGTTACATGCACACGgtgagtcattgtggccgaaagcctttttgatcagagtagtagccaatgag Alignment from Exonerate_protein2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCA---G gagtgatttaaccaaatttgagtatgtgatttttcaacttttttttatagGAGATGTTTTGAATATTGACCCCATGAAATTTTATACACATCTCTTCCAGACACTGTTTACGTTACATGCACACGgtgagtcattgtggccgaaagcctttttgatcagagtagtagccaatgag Alignment from Exonerate_coding2genome GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCA---G gagtgatttaaccaaatttgagtatgtgatttttcaacttttttttatagGAGATGTTTTGAATATTGACCCCATGAAATTTTATACACATCTCTTCCAGACACTGTTTACGTTACATGCACACGgtgagtcattgtggccgaaagcctttttgatcagagtagtagccaatgag Alignment from GeneWise GTGATGTTTTAAATATTGACCCGATGAAATTCTATACACATCTCTACAAGACACTGTTCACATTACATGCAGGT- gagtgatttaaccaaatttgagtatgtgatttttcaacttttttttatagGAGATGTTTTGAATATTGACCCCATGAAATTTTATACACATCTCTTCCAGACACTGTTTACGTTACATGCACACGgtgagtcattgtggccgaaagcctttttgatcagagtagtagccaatgag #### Noc3l_ID7660_15 --> 0 - 1 Original Alignment ------GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAg gtaaagaacagaaagcatttttgttcttaaatgaaactatttttccttagTCCTATGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAggtgagttagtccatttggtctcctttcccctatcactgaagagtgattta Alignment from CESAR ------GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAg gtaaagaacagaaagcatttttgttcttaaatgaaactatttttccttagTCCTATGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAggtgagttagtccatttggtctcctttcccctatcactgaagagtgattta Alignment from Spaln_aa2Genome GAGCTAAGTTAT------CAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gtaaagaacagaaagcatttttgttcttaaatgaaactatttttccttagTCCTATGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAGgtgagttagtccatttggtctcctttcccctatcactgaagagtgattta Alignment from Spaln_nt2Genome GGAGCTAAGTTA-----TCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gtaaagaacagaaagcatttttgttcttaaatgaaactatttttccttagTCCTATGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAGgtgagttagtccatttggtctcctttcccctatcactgaagagtgattta Alignment from Pairagon ------GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gtaaagaacagaaagcatttttgttcttaaatgaaactatttttccttagTCCTATGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAGgtgagttagtccatttggtctcctttcccctatcactgaagagtgattta Alignment from Exonerate_protein2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gtaaagaacagaaagcatttttgttcttaaatgaaactatttttccttagtcctatGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAGgtgagttagtccatttggtctcctttcccctatcactgaagagtgattta Alignment from Exonerate_coding2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gtaaagaacagaaagcatttttgttcttaaatgaaactatttttccttagtcctatGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAGgtgagttagtccatttggtctcctttcccctatcactgaagagtgattta Alignment from GeneWise ------GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG gtaaagaacagaaagcatttttgttcttaaatgaaactatttttccttagTCCTATGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAGgtgagttagtccatttggtctcctttcccctatcactgaagagtgattta #### Npas4_ID778_3 --> 0 - 1 Original Alignment GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTg ttgtggataccctctgggtaccttcattatacattatatatatatgcaagGTGGACCTAGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTGCGCCAGCAACTCACCATGCCCTCTGCTCTCGAT---ggtgagtagtgtatcatgcacaaaggttccaaagcatttagatgataagac Alignment from CESAR GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTg ttgtggataccctctgggtaccttcattatacattatatatatatgcaagGTGGACCTAGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTGCGCCAGCAACTCACCATGCCCTCTGCTCTCGAT---ggtgagtagtgtatcatgcacaaaggttccaaagcatttagatgataagac Alignment from Spaln_aa2Genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGAT- ttgtggataccctctgggtaccttcattatacattatatatatatgcaagGTGGACCTAGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTGCGCCAGCAACTCACCATGCCCTCTGCTCTCGATGgtgagtagtgtatcatgcacaaaggttccaaagcatttagatgataagac Alignment from Spaln_nt2Genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATG ttgtggataccctctgggtaccttcattatacattatatatatatgcaagGTGGACCTAGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTGCGCCAGCAACTCACCATGCCCTCTGCTCTCGATGgtgagtagtgtatcatgcacaaaggttccaaagcatttagatgataagac Alignment from Pairagon GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATG ttgtggataccctctgggtaccttcattatacattatatatatatgcaagGTGGACCTAGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTGCGCCAGCAACTCACCATGCCCTCTGCTCTCGATGgtgagtagtgtatcatgcacaaaggttccaaagcatttagatgataagac Alignment from Exonerate_protein2genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ttgtggataccctctgggtaccttcattatacattatatatatatgcaagGTGGACCTAGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTGCGCCAGCAACTCACCATGCCCTCTGCTCTCGAT---Ggtgagtagtgtatcatgcacaaaggttccaaagcatttagatgataagac Alignment from Exonerate_coding2genome GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATGCTG ttgtggataccctctgggtaccttcattatacattatatatatatgcaagGTGGACCTAGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTGCGCCAGCAACTCACCATGCCCTCTGCTCTCGAT---Ggtgagtagtgtatcatgcacaaaggttccaaagcatttagatgataagac Alignment from GeneWise GTGGACCTGGTTGCCCAGGGCGACAGTATCTACGATATCATTGACCCTGCTGACCATCTCACTGTGCGCCAGCAGCTCACCATGCCCTCTGCTCTGGATG ttgtggataccctctgggtaccttcattatacattatatatatatgcaagGTGGACCTAGTGGCACAGGGTGACAGTATCTATGATATTATTGACCCTACTGACCATCTAACTGTGCGCCAGCAACTCACCATGCCCTCTGCTCTCGATGgtgagtagtgtatcatgcacaaaggttccaaagcatttagatgataagac #### Npm3_ID9577_3 --> 0 - 0 Original Alignment ---CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcgtgtcagccaaccatcacctgaggcactctgtgtacttttgttggcagTCGCTCTGCCTTACTGAGGCAGCCACAGACGAGTGTAATGTGGTAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCAGTTCCTGTTGCAAACCTCAGGTTGTCTTGTCAGCCGATGgtaaacttgagccattcattcccgttgaatcctagcaggattgataattt Alignment from CESAR ---CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcgtgtcagccaaccatcacctgaggcactctgtgtacttttgttggcagTCGCTCTGCCTTACTGAGGCAGCCACAGACGAGTGTAATGTGGTAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCAGTTCCTGTTGCAAACCTCAGGTTGTCTTGTCAGCCGATGgtaaacttgagccattcattcccgttgaatcctagcaggattgataattt Alignment from Spaln_aa2Genome CTGTGCCTT---ACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcgtgtcagccaaccatcacctgaggcactctgtgtacttttgttggcagTCGCTCTGCCTTACTGAGGCAGCCACAGACGAGTGTAATGTGGTAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCAGTTCCTGTTGCAAACCTCAGGTTGTCTTGTCAGCCGATGgtaaacttgagccattcattcccgttgaatcctagcaggattgataattt Alignment from Spaln_nt2Genome GCTGTGCCTTAC--CGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcgtgtcagccaaccatcacctgaggcactctgtgtacttttgttggcagTCGCTCTGCCTTACTGAGGCAGCCACAGACGAGTGTAATGTGGTAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCAGTTCCTGTTGCAAACCTCAGGTTGTCTTGTCAGCCGATGgtaaacttgagccattcattcccgttgaatcctagcaggattgataattt Alignment from Pairagon ---CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcgtgtcagccaaccatcacctgaggcactctgtgtacttttgttggcagTCGCTCTGCCTTACTGAGGCAGCCACAGACGAGTGTAATGTGGTAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCAGTTCCTGTTGCAAACCTCAGGTTGTCTTGTCAGCCGATGgtaaacttgagccattcattcccgttgaatcctagcaggattgataattt Alignment from Exonerate_protein2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcgtgtcagccaaccatcacctgaggcactctgtgtacttttgttggcagtcgCTCTGCCTTACTGAGGCAGCCACAGACGAGTGTAATGTGGTAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCAGTTCCTGTTGCAAACCTCAGGTTGTCTTGTCAGCCGATGgtaaacttgagccattcattcccgttgaatcctagcaggattgataattt Alignment from Exonerate_coding2genome CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcgtgtcagccaaccatcacctgaggcactctgtgtacttttgttggcagtcgCTCTGCCTTACTGAGGCAGCCACAGACGAGTGTAATGTGGTAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCAGTTCCTGTTGCAAACCTCAGGTTGTCTTGTCAGCCGATGgtaaacttgagccattcattcccgttgaatcctagcaggattgataattt Alignment from GeneWise ---CTGTGCCTTACCGAGGGGGCCACGGACGAGTGTAATGTGGTGGAAGTTGTGGCCCGGGATCACGACAATCAGGAGATTGCAGTTCCTGTGGCCAACCTCAGGTTGTCTTGCCAGCCCATG tcgtgtcagccaaccatcacctgaggcactctgtgtacttttgttggcagTCGCTCTGCCTTACTGAGGCAGCCACAGACGAGTGTAATGTGGTAGAAGTTGTGGCCCGGGATTATGATAATCAGGAAATTGCAGTTCCTGTTGCAAACCTCAGGTTGTCTTGTCAGCCGATGgtaaacttgagccattcattcccgttgaatcctagcaggattgataattt #### Npm3_ID9578_2 --> 2 - 0 Original Alignment gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ccccttcacatgtgtacctaggatcatccattcagcttttaccatcacaggg------CTCTCTGATCACACACGCTCCTTCACTTTCAAGGTTGAAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtaagagtcacagagggagttcgagatctggaacacctgtggtacctctc Alignment from CESAR gtTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG cactttccccttcacatgtgtacctatccattcagcttttaccatcacaggg------CTCTCTGATCACACACGCTCCTTCACTTTCAAGGTTGAAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtaagagtcacagagggagttcgagatctggaacacctgtggtacctctc Alignment from Spaln_aa2Genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ccccttcacatgtgtacctaggatcatccattcagcttttaccatcacagGG------CTCTCTGATCACACACGCTCCTTCACTTTCAAGGTTGAAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtaagagtcacagagggagttcgagatctggaacacctgtggtacctctc Alignment from Spaln_nt2Genome AGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ccccttcacatgtgtacctaggatcatccattcagcttttaccatcacagGGCTCTCTGATCACACACGCTCCTTCACTTTCAAGGTTGAAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtaagagtcacagagggagttcgagatctggaacacctgtggtacctctc Alignment from Pairagon GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ccccttcacatgtgtacctaggatcatccattcagcttttaccatcacagG------GCTCTCTGATCACACACGCTCCTTCACTTTCAAGGTTGAAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtaagagtcacagagggagttcgagatctggaacacctgtggtacctctc Alignment from Exonerate_protein2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ccccttcacatgtgtacctaggatcatccattcagcttttaccatcacagGG------CTCTCTGATCACACACGCTCCTTCACTTTCAAGGTTGAAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtaagagtcacagagggagttcgagatctggaacacctgtggtacctctc Alignment from Exonerate_coding2genome GTTGTGAGCTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ccccttcacatgtgtacctaggatcatccattcagcttttaccatcacagGG------CTCTCTGATCACACACGCTCCTTCACTTTCAAGGTTGAAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtaagagtcacagagggagttcgagatctggaacacctgtggtacctctc Alignment from GeneWise --CTCTCCGGCCACACCCGCTCCTTCACTTTCAAGGTTGAGGAGGAGGATGACACGGAGCACGTGCTGGCGTTGAACATG ccccttcacatgtgtacctaggatcatccattcagcttttaccatcacagGGCTCTCTGATCACACACGCTCCTTCACTTTCAAGGTTGAAGAGGAAGATGACACAGAGCAGGTGCTGGCATTGAACATGgtaagagtcacagagggagttcgagatctggaacacctgtggtacctctc #### Nt5c2_ID10037_16 --> 1 - 0 Original Alignment gCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacatagggaggtgtgttctcctagagcatagtccaactcttgaccccaggCACTTGGACAGCAGTAGCAATGAACACCCGGACATTAGTCCTATCCAGAGA---------gtaattagacggcagacgtggcatttggggagcaatattaggggtaagtt Alignment from CESAR gCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAG gacatagggaggtgtgttctcctagagcatagtccaactcttgaccccaggCACTTGGACAGCAGTAGCAATGAACACCCGGACATTAGTCCTATCCAGAGA---------gtaattagacggcagacgtggcatttggggagcaatattag Alignment from Spaln_aa2Genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGA gacatagggaggtgtgttctcctagagcatagtccaactcttgaccccagGCACTTGGACAGCAGTAGCAATGAACACCCGGACATTAGTCCTATCCAGAGAgtaattagacggcagacgtggcatttggggagcaatattaggggtaagtt Alignment from Spaln_nt2Genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAA--G gacatagggaggtgtgttctcctagagcatagtccaactcttgaccccagGCACTTGGACAGCAGTAGCAATGAACACCCGGACATTAGTCCTATCCAGAGAGTAATTAGACGgcagacgtggcatttggggagcaatattaggggtaagtt Alignment from Pairagon GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGA gacatagggaggtgtgttctcctagagcatagtccaactcttgaccccagGCACTTGGACAGCAGTAGCAATGAACACCCGGACATTAGTCCTATCCAGAGAgtaattagacggcagacgtggcatttggggagcaatattaggggtaagtt Alignment from Exonerate_protein2genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAGA gacatagggaggtgtgttctcctagagcatagtccaactcttgaccccagGCACTTGGACAGCAGTAGCAATGAACACCCGGACATTAGTCCTATCCAGAGAGTAATTAGACggcagacgtggcatttggggagcaatattaggggtaagtt Alignment from Exonerate_coding2genome GCACCTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGACGGATTAAGA gacatagggaggtgtgttctcctagagcatagtccaactcttgaccccagGCACTTGGACAGCAGTAGCAATGAACACCCGGACATTAGTCCTATCCAGAGAGTAATTAGACggcagacgtggcatttggggagcaatattaggggtaagtt Alignment from GeneWise ---------------------------CTGGACAGCAGTAGCAATGAGCGCCCGGACATTAGTTCCATCCAGAGA gacatagggaggtgtgttctcctagagCATAGTCCAACTCTTGACCCCAGGCACTTGGACAGCAGTAGCAATGAACACCCGGACATTAGTCCTATCCAGAGAgtaattagacggcagacgtggcatttggggagcaatattaggggtaagtt #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG tacaatgtggatatctactggggctccatctccttacggtgttcccacagg------TTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGgtatgtgaattgaccttccagctggctgttatcaagttcaggattactag Alignment from CESAR gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gtcctatacaatgtggatatctactccatctccttacggtgttcccacagg------TTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGgtatgtgaattgaccttccagctggctgttatcaagttcaggattactag Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG tacaatgtggatatctactggggctccatctccttacggtgttcccacagG------TTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGgtatgtgaattgaccttccagctggctgttatcaagttcaggattactag Alignment from Spaln_nt2Genome CTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG tacaatgtggatatctactggggctccatctccttacggtgttcccacagGTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGgtatgtgaattgaccttccagctggctgttatcaagttcaggattactag Alignment from Pairagon CTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG tacaatgtggatatctactggggctccatctccttacggtgttcccacagGTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGgtatgtgaattgaccttccagctggctgttatcaagttcaggattactag Alignment from Exonerate_protein2genome CTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG tacaatgtggatatctactggggctccatctccttacggtgttcccacagGTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGgtatgtgaattgaccttccagctggctgttatcaagttcaggattactag Alignment from Exonerate_coding2genome CTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG tacaatgtggatatctactggggctccatctccttacggtgttcccacagGTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGgtatgtgaattgaccttccagctggctgttatcaagttcaggattactag Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG tacaatgtggatatctactggggctccatctccttacggtgttcccacagG------TTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAAACACAGgtatgtgaattgaccttccagctggctgttatcaagttcaggattactag #### Nudt8_ID267_2 --> 1 - 0 Original Alignment tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG--------------------------------- taaactttataaacctaactgaggtccccaatgccatcttcttttggtagtTTCCCGGGTGGTAAGTGTGATCCTGATGACCGAGATGTAGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCTGGGGGGTCCTGCAGCCAGTGTATGACCGGAATGGTGGTCTGGGACACATGAACATCACATGTgtgagttatttacactctcatagcacgtaaccctagtgtccagataagca Alignment from CESAR tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaactttataaacctaactgaggtccccaatgccatcttcttttggtagtTTCCCGGGTGGTAAGTGTGATCCTGATGACCGAGATGTAGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCTGGGGGGTCCTGCAGCCAGTGTATGACCGGaatggtggtctgggacacatgaacatcacatgtgtgagttatttacactctcatagcacgtaaccctagtgtccagataagca Alignment from Spaln_aa2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG---- taaactttataaacctaactgaggtccccaatgccatcttcttttggtagTTTCCCGGGTGGTAAGTGTGATCCTGATGACCGAGATGTAGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCTGGGGGGTCCTGCAGCCAGTGTATGACCGGAATGgtggtctgggacacatgaacatcacatgtgtgagttatttacactctcatagcacgtaaccctagtgtccagataagca Alignment from Spaln_nt2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG---- taaactttataaacctaactgaggtccccaatgccatcttcttttggtagTTTCCCGGGTGGTAAGTGTGATCCTGATGACCGAGATGTAGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCTGGGGGGTCCTGCAGCCAGTGTATGACCGGAATGgtggtctgggacacatgaacatcacatgtgtgagttatttacactctcatagcacgtaaccctagtgtccagataagca Alignment from Pairagon TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG--------------------------------- taaactttataaacctaactgaggtccccaatgccatcttcttttggtagTTTCCCGGGTGGTAAGTGTGATCCTGATGACCGAGATGTAGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCTGGGGGGTCCTGCAGCCAGTGTATGACCGGAATGGTGGTCTGGGACACATGAACATCACATGTgtgagttatttacactctcatagcacgtaaccctagtgtccagataagca Alignment from Exonerate_protein2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaactttataaacctaactgaggtccccaatgccatcttcttttggtagTTTCCCGGGTGGTAAGTGTGATCCTGATGACCGAGATGTAGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCTGGGGGGTCCTGCAGCCAGTGTATGACCGGaatggtggtctgggacacatgaacatcacatgtgtgagttatttacactctcatagcacgtaaccctagtgtccagataagca Alignment from Exonerate_coding2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaactttataaacctaactgaggtccccaatgccatcttcttttggtagTTTCCCGGGTGGTAAGTGTGATCCTGATGACCGAGATGTAGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCTGGGGGGTCCTGCAGCCAGTGTATGACCGGaatggtggtctgggacacatgaacatcacatgtgtgagttatttacactctcatagcacgtaaccctagtgtccagataagca Alignment from GeneWise -TTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG--------------------------------- taaactttataaacctaactgaggtccccaatgccatcttcttttggtagTTTCCCGGGTGGTAAGTGTGATCCTGATGACCGAGATGTAGTAATACACACTGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCTGGGGGGTCCTGCAGCCAGTGTATGACCGGAATGGTGGTCTGGGACACATGAACATCACATGTgtgagttatttacactctcatagcacgtaaccctagtgtccagataagca #### Nudt8_ID268_3 --> 0 - 0 Original Alignment GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG aatgattgcccaaggtcacccagactgctctttcttcatttttccttcagGAAAAGGCAATCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTT------------------gtaagagatgaactttgagctataggtctcactggcagatgggctgccct Alignment from CESAR GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG aatgattgcccaaggtcacccagactgctctttcttcatttttccttcagGAAAAGGCAATCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTT------------------gtaagagatgaactttgagctataggtctcac Alignment from Spaln_aa2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTT aatgattgcccaaggtcacccagactgctctttcttcatttttccttcagGAAAAGGCAATCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTTgtaagagatgaactttgagctataggtctcactggcagatgggctgccct Alignment from Spaln_nt2Genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTT---AG-GCCCAACCTTGAGG---AG aatgattgcccaaggtcacccagactgctctttcttcatttttccttcagGAAAAGGCAATCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTTGTAAGAGATGAACTTTGAGCTATAGgtctcactggcagatgggctgccct Alignment from Pairagon GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTT aatgattgcccaaggtcacccagactgctctttcttcatttttccttcagGAAAAGGCAATCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTTgtaagagatgaactttgagctataggtctcactggcagatgggctgccct Alignment from Exonerate_protein2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTT---AGGCCCAACCTTGAGGAG aatgattgcccaaggtcacccagactgctctttcttcatttttccttcagGAAAAGGCAATCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTTGTAAGAGATGAACTTTGAGCTataggtctcactggcagatgggctgccct Alignment from Exonerate_coding2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTT---AGGCCCAACCTTGAGGAG aatgattgcccaaggtcacccagactgctctttcttcatttttccttcagGAAAAGGCAATCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTTGTAAGAGATGAACTTTGAGCTataggtctcactggcagatgggctgccct Alignment from GeneWise GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTT aatgattgcccaaggtcacccagactgctctttcttcatttttccttcagGAAAAGGCAATCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTACAGAGCCTTgtaagagatgaactttgagctataggtctcactggcagatgggctgccct #### Nxf1_ID2343_3 --> 1 - 0 Original Alignment cAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA aggttcctcctacctagtgcatgtggagtctcttgtctctcttcttatagcAATCCTTATATGAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCAAATCCATATTACAGTACGGAGAGATAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTTAAGATA---gtgaggcgcactaaggagaacaagtgatacagaaaatatgtcttgactca Alignment from CESAR cAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA aggttcctcctacctagtgcatgtggagtctcttgtctctcttcttatagcAATCCTTATATGAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCAAATCCATATTACAGTACGGAGAGATAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTTAAGATA---gtgaggcgcactaaggagaacaagtgatacagaaaatatgtcttgac Alignment from Spaln_aa2Genome CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATT aggttcctcctacctagtgcatgtggagtctcttgtctctcttcttatagCAATCCTTATATGAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCAAATCCATATTACAGTACGGAGAGATAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTTAAGATAgtgaggcgcactaaggagaacaagtgatacagaaaatatgtcttgactca Alignment from Spaln_nt2Genome CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATT aggttcctcctacctagtgcatgtggagtctcttgtctctcttcttatagCAATCCTTATATGAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCAAATCCATATTACAGTACGGAGAGATAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTTAAGATAgtgaggcgcactaaggagaacaagtgatacagaaaatatgtcttgactca Alignment from Pairagon CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA aggttcctcctacctagtgcatgtggagtctcttgtctctcttcttatagCAATCCTTATATGAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCAAATCCATATTACAGTACGGAGAGATAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTTAAGAT---Agtgaggcgcactaaggagaacaagtgatacagaaaatatgtcttgactca Alignment from Exonerate_protein2genome CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA aggttcctcctacctagtgcatgtggagtctcttgtctctcttcttatagCAATCCTTATATGAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCAAATCCATATTACAGTACGGAGAGATAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTTAAGATA---gtgaggcgcactaaggagaacaagtgatacagaaaatatgtcttgac Alignment from Exonerate_coding2genome CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA aggttcctcctacctagtgcatgtggagtctcttgtctctcttcttatagCAATCCTTATATGAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCAAATCCATATTACAGTACGGAGAGATAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTTAAGATA---gtgaggcgcactaaggagaacaagtgatacagaaaatatgtcttgac Alignment from GeneWise CAATCCCTATACCAACCGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGAGATCGAATTCATATTACTGTACGGAGAGACAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTCAAGATTACA aggttcctcctacctagtgcatgtggagtctcttgtctctcttcttatagCAATCCTTATATGAACTGGCCTAATCGTCGGGGAGATGGTTGGCATGATCGGGATCAAATCCATATTACAGTACGGAGAGATAGAGCTCCTGCAGAGAGAGGAGGGGCTGGCACCAGTCAAGATGGGACCACCAAGAACTGGTTTAAG---ATAgtgaggcgcactaaggagaacaagtgatacagaaaatatgtcttgactca #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG------ tgtgtaaggatgtggactacaaattgaagctttcttttccctttcaacagTTTCACTATGAAAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGCTCCACATTAAAAGGCGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGCCAAATgtgaggagacacggttaaaatggactagttgttactactggttattacat Alignment from CESAR TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG------ tgtgtaaggatgtggactacaaattgaagctttcttttccctttcaacagTTTCACTATGAAAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGCTCCACATTAAAAGGCGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGCCAAATgtgaggagacacggttaaaatggactagttgttactactggttattacat Alignment from Spaln_aa2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG------ tgtgtaaggatgtggactacaaattgaagctttcttttccctttcaacagTTTCACTATGAAAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGCTCCACATTAAAAGGCGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGCCAAATgtgaggagacacggttaaaatggactagttgttactactggttattacat Alignment from Spaln_nt2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG------ tgtgtaaggatgtggactacaaattgaagctttcttttccctttcaacagTTTCACTATGAAAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGCTCCACATTAAAAGGCGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGCCAAATgtgaggagacacggttaaaatggactagttgttactactggttattacat Alignment from Pairagon TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG------ tgtgtaaggatgtggactacaaattgaagctttcttttccctttcaacagTTTCACTATGAAAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGCTCCACATTAAAAGGCGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGCCAAATgtgaggagacacggttaaaatggactagttgttactactggttattacat Alignment from Exonerate_protein2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tgtgtaaggatgtggactacaaattgaagctttcttttccctttcaacagTTTCACTATGAAAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGCTCCACATTAAAAGGCGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGccaaatgtgaggagacacggttaaaatggactagttgttactactggttattacat Alignment from Exonerate_coding2genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tgtgtaaggatgtggactacaaattgaagctttcttttccctttcaacagTTTCACTATGAAAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGCTCCACATTAAAAGGCGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGccaaatgtgaggagacacggttaaaatggactagttgttactactggttattacat Alignment from GeneWise TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG------ tgtgtaaggatgtggactacaaattgaagctttcttttccctttcaacagTTTCACTATGAAAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGCTCCACATTAAAAGGCGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGCCAAATgtgaggagacacggttaaaatggactagttgttactactggttattacat #### Nxf1_ID2346_6 --> 0 - 0 Original Alignment ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG catatcccaagttagcaacttgtcttctttctggtctcctctggtcacag------------------------------CCCTACACCGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGgtaaggttgggtccagtcagaaggccctcaaccctcatcattgttagcta Alignment from CESAR ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacattgtcaccaattgtcttctttctggtctcctctggtcacag------------------------------CCCTACACCGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGgtaaggttgggtccagtcagaaggccctcaaccctcatcattgttagcta Alignment from Spaln_aa2Genome CCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG catatcccaagttagcaacttgtcttctttctggtctcctctggtcacagCCCTACACCGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGgtaaggttgggtccagtcagaaggccctcaaccctcatcattgttagcta Alignment from Spaln_nt2Genome ATATCTATCATCATCAATG---CTTCTGCTC-CA-CCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG catatcccaagttagCAACTTGTCTTCTTTCTGGTCTCCTCTGGTCACAGCCCTACACCGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGgtaaggttgggtccagtcagaaggccctcaaccctcatcattgttagcta Alignment from Pairagon ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG catatcccaagttagcaacttgtcttctttctggtctcctctggtcacag------------------------------CCCTACACCGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGgtaaggttgggtccagtcagaaggccctcaaccctcatcattgttagcta Alignment from Exonerate_protein2genome TCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG catatcccaagttagcaacttgtcttctttctgGTCTCCTCTGGTCACAGCCCTACACCGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGgtaaggttgggtccagtcagaaggccctcaaccctcatcattgttagcta Alignment from Exonerate_coding2genome TCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG catatcccaagttagcaacttgtcttctttctgGTCTCCTCTGGTCACAGCCCTACACCGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGgtaaggttgggtccagtcagaaggccctcaaccctcatcattgttagcta Alignment from GeneWise --------------------------------------GCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG CATATCCCAAGTTAGCAACTTGTCTTCTTTCTGGTCTCCTCTGGTCACAGCCCTACACCGTGCAGAATGAACTGAAGGCTGAACAAATAGAGCAGCTCAAGgtaaggttgggtccagtcagaaggccctcaaccctcatcattgttagcta #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment atTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------ ggtatgggcacaatctctgagactttccgttttctccaatatcaataaagatTTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCAAAGAGAACATTCCTGAGCCATCAgtaaccgttctttctttttttatttcaccattttaacttaattagctagt Alignment from CESAR atTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------ ggtatgggcacaatctctgagactttccgttttctccaatatcaataaagatTTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCAAAGAGAACATTCCTGAGCCATCAgtaaccgttctttctttttttatttcaccattttaacttaattagctagt Alignment from Spaln_aa2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------ ggtatgggcacaatctctgagactttccgttttctccaatatcaataaagATTTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCAAAGAGAACATTCCTGAGCCATCAgtaaccgttctttctttttttatttcaccattttaacttaattagctagt Alignment from Spaln_nt2Genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------ ggtatgggcacaatctctgagactttccgttttctccaatatcaataaagATTTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCAAAGAGAACATTCCTGAGCCATCAgtaaccgttctttctttttttatttcaccattttaacttaattagctagt Alignment from Pairagon ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------ ggtatgggcacaatctctgagactttccgttttctccaatatcaataaagATTTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCAAAGAGAACATTCCTGAGCCATCAgtaaccgttctttctttttttatttcaccattttaacttaattagctagt Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctgagactttccgttttctccaatatcaataaagATTTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCAAAGAGAACATTCCTGAGccatcagtaaccgttctttctttttttatttcaccattttaacttaattagctagt Alignment from Exonerate_coding2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctgagactttccgttttctccaatatcaataaagATTTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCAAAGAGAACATTCCTGAGccatcagtaaccgttctttctttttttatttcaccattttaacttaattagctagt Alignment from GeneWise ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG------ ggtatgggcacaatctctgagactttccgttttctccaatatcaataaagATTTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCAAAGAGAACATTCCTGAGCCATCAgtaaccgttctttctttttttatttcaccattttaacttaattagctagt #### Nxf1_ID2354_14 --> 1 - 2 Original Alignment gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTC---cg aatgactggactatgcatatttagtggtcaactgtcaccttttcctgcaggTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCATGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTGTCTTTaggtaggggcatatgtttgaccctatctggaacccgtacaacccccagaatc Alignment from CESAR gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTC---cg aatgactggactatgcatatttagtggtcaactgtcaccttttcctgcaggTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCATGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTGTCTTTaggtaggggcatatgtttgaccctatctggaacccgtacaacccccagaatc Alignment from Spaln_aa2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCGA-- aatgactggactatgcatatttagtggtcaactgtcaccttttcctgcagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCATGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTGTCTTTAGgtaggggcatatgtttgaccctatctggaacccgtacaacccccagaatc Alignment from Spaln_nt2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCC---G aatgactggactatgcatatttagtggtcaactgtcaccttttcctgcagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCATGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTGTCTTTAGgtaggggcatatgtttgaccctatctggaacccgtacaacccccagaatc Alignment from Pairagon GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCC---G aatgactggactatgcatatttagtggtcaactgtcaccttttcctgcagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCATGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTGTCTTTAGgtaggggcatatgtttgaccctatctggaacccgtacaacccccagaatc Alignment from Exonerate_protein2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTC---CG aatgactggactatgcatatttagtggtcaactgtcaccttttcctgcagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCATGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTGTCTTTAGgtaggggcatatgtttgaccctatctggaacccgtacaacccccagaatc Alignment from Exonerate_coding2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTC---CG aatgactggactatgcatatttagtggtcaactgtcaccttttcctgcagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCATGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTGTCTTTAGgtaggggcatatgtttgaccctatctggaacccgtacaacccccagaatc Alignment from GeneWise GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCGA-- aatgactggactatgcatatttagtggtcaactgtcaccttttcctgcagGTACTATGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCATGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTGTCTTTAGgtaggggcatatgtttgaccctatctggaacccgtacaacccccagaatc #### Nxf1_ID2356_16 --> 2 - 0 Original Alignment ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA--------- caaatctagttccaaagcctacatttggccacttactctatctgccccagccCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACATTTCTTGAGgtacccttctgttttatgaaacctagaggtggggtgaatattgagctcag Alignment from CESAR ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA--------- caaatctagttccaaagcctacatttggccacttactctatctgccccagccCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACATTTCTTGAGgtacccttctgttttatgaaacctagaggtggggtgaatattgagctcag Alignment from Spaln_aa2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA--------- caaatctagttccaaagcctacatttggccacttactctatctgccccagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACATTTCTTGAGgtacccttctgttttatgaaacctagaggtggggtgaatattgagctcag Alignment from Spaln_nt2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA--------- caaatctagttccaaagcctacatttggccacttactctatctgccccagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACATTTCTTGAGgtacccttctgttttatgaaacctagaggtggggtgaatattgagctcag Alignment from Pairagon CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA------------------------------------- caaatctagttccaaagcctacatttggccacttactctatctgccccagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACATTTCTTGAGGTACCCTTCTGTTTTATGAAACCTAGAGgtggggtgaatattgagctcag Alignment from Exonerate_protein2genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAA caaatctagttccaaagcctacatttggccacttactctatctgccccagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACATTTCTTGAGGTACCCTTCTGTTTTATGAAACCTAGAGGTGGGgtgaatattgagctcag Alignment from Exonerate_coding2genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAA caaatctagttccaaagcctacatttggccacttactctatctgccccagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACATTTCTTGAGGTACCCTTCTGTTTTATGAAACCTAGAGGTGGGgtgaatattgagctcag Alignment from GeneWise CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG caaatctagttccaaagcctacatttggccacttactctatctgccccagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGACATAAGTGCCCAAACATTTCTTGAGGTACCCTTCTGTTTT------ATGAAACCTAGAGgtggggtgaatattga #### Nxf1_ID2357_17 --> 0 - 1 Original Alignment AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAg gtaattctaagcctccatagctactaagaagtctctgtctttctttgcag------CTACTGTGTCTATCTCTAAATGAAGTCCTCAAGGAAtgtaagtaatgttagttctgaacctctgccattatcttagtgtatcttctc Alignment from CESAR AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAg gcacaagtaattctaagcctccataaagaagtctctgtctttctttgcag------CTACTGTGTCTATCTCTAAATGAAGTCCTCAAGGAAtgtaagtaatgttagttctgaacctctgccattatcttagtgtatcttctc Alignment from Spaln_aa2Genome AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG gtaattctaagcctccatagctactaagaagtctctgtctttctttgcag------CTACTGTGTCTATCTCTAAATGAAGTCCTCAAGGAATgtaagtaatgttagttctgaacctctgccattatcttagtgtatcttctc Alignment from Spaln_nt2Genome -TACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG gtaattctaagcctccatagctactaagaagtctctgtctttctttgcagCTACTGTGTCTATCTCTAAATGAAGTCCTCAAGGAATgtaagtaatgttagttctgaacctctgccattatcttagtgtatcttctc Alignment from Pairagon AGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG gtaattctaagcctccatagctactaagaagtctctgtctttctttgcag------CTACTGTGTCTATCTCTAAATGAAGTCCTCAAGGAATgtaagtaatgttagttctgaacctctgccattatcttagtgtatcttctc Alignment from Exonerate_protein2genome gtaattctaagcctccatagctactaagaagtctctgtctttctttgcagctactgtgtctatctctaaatgaagtcctcaaggaatgtaagtaatgttagttctgaacctctgccattatcttagtgtatcttctc Alignment from Exonerate_coding2genome gtaattctaagcctccatagctactaagaagtctctgtctttctttgcagctactgtgtctatctctaaatgaagtcctcaaggaatgtaagtaatgttagttctgaacctctgccattatcttagtgtatcttctc Alignment from GeneWise gtaattctaagcctccatagctactaagaagtctctgtctttctttgcagctactgtgtctatctctaaatgaagtcctcaaggaatgtaagtaatgttagttctgaacctctgccattatcttagtgtatcttctc #### Papss2_ID6709_5 --> 2 - 0 Original Alignment ggTTTACAGGCATCGATTCTGACTATGAGAAACCTGAAACTCCAGAGTGTGTGCTGAAGACCAACCTGTCTTCAGTAAGCGACTGTGTGCAACAGGTGGTGGAACTTTTGCAGGAGCAG gtattctcctagagacactgatctgtttggctcccattttctccctctaggg---ACAGGCACTGATTCTGACTATGAAAAACCTGAAACTCCAGAATGTGTGTTGAAGACCAACTTGTCTTCAGTGAGTGATTGTGTGCAACAGGTGGTGGAACTTTTGCAAGAGCAGgtaagagtgtggttcttgccagtgtgttctgggtggtgttctgggtgtgt Alignment from CESAR ggTTTACAGGCATCGATTCTGACTATGAGAAACCTGAAACTCCAGAGTGTGTGCTGAAGACCAACCTGTCTTCAGTAAGCGACTGTGTGCAACAGGTGGTGGAACTTTTGCAGGAGCAG atagtattctcctagagacactgattttggctcccattttctccctctaggg---ACAGGCACTGATTCTGACTATGAAAAACCTGAAACTCCAGAATGTGTGTTGAAGACCAACTTGTCTTCAGTGAGTGATTGTGTGCAACAGGTGGTGGAACTTTTGCAAGAGCAGgtaagagtgtggttcttgccagtgtgttctgggtggtgttctgggtgtgt Alignment from Spaln_aa2Genome GGTTTACAGGCATCGATTCTGACTATGAGAAACCTGAAACTCCAGAGTGTGTGCTGAAGACCAACCTGTCTTCAGTAAGCGACTGTGTGCAACAGGTGGTGGAACTTTTGCAGGAGCAG gtattctcctagagacactgatctgtttggctcccattttctccctctagGG---ACAGGCACTGATTCTGACTATGAAAAACCTGAAACTCCAGAATGTGTGTTGAAGACCAACTTGTCTTCAGTGAGTGATTGTGTGCAACAGGTGGTGGAACTTTTGCAAGAGCAGgtaagagtgtggttcttgccagtgtgttctgggtggtgttctgggtgtgt Alignment from Spaln_nt2Genome GGTTTACAGGCATCGATTCTGACTATGAGAAACCTGAAACTCCAGAGTGTGTGCTGAAGACCAACCTGTCTTCAGTAAGCGACTGTGTGCAACAGGTGGTGGAACTTTTGCAGGAGCAG gtattctcctagagacactgatctgtttggctcccattttctccctctagGG---ACAGGCACTGATTCTGACTATGAAAAACCTGAAACTCCAGAATGTGTGTTGAAGACCAACTTGTCTTCAGTGAGTGATTGTGTGCAACAGGTGGTGGAACTTTTGCAAGAGCAGgtaagagtgtggttcttgccagtgtgttctgggtggtgttctgggtgtgt Alignment from Pairagon GGTTTACAGGCATCGATTCTGACTATGAGAAACCTGAAACTCCAGAGTGTGTGCTGAAGACCAACCTGTCTTCAGTAAGCGACTGTGTGCAACAGGTGGTGGAACTTTTGCAGGAGCAG gtattctcctagagacactgatctgtttggctcccattttctccctctagGG---ACAGGCACTGATTCTGACTATGAAAAACCTGAAACTCCAGAATGTGTGTTGAAGACCAACTTGTCTTCAGTGAGTGATTGTGTGCAACAGGTGGTGGAACTTTTGCAAGAGCAGgtaagagtgtggttcttgccagtgtgttctgggtggtgttctgggtgtgt Alignment from Exonerate_protein2genome GGTTTACAGGCATCGATTCTGACTATGAGAAACCTGAAACTCCAGAGTGTGTGCTGAAGACCAACCTGTCTTCAGTAAGCGACTGTGTGCAACAGGTGGTGGAACTTTTGCAGGAGCAG gtattctcctagagacactgatctgtttggctcccattttctccctctagGG---ACAGGCACTGATTCTGACTATGAAAAACCTGAAACTCCAGAATGTGTGTTGAAGACCAACTTGTCTTCAGTGAGTGATTGTGTGCAACAGGTGGTGGAACTTTTGCAAGAGCAGgtaagagtgtggttcttgccagtgtgttctgggtggtgttctgggtgtgt Alignment from Exonerate_coding2genome GGTTTACAGGCATCGATTCTGACTATGAGAAACCTGAAACTCCAGAGTGTGTGCTGAAGACCAACCTGTCTTCAGTAAGCGACTGTGTGCAACAGGTGGTGGAACTTTTGCAGGAGCAG gtattctcctagagacactgatctgtttggctcccattttctccctctagGG---ACAGGCACTGATTCTGACTATGAAAAACCTGAAACTCCAGAATGTGTGTTGAAGACCAACTTGTCTTCAGTGAGTGATTGTGTGCAACAGGTGGTGGAACTTTTGCAAGAGCAGgtaagagtgtggttcttgccagtgtgttctgggtggtgttctgggtgtgt Alignment from GeneWise GGTTTACAGGCATCGATTCTGACTATGAGAAACCTGAAACTCCAGAGTGTGTGCTGAAGACCAACCTGTCTTCAGTAAGCGACTGTGTGCAACAGGTGGTGGAACTTTTGCAGGAGCAG gtattctcctagagacactgatctgtttggctcccattttctccctctagGG---ACAGGCACTGATTCTGACTATGAAAAACCTGAAACTCCAGAATGTGTGTTGAAGACCAACTTGTCTTCAGTGAGTGATTGTGTGCAACAGGTGGTGGAACTTTTGCAAGAGCAGgtaagagtgtggttcttgccagtgtgttctgggtggtgttctgggtgtgt #### Patl1_ID3333_18 --> 1 - 2 Original Alignment g---------------------------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca tggtcttcctcccttttccttctatttcgacatggtctctctcgcttcaggTCTCAATCCTCTTGGGACAGGAGTTCCACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGTGGCCCTTTCCAATCCAATCTCTATTCCTTCAAATCTAGTGTCTCTTTTTTCCCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGcagtgagttttgaacatatctcattaccttctcagacattgcaacacaggac Alignment from CESAR g------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGca ttaaccatctaaaactccccgtggtcttcctcccttttccttctattcaggtctcaatcctcttgggacaggAGTTCCACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGTGGCCCTTTCCAATCCAATCTCTATTCCTTCAAATCTAGTGTCTCTTTTTTCCCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGcagtgagttttgaacatatctcattaccttctcagacattgcaacacaggac Alignment from Spaln_aa2Genome GACAGAGGTGATGTTC------ATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tggtcttcctcccttttccttctatttcgacatggtctctctcgcttcaggtctcaatcctcttgggacagGAGTTCCACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGTGGCCCTTTCCAATCCAATCTCTATTCCTTCAAATCTAGTGTCTCTTTTTTCCCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGCAgtgagttttgaacatatctcattaccttctcagacattgcaacacaggac Alignment from Spaln_nt2Genome GACAGAGGTG------ATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tggtcttcctcccttttccttctatttcgacatggtctctctcgcttcaggtctcaatcctcttgggacagGAGTTCCACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGTGGCCCTTTCCAATCCAATCTCTATTCCTTCAAATCTAGTGTCTCTTTTTTCCCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGCAgtgagttttgaacatatctcattaccttctcagacattgcaacacaggac Alignment from Pairagon G---------------------------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCA tggtcttcctcccttttccttctatttcgacatggtctctctcgcttcagGTCTCAATCCTCTTGGGACAGGAGTTCCACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGTGGCCCTTTCCAATCCAATCTCTATTCCTTCAAATCTAGTGTCTCTTTTTTCCCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGCAgtgagttttgaacatatctcattaccttctcagacattgcaacacaggac Alignment from Exonerate_protein2genome G------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAGGGGATA tggtcttcctcccttttccttctatttcgacatggtctctctcgcttcaggtctcaatcctcttgggacagGAGTTCCACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGTGGCCCTTTCCAATCCAATCTCTATTCCTTCAAATCTAGTGTCTCTTTTTTCCCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGCAGTGAGTTTTGAACATAtctcattaccttctcagacattgcaacacaggac Alignment from Exonerate_coding2genome G------ACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAGGGGATA tggtcttcctcccttttccttctatttcgacatggtctctctcgcttcaggtctcaatcctcttgggacagGAGTTCCACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGTGGCCCTTTCCAATCCAATCTCTATTCCTTCAAATCTAGTGTCTCTTTTTTCCCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGCAGTGAGTTTTGAACATAtctcattaccttctcagacattgcaacacaggac Alignment from GeneWise -TGGACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAG tggtcttcctcccttttccttctatttcgacatggtctctctcgcttcaggtctcaatcctcttgggacaggagTTCCACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGTGGCCCTTTCCAATCCAATCTCTATTCCTTCAAATCTAGTGTCTCTTTTTTCCCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGCAGtgagttttgaacatatctcattaccttctcagacattgcaacacaggac #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gc------------------------AGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgtgtgagacatcacgccagctgccacgatgttgttttctgccatgccaggcCAACGGTTCCAGGACACTAGTCAGAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCCAAAGGGGGTACCCCCAAGTCTCAGgtctatagcctgtggaaaaaggcgcctctgggagctcttaggttggttca Alignment from CESAR gc------------------------AGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgtgtgagacatcacgccagctgccacgatgttgttttctgccatgccaggcCAACGGTTCCAGGACACTAGTCAGAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCCAAAGGGGGTACCCCCAAGTCTCAGgtctatagcctgtggaaaaaggcgcctctgggagctcttaggttggttca Alignment from Spaln_aa2Genome CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgtgtgagacatcacgccagctgccacgatgttgttttctgccatgccaggccaacggttccaggacactagtcagagCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCCAAAGGGGGTACCCCCAAGTCTCAGgtctatagcctgtggaaaaaggcgcctctgggagctcttaggttggttca Alignment from Spaln_nt2Genome GCAGCAGTGAG--CAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgtgtgagacatcacgccagctgccacgatgttgttttctgccatgccaggccaacggttccaggacactagTCAGAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCCAAAGGGGGTACCCCCAAGTCTCAGgtctatagcctgtggaaaaaggcgcctctgggagctcttaggttggttca Alignment from Pairagon CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgtgtgagacatcacgccagctgccacgatgttgttttctgccatgccaggccaacggttccaggacactagtcagagCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCCAAAGGGGGTACCCCCAAGTCTCAGgtctatagcctgtggaaaaaggcgcctctgggagctcttaggttggttca Alignment from Exonerate_protein2genome CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgtgtgagacatcacgccagctgccacgatgttgttttctgccatgccaggccaacggttccaggacactagtcagagCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCCAAAGGGGGTACCCCCAAGTCTCAGgtctatagcctgtggaaaaaggcgcctctgggagctcttaggttggttca Alignment from Exonerate_coding2genome CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgtgtgagacatcacgccagctgccacgatgttgttttctgccatgccaggccaacggttccaggacactagtcagagCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCCAAAGGGGGTACCCCCAAGTCTCAGgtctatagcctgtggaaaaaggcgcctctgggagctcttaggttggttca Alignment from GeneWise CAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgtgtgagacatcacgccagctgccacgatgttgttttctgccatgccaggccaacggttccaggacactagtcagagCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAATTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCGGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGACCCCGGCCCTCAAGACTTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCTGCTTCAGGGAGCCCCAAAGGGGGTACCCCCAAGTCTCAGgtctatagcctgtggaaaaaggcgcctctgggagctcttaggttggttca #### Pcnxl3_ID1160_33 --> 1 - 1 Original Alignment aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAg gcctcaccatatacccccagtctacttttctctctctctctccatcccaga---------GGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAACCATCCTCCCTTGGTGCATCCTACACCTGAAAATGCGGCAggtaagcgcaaagtttaagagaaattatgtgtgagacatcacgccagctgc Alignment from CESAR aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAg gcacacaatgcctcaccatatacccttttctctctctctctccatcccaga---------GGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAACCATCCTCCCTTGGTGCATCCTACACCTGAAAATGCGGCAggtaagcgcaaagtttaagagaaattatgtgtgagacatcacgccagctgc Alignment from Spaln_aa2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG gcctcaccatatacccccagtctacttttctctctctctctccatcccagA---------GGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAACCATCCTCCCTTGGTGCATCCTACACCTGAAAATGCGGCAGgtaagcgcaaagtttaagagaaattatgtgtgagacatcacgccagctgc Alignment from Spaln_nt2Genome GGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG gcctcaccatatacccccagtctacttttctctctctctctccatcccagAGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAACCATCCTCCCTTGGTGCATCCTACACCTGAAAATGCGGCAGgtaagcgcaaagtttaagagaaattatgtgtgagacatcacgccagctgc Alignment from Pairagon ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG gcctcaccatatacccccagtctacttttctctctctctctccatcccagA---------GGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAACCATCCTCCCTTGGTGCATCCTACACCTGAAAATGCGGCAGgtaagcgcaaagtttaagagaaattatgtgtgagacatcacgccagctgc Alignment from Exonerate_protein2genome ACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG gcctcaccatatacccccagtctacttttctctctctcTCTCCATCCCAGAGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAACCATCCTCCCTTGGTGCATCCTACACCTGAAAATGCGGCAGgtaagcgcaaagtttaagagaaattatgtgtgagacatcacgccagctgc Alignment from Exonerate_coding2genome ACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG gcctcaccatatacccccagtctacttttctctctctcTCTCCATCCCAGAGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAACCATCCTCCCTTGGTGCATCCTACACCTGAAAATGCGGCAGgtaagcgcaaagtttaagagaaattatgtgtgagacatcacgccagctgc Alignment from GeneWise ----------------AGACTTCAT---AAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG gcctcaccatatacccccagTCTACTTTTCTCTCTCTCTCTCCATCCCAGAGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTAGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAACCATCCTCCCTTGGTGCATCCTACACCTGAAAATGCGGCAGgtaagcgcaaagtttaagagaaattatgtgtgagacatcacgccagctgc #### Pcnxl3_ID1161_32 --> 0 - 2 Original Alignment GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag gcctatgttgctcctttgccctccctgatgtacactgctctcccctacagGTAAACTGGGAATGTGTGCGAGGGCTGTGGGCTGGGCAGCAGCAAGAGCTGGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGCAGTGTTCAGAATGCCAAGCAGGCACTCTGCAACAAGATCAATTCCTCCTGTGACCAGCCACTAGGATATCCGATCTTTGTGTCACCACTGACCACCTCTTTGCCTGGTACCCATCCCCAATTGCGGGCACTGTGGGGTGGTCCTGTCAGCTTGGGTGCC------------------------------aggtgagttctggctgtccccaaacttgggaatcgttttgttagctcgcatc Alignment from CESAR GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGag gcctatgttgctcctttgccctccctgatgtacactgctctcccctacagGTAAACTGGGAATGTGTGCGAGGGCTGTGGGCTGGGCAGCAGCAAGAGCTGGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGCAGTGTTCAGAATGCCAAGCAGGCACTCTGCAACAAGATCAATTCCTCCTGTGACCAGCCACTAGGATATCCGATCTTTGTGTCACCACTGACCACCTCTTTGCCTGGTACCCATCCCCAATTGCGGGCACTGTGGGGTGGTCCTGTCAGCTTGGGTGCC------------------------------aggtgagttctggctgtccccaaacttgggaatcgttttgttagctcgcatc Alignment from Spaln_aa2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCAT TGCCCGAT gcctatgttgctcctttgccctccctgatgtacactgctctcccctacagGTAAACTGGGAATGTGTGCGAGGGCTGTGGGCTGGGCAGCAGCAAGAGCTGGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGCAGTGTTCAGAATGCCAAGCAGGCACTCTGCAACAAGATCAATTCCTCCTGTGACCAGCCACTAGGATATCCGATCTTTGTGTCACCACTGACCACCTCTTTGCCTGGTACCCATCCCCAATTGCGGGCACTGTGGGGTGGTCCTGTCAGCTTGGGTGCCAGgtgagttctggctgtccccaaacttgggaatcgttttgttagCTCGCATC Alignment from Spaln_nt2Genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTG CCCGATGG gcctatgttgctcctttgccctccctgatgtacactgctctcccctacagGTAAACTGGGAATGTGTGCGAGGGCTGTGGGCTGGGCAGCAGCAAGAGCTGGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGCAGTGTTCAGAATGCCAAGCAGGCACTCTGCAACAAGATCAATTCCTCCTGTGACCAGCCACTAGGATATCCGATCTTTGTGTCACCACTGACCACCTCTTTGCCTGGTACCCATCCCCAATTGCGGGCACTGTGGGGTGGTCCTGTCAGCTTGGGTGCCA--GgtgagttctggctgtccccaaacttgggaatcgttttgttagCTCGCATC Alignment from Pairagon GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCATTGCCCGATGGCTCTTGCGCAGCTGGGAGAG gcctatgttgctcctttgccctccctgatgtacactgctctcccctacagGTAAACTGGGAATGTGTGCGAGGGCTGTGGGCTGGGCAGCAGCAAGAGCTGGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGCAGTGTTCAGAATGCCAAGCAGGCACTCTGCAACAAGATCAATTCCTCCTGTGACCAGCCACTAGGATATCCGATCTTTGTGTCACCACTGACCACCTCTTTGCCTGGTACCCATCCCCAATTGCGGGCACTGTGGGGTGGTCCTGTCAGCTTGGGTGCC------------------------------AGgtgagttctggctgtccccaaacttgggaatcgttttgttagctcgcatc Alignment from Exonerate_protein2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCAT gcctatgttgctcctttgccctccctgatgtacactgctctcccctacagGTAAACTGGGAATGTGTGCGAGGGCTGTGGGCTGGGCAGCAGCAAGAGCTGGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGCAGTGTTCAGAATGCCAAGCAGGCACTCTGCAACAAGATCAATTCCTCCTGTGACCAGCCACTAGGATATCCGATCTTTGTGTCACCACTGACCACCTCTTTGCCTGGTACCCATCCCCAATTGCGGGCACTGTGGGGTGGTCCTGTCAGCTTGGGTGCCAGgtgagttctggctgtccccaaacttgggaatcgttttgttagctcgcatc Alignment from Exonerate_coding2genome GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCCAT gcctatgttgctcctttgccctccctgatgtacactgctctcccctacagGTAAACTGGGAATGTGTGCGAGGGCTGTGGGCTGGGCAGCAGCAAGAGCTGGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGCAGTGTTCAGAATGCCAAGCAGGCACTCTGCAACAAGATCAATTCCTCCTGTGACCAGCCACTAGGATATCCGATCTTTGTGTCACCACTGACCACCTCTTTGCCTGGTACCCATCCCCAATTGCGGGCACTGTGGGGTGGTCCTGTCAGCTTGGGTGCCAGgtgagttctggctgtccccaaacttgggaatcgttttgttagctcgcatc Alignment from GeneWise GTAAACCGAGAGTGTGTGCGTGGGCTGTGGGCTGGGCAGCAACAAGAGCTGGTGTTCCTGCGCAACCGCAACCCTGAGCGCGGCAGCATCCAGAATGCCAAGCAGGCACTCCGCAACATGATCAATTCCTCCTGCGACCAGCCACTGGGATATCCCATCTACGTGTCACCTCTTACCACATCTCTGGCTGGTAGCCACCCCCAACTGCGGGCGCTGTGGGGTGGTCCTGTCAGCCTGGGTGCC-- gcctatgttgctcctttgccctccctgatgtacactgctctcccctacagGTAAACTGGGAATGTGTGCGAGGGCTGTGGGCTGGGCAGCAGCAAGAGCTGGTCTTTCTGTGCAATCGCAACCCTGAGCGGGGCAGTGTTCAGAATGCCAAGCAGGCACTCTGCAACAAGATCAATTCCTCCTGTGACCAGCCACTAGGATATCCGATCTTTGTGTCACCACTGACCACCTCTTTGCCTGGTACCCATCCCCAATTGCGGGCACTGTGGGGTGGTCCTGTCAGCTTGGGTGCCAGgtgagttctggctgtccccaaacttgggaatcgttttgttagctcgcatc #### Pcnxl3_ID1164_29 --> 0 - 2 Original Alignment CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCC------ag ttgtgctgcctggggtctttgggtgaacatgcacgtatcgaatcttttagCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCTGCCGGTGGCaggtgcttgcccacaggcagcagaagagcccaacaactcattagtacactta Alignment from CESAR CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCC------ag ttgtgctgcctggggtctttgggtgaacatgcacgtatcgaatcttttagCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCTGCCGGTGGCaggtgcttgcccacaggcagcagaagagcccaacaactcattagtacactta Alignment from Spaln_aa2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAGC----- ttgtgctgcctggggtctttgggtgaacatgcacgtatcgaatcttttagCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCTGCCGGTGGCAGgtgcttgcccacaggcagcagaagagcccaacaactcattagtacactta Alignment from Spaln_nt2Genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ttgtgctgcctggggtctttgggtgaacatgcacgtatcgaatcttttagCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCTGCC-Ggtggcaggtgcttgcccacaggcagcagaagagcccaacaactcattagtacactta Alignment from Pairagon CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGC----------------------------------------------------------- ttgtgctgcctggggtctttgggtgaacatgcacgtatcgaatcttttagCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCTGCCGGTGGCAGGTGCTTGCCCACAGGCAGCAGAAGAGCCCAACAACTCATTAGTACACTTA Alignment from Exonerate_protein2genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ttgtgctgcctggggtctttgggtgaacatgcacgtatcgaatcttttagCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCTGCCGGtggcaggtgcttgcccacaggcagcagaagagcccaacaactcattagtacactta Alignment from Exonerate_coding2genome CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCCAG ttgtgctgcctggggtctttgggtgaacatgcacgtatcgaatcttttagCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCTGCCGGtggcaggtgcttgcccacaggcagcagaagagcccaacaactcattagtacactta Alignment from GeneWise CCCGTGGACCAGGACTGGAATTCACCGTTGGTTACACTGTGCTTTGGCCTGTGTGTGCTGGGTCGCCGGGCCCTGGGAACAGCGTCACACAGTATGTCTGCC------AG ttgtgctgcctggggtctttgggtgaacatgcacgtatcgaatcttttagCCCGTGGACCAGGACTGGAATTCACCATTGGTTACATTGTGCTTTGGCTTGTGTGTGTTGGGTCGCCGGGCTCTGGGAACAGCATCACACAGCATGTCTGCCGGTGGCAGgtgcttgcccacaggcagcagaagagcccaacaactcattagtacactta #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment ac------TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ggctacagaggagaggagagggaggcaggcggcttatctttgttttgcagacGATCCTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaagtaagtctcagaggaggtaaggaataagcactgttgtcccagagacctta Alignment from CESAR ac------TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ggctacagaggagaggagagggaggcaggcggcttatctttgttttgcagacGATCCTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaagtaagtctcagaggaggtaaggaataagcactgttgtcccagagacctta Alignment from Spaln_aa2Genome AC------TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcaggcggcttatctttgttttgcagACGATCCTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctcagaggaggtaaggaataagcactgttgtcccagagacctta Alignment from Spaln_nt2Genome AC------TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcaggcggcttatctttgttttgcagACGATCCTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctcagaggaggtaaggaataagcactgttgtcccagagacctta Alignment from Pairagon AC------TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcaggcggcttatctttgttttgcagACGATCCTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctcagaggaggtaaggaataagcactgttgtcccagagacctta Alignment from Exonerate_protein2genome AC------TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcaggcggcttatctttgttttgcagACGATCCTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctcagaggaggtaaggaataagcactgttgtcccagagacctta Alignment from Exonerate_coding2genome AC------TCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcaggcggcttatctttgttttgcagACGATCCTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctcagaggaggtaaggaataagcactgttgtcccagagacctta Alignment from GeneWise -----CACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA ggctacagaggagaggagagggaggcaggcggcttatctttgttttgcagACGATCCTTCAGCTATGCTGTTCCTTCAGGCCCTGCTTTCAGGGCTTTTCTCTACCCCACTCAACCCCTTATTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtaagtctcagaggaggtaaggaataagcactgttgtcccagagacctta #### Pcnxl3_ID1180_13 --> 0 - 0 Original Alignment AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC--- atggaccctagtattattcactaccaactcttatgcttccccttgaacagAGTGTGCAACCTGATGCAGCATCGCCCATGCACCTAgtgggcacatgagggaaactttggccaatgggcactgggagggtctaagg Alignment from CESAR AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC--- atggaccctagtattattcactaccaactcttatgcttccccttgaacagAGTGTGCAACCTGATGCAGCATCGCCCATGCACCTAgtgggcacatgagggaaactttggccaatgggcactgggagggtctaagg Alignment from Spaln_aa2Genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC--- atggaccctagtattattcactaccaactcttatgcttccccttgaacagAGTGTGCAACCTGATGCAGCATCGCCCATGCACCTAgtgggcacatgagggaaactttggccaatgggcactgggagggtctaagg Alignment from Spaln_nt2Genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC--- atggaccctagtattattcactaccaactcttatgcttccccttgaacagAGTGTGCAACCTGATGCAGCATCGCCCATGCACCTAgtgggcacatgagggaaactttggccaatgggcactgggagggtctaagg Alignment from Pairagon AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC--- atggaccctagtattattcactaccaactcttatgcttccccttgaacagAGTGTGCAACCTGATGCAGCATCGCCCATGCACCTAgtgggcacatgagggaaactttggccaatgggcactgggagggtctaagg Alignment from Exonerate_protein2genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atggaccctagtattattcactaccaactcttatgcttccccttgaacagAGTGTGCAACCTGATGCAGCATCGCCCATGCACctagtgggcacatgagggaaactttggccaatgggcactgggagggtctaagg Alignment from Exonerate_coding2genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC atggaccctagtattattcactaccaactcttatgcttccccttgaacagAGTGTGCAACCTGATGCAGCATCGCCCATGCACctagtgggcacatgagggaaactttggccaatgggcactgggagggtctaagg Alignment from GeneWise AGCGTGCAGCCTGATGCAGCATCCCCAATGCACGGC atggaccctagtattattcactaccaactcttatgcttccccttgaacagAGTGTGCAACCTGATGCAGCATCGCCCATGCACCTAgtgggcacatgagggaaactttggccaatgggcactgggagggtctaagg #### Pcnxl3_ID1188_5 --> 2 - 1 Original Alignment ac------ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa atagatgaggccctggattcaacctacagagcctggcctctctgctttagacAAGGAAATCAAAGAGCTGGTACGGGAACAGAGTAGCAACAATGTAATTGTTACGTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAGGAGAAACTGagtttgtggcaaactggcaagcagatgtcttgtgataacaatcatcctgac Alignment from CESAR ac------ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa atagatgaggccctggattcaacctacagagcctggcctctctgctttagacAAGGAAATCAAAGAGCTGGTACGGGAACAGAGTAGCAACAATGTAATTGTTACGTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAGGAGAAACTGagtttgtggcaaactggcaagcagatgtcttgtgataacaatcatcctgac Alignment from Spaln_aa2Genome ACATCAAGGAG------CTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA atagatgaggccctggattcaacctacagagcctggcctctctgctttagACAAGGAAATCAAAGAGCTGGTACGGGAACAGAGTAGCAACAATGTAATTGTTACGTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAGGAGAAACTGAgtttgtggcaaactggcaagcagatgtcttgtgataacaatcatcctgac Alignment from Spaln_nt2Genome ACA------TCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA atagatgaggccctggattcaacctacagagcctggcctctctgctttagACAAGGAAATCAAAGAGCTGGTACGGGAACAGAGTAGCAACAATGTAATTGTTACGTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAGGAGAAACTGAgtttgtggcaaactggcaagcagatgtcttgtgataacaatcatcctgac Alignment from Pairagon AC------ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA atagatgaggccctggattcaacctacagagcctggcctctctgctttagACAAGGAAATCAAAGAGCTGGTACGGGAACAGAGTAGCAACAATGTAATTGTTACGTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAGGAGAAACTGAgtttgtggcaaactggcaagcagatgtcttgtgataacaatcatcctgac Alignment from Exonerate_protein2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA atagatgaggccctggattcaacctacagagcctggcctctctgctttagacaaggAAATCAAAGAGCTGGTACGGGAACAGAGTAGCAACAATGTAATTGTTACGTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAGGAGAAACTGAgtttgtggcaaactggcaagcagatgtcttgtgataacaatcatcctgac Alignment from Exonerate_coding2genome ACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA atagatgaggccctggattcaacctacagagcctggcctctctgctttagacaaggAAATCAAAGAGCTGGTACGGGAACAGAGTAGCAACAATGTAATTGTTACGTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAGGAGAAACTGAgtttgtggcaaactggcaagcagatgtcttgtgataacaatcatcctgac Alignment from GeneWise -----GACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA atagatgaggccctggattcaacctacagagcctggcctctctgctttagACAAGGAAATCAAAGAGCTGGTACGGGAACAGAGTAGCAACAATGTAATTGTTACGTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAGGAGAAACTGAgtttgtggcaaactggcaagcagatgtcttgtgataacaatcatcctgac #### Pcnxl3_ID1189_4 --> 0 - 1 Original Alignment ---------GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAg ttactctctcacctggttgttgatctgtatggttttcttgccttttgcagAAAACTCCAGAGTTGCTGTCCCGGATGGAGGATTCTGGGCCTCTCAGAggtgtgttgcttcagtttttggcacagtggtcattgcgtggtgcaggacaa Alignment from CESAR ---------GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAg ttactctctcacctggttgttgatctgtatggttttcttgccttttgcagAAAACTCCAGAGTTGCTGTCCCGGATGGAGGATTCTGGGCCTCTCAGAggtgtgttgcttcagtttttggcacagtggtcattgcgtggtgcaggacaa Alignment from Spaln_aa2Genome -------GAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttactctctcacctggttgttgatctgtatggttttcttgccttttgcagAAAACTCCAGAGTTGCTGTCCCGGATGGAGGATTCTGGGCCTCTCAGAGgtgtgttgcttcagtttttggcacagtggtcattgcgtggtgcaggacaa Alignment from Spaln_nt2Genome -----TTCGGAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttactctctcacctggttgttgatctgtatggttttcttgccttttgcagAAAACTCCAGAGTTGCTGTCCCGGATGGAGGATTCTGGGCCTCTCAGAGgtgtgttgcttcagtttttggcacagtggtcattgcgtggtgcaggacaa Alignment from Pairagon TTCGGAGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttactctctcacctggttgttgatctgtatggttttcttgccttttgcagaaaactccag-----AGTTGCTGTCCCGGATGGAGGATTCTGGGCCTCTCAGAGgtgtgttgcttcagtttttggcacagtggtcattgcgtggtgcaggacaa Alignment from Exonerate_protein2genome AGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttactctctcacctggttgttgatctgtatggttttcttgccttttgcagaaaactccagAGTTGCTGTCCCGGATGGAGGATTCTGGGCCTCTCAGAGgtgtgttgcttcagtttttggcacagtggtcattgcgtggtgcaggacaa Alignment from Exonerate_coding2genome AGTTGCTGCCCCGGATGGAGGATTCTGGGCCCCTCAGAG ttactctctcacctggttgttgatctgtatggttttcttgccttttgcagaaaactccagAGTTGCTGTCCCGGATGGAGGATTCTGGGCCTCTCAGAGgtgtgttgcttcagtttttggcacagtggtcattgcgtggtgcaggacaa Alignment from GeneWise ttactctctcacctggttgttgatctgtatggttttcttgccttttgcagaaaactccagagttgctgtcccggatggaggattctgggcctctcagaggtgtgttgcttcagtttttggcacagtggtcattgcgtggtgcaggacaa #### Pcnxl3_ID1190_3 --> 1 - 0 Original Alignment gGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ ttatatcatccaagaaaggaacataactgctgtgttctttctccctccaggGATCCCGGTGTAGAGATGACAGTGTTCCAGAAGGTTAGCTCCTCACCCCCTGTACACTGCAGTTCCCAGCACTCTGTAATAGGCTTTAACCATGTGTCAACAGAAgtaagtaggctccccttgttgctggcatcggagtcagccattggtgtggg Alignment from CESAR gGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ ttatatcatccaagaaaggaacataactgctgtgttctttctccctccaggGATCCCGGTGTAGAGATGACAGTGTTCCAGAAGGTTAGCTCCTCACCCCCTGTACACTGCAGTTCCCAGCACTCTGTAATAGGCTTTAACCATGTGTCAACAGAAgtaagtaggctccccttgttgctggcatcggagtcagccattggtgtggg Alignment from Spaln_aa2Genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ ttatatcatccaagaaaggaacataactgctgtgttctttctccctccagGGATCCCGGTGTAGAGATGACAGTGTTCCAGAAGGTTAGCTCCTCACCCCCTGTACACTGCAGTTCCCAGCACTCTGTAATAGGCTTTAACCATGTGTCAACAGAAgtaagtaggctccccttgttgctggcatcggagtcagccattggtgtggg Alignment from Spaln_nt2Genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ ttatatcatccaagaaaggaacataactgctgtgttctttctccctccagGGATCCCGGTGTAGAGATGACAGTGTTCCAGAAGGTTAGCTCCTCACCCCCTGTACACTGCAGTTCCCAGCACTCTGTAATAGGCTTTAACCATGTGTCAACAGAAgtaagtaggctccccttgttgctggcatcggagtcagccattggtgtggg Alignment from Pairagon GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ ttatatcatccaagaaaggaacataactgctgtgttctttctccctccagGGATCCCGGTGTAGAGATGACAGTGTTCCAGAAGGTTAGCTCCTCACCCCCTGTACACTGCAGTTCCCAGCACTCTGTAATAGGCTTTAACCATGTGTCAACAGAAgtaagtaggctccccttgttgctggcatcggagtcagccattggtgtggg Alignment from Exonerate_protein2genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ ttatatcatccaagaaaggaacataactgctgtgttctttctccctccagGGATCCCGGTGTAGAGATGACAGTGTTCCAGAAGGTTAGCTCCTCACCCCCTGTACACTGCAGTTCCCAGCACTCTGTAATAGGCTTTAACCATGTGTCAACAGAAgtaagtaggctccccttgttgctggcatcggagtcagccattggtgtggg Alignment from Exonerate_coding2genome GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG------ ttatatcatccaagaaaggaacataactgctgtgttctttctccctccagGGATCCCGGTGTAGAGATGACAGTGTTCCAGAAGGTTAGCTCCTCACCCCCTGTACACTGCAGTTCCCAGCACTCTGTAATAGGCTTTAACCATGTGTCAACAGAAgtaagtaggctccccttgttgctggcatcggagtcagccattggtgtggg Alignment from GeneWise GGACCCTGGTGTGGAGATGACGGTGTTCCGGAAGGTGAGCTCCACGCCCCCTGTACGCTGCAGTTCCCAGCATTCTGTGTTTGGCTTCAACCAGGTTTCG---GAG ttatatcatccaagaaaggaacataactgctgtgttctttctccctccagGGATCCCGGTGTAGAGATGACAGTGTTCCAGAAGGTTAGCTCCTCACCCCCTGTACACTGCAGTTCCCAGCACTCTGTAATAGGCTTTAACCATGTGTCAACAGAAgtaagtaggctccccttgttgctggcatcggagtcagccattggtgtggg #### Pcx_ID553_3 --> 2 - 0 Original Alignment gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG--- tagtgtttctctcaggaccaagatgtccattggtcttcattactctttaggtGAAATTGCAATCCGAGTGTTTCGTGCATGCACAGAACTGGGTATCCGCACAGTGGCTGTATACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCAGATGAAGCCTATCTTCTTGGCCGTGGCCTGGCACCTGTTCAAGCCTACCTGCACATTCCAGACATCATCAGGGTGGCCAAAAATgtgtgcatgccagggtttctgcaggccgggtaggatcttgttttacaccc Alignment from CESAR gtGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG--- tagtgtttctctcaggaccaagatgtccattggtcttcattactctttaggtGAAATTGCAATCCGAGTGTTTCGTGCATGCACAGAACTGGGTATCCGCACAGTGGCTGTATACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCAGATGAAGCCTATCTTCTTGGCCGTGGCCTGGCACCTGTTCAAGCCTACCTGCACATTCCAGACATCATCAGGGTGGCCAAAAATgtgtgcatgccagggtttctgcaggccgggtaggatcttgttttacaccc Alignment from Spaln_aa2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG--- tagtgtttctctcaggaccaagatgtccattggtcttcattactctttagGTGAAATTGCAATCCGAGTGTTTCGTGCATGCACAGAACTGGGTATCCGCACAGTGGCTGTATACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCAGATGAAGCCTATCTTCTTGGCCGTGGCCTGGCACCTGTTCAAGCCTACCTGCACATTCCAGACATCATCAGGGTGGCCAAAAATgtgtgcatgccagggtttctgcaggccgggtaggatcttgttttacaccc Alignment from Spaln_nt2Genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG--- tagtgtttctctcaggaccaagatgtccattggtcttcattactctttagGTGAAATTGCAATCCGAGTGTTTCGTGCATGCACAGAACTGGGTATCCGCACAGTGGCTGTATACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCAGATGAAGCCTATCTTCTTGGCCGTGGCCTGGCACCTGTTCAAGCCTACCTGCACATTCCAGACATCATCAGGGTGGCCAAAAATgtgtgcatgccagggtttctgcaggccgggtaggatcttgttttacaccc Alignment from Pairagon GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAA--------------------------------G tagtgtttctctcaggaccaagatgtccattggtcttcattactctttagGTGAAATTGCAATCCGAGTGTTTCGTGCATGCACAGAACTGGGTATCCGCACAGTGGCTGTATACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCAGATGAAGCCTATCTTCTTGGCCGTGGCCTGGCACCTGTTCAAGCCTACCTGCACATTCCAGACATCATCAGGGTGGCCAAAAATGTGTGCATGCCAGGGTTTCTGCAGGCCGGgtaggatcttgttttacaccc Alignment from Exonerate_protein2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG--- tagtgtttctctcaggaccaagatgtccattggtcttcattactctttagGTGAAATTGCAATCCGAGTGTTTCGTGCATGCACAGAACTGGGTATCCGCACAGTGGCTGTATACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCAGATGAAGCCTATCTTCTTGGCCGTGGCCTGGCACCTGTTCAAGCCTACCTGCACATTCCAGACATCATCAGGGTGGCCAAAAATgtgtgcatgccagggtttctgcaggccgggtaggatcttgttttacaccc Alignment from Exonerate_coding2genome GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAG--- tagtgtttctctcaggaccaagatgtccattggtcttcattactctttagGTGAAATTGCAATCCGAGTGTTTCGTGCATGCACAGAACTGGGTATCCGCACAGTGGCTGTATACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCAGATGAAGCCTATCTTCTTGGCCGTGGCCTGGCACCTGTTCAAGCCTACCTGCACATTCCAGACATCATCAGGGTGGCCAAAAATgtgtgcatgccagggtttctgcaggccgggtaggatcttgttttacaccc Alignment from GeneWise GTGAGATTGCCATCCGAGTGTTTCGTGCGTGCACAGAGCTGGGTATCCGCACAGTGGCTGTCTACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCTGATGAAGCCTACCTTATTGGCCGTGGCCTGGCACCTGTGCAGGCCTACCTGCACATTCCAGACATCATCAAGGTGGCCAAGGAA tagtgtttctctcaggaccaagatgtccattggtcttcattactctttagGTGAAATTGCAATCCGAGTGTTTCGTGCATGCACAGAACTGGGTATCCGCACAGTGGCTGTATACTCGGAGCAGGACACAGGGCAGATGCACAGGCAGAAAGCAGATGAAGCCTATCTTCTTGGCCGTGGCCTGGCACCTGTTCAAGCCTACCTGCACATTCCAGACATCATCAGGGTGGCCAAAAATgtgtgcatgccagggtttctgcaggccgggtaggatcttgttttacaccc #### Pcx_ID555_5 --> 2 - 0 Original Alignment gc---------GTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggccaggagagacagtccgggtgttctggtcctgtacctctaattcctaggtATGCAGGTCGTTCCAGTGGTTCCTGGAACAGACTCCCCCATCAGCTCCTTACATGAAGCACATGAGTTCTCCAACACCTATGATTCTCCAATTATTTTCAAGGCTGCCTATGGAGGTGGGGGCCGTGGTATGAGGGTTGTGCATAGCTATGAAgtgagaggaggagcacatatactacagtctctgtgataagccggcagcca Alignment from CESAR gc---------GTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggccaggagagacagtccgggtgttctggtcctgtacctctaattcctaggtATGCAGGTCGTTCCAGTGGTTCCTGGAACAGACTCCCCCATCAGCTCCTTACATGAAGCACATGAGTTCTCCAACACCTATGATTCTCCAATTATTTTCAAGGCTGCCTATGGAGGTGGGGGCCGTGGTATGAGGGTTGTGCATAGCTATGAAgtgagaggaggagcacatatactacagtctctgtgataagccggcagcca Alignment from Spaln_aa2Genome GCGTTCCAGTGGTC---------CCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggccaggagagacagtccgggtgttctggtcctgtacctctaattcctagGTATGCAGGTCGTTCCAGTGGTTCCTGGAACAGACTCCCCCATCAGCTCCTTACATGAAGCACATGAGTTCTCCAACACCTATGATTCTCCAATTATTTTCAAGGCTGCCTATGGAGGTGGGGGCCGTGGTATGAGGGTTGTGCATAGCTATGAAgtgagaggaggagcacatatactacagtctctgtgataagccggcagcca Alignment from Spaln_nt2Genome GCGTTCCAGT-GGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggccaggagagacagtccgggtgttctggtcctgtacctctaattcctaggtatgcagGTCGTTCCAGTGGTTCCTGGAACAGACTCCCCCATCAGCTCCTTACATGAAGCACATGAGTTCTCCAACACCTATGATTCTCCAATTATTTTCAAGGCTGCCTATGGAGGTGGGGGCCGTGGTATGAGGGTTGTGCATAGCTATGAAgtgagaggaggagcacatatactacagtctctgtgataagccggcagcca Alignment from Pairagon ------------------------------------------------------------CGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG GGCCAGGAGAGACAGTCCGGGTGTTCTGGTCCTGTACCTCTAATTCCTAGGTATGCAGGTCGTTCCAGTGGTTCCTGGAACAGACTCCCCCATCAGCTCCTTACATGAAGCACATGAGTTCTCCAACACCTATGATTCTCCAATTATTTTCAAGGCTGCCTATGGAGGTGGGGGCCGTGGTATGAGGGTTGTGCATAGCTATGAAgtgagaggaggagcacatatactacagtctctgtgataagccggcagcca Alignment from Exonerate_protein2genome GC-GTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggccaggagagacagtccgggtgttctggtcctgtacctctaattcctaggtatgcagGTCGTTCCAGTGGTTCCTGGAACAGACTCCCCCATCAGCTCCTTACATGAAGCACATGAGTTCTCCAACACCTATGATTCTCCAATTATTTTCAAGGCTGCCTATGGAGGTGGGGGCCGTGGTATGAGGGTTGTGCATAGCTATGAAgtgagaggaggagcacatatactacagtctctgtgataagccggcagcca Alignment from Exonerate_coding2genome GC-GTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggccaggagagacagtccgggtgttctggtcctgtacctctaattcctaggtatgcagGTCGTTCCAGTGGTTCCTGGAACAGACTCCCCCATCAGCTCCTTACATGAAGCACATGAGTTCTCCAACACCTATGATTCTCCAATTATTTTCAAGGCTGCCTATGGAGGTGGGGGCCGTGGTATGAGGGTTGTGCATAGCTATGAAgtgagaggaggagcacatatactacagtctctgtgataagccggcagcca Alignment from GeneWise --------GGCGTTCCAGTGGTCCCCGGCACGGACTCCCCCATCAGCTCCCTGCACGAGGCGCATGAGTTCTCCAACACCTACGGCTTCCCTATTATCTTCAAGGCCGCCTACGGAGGTGGGGGCCGCGGCATGCGGGTCGTGCATAGCTATGAG ggccaggagagacagtccgggtgttctggtcctgtacctctaattcctagGTATGCAGGTCGTTCCAGTGGTTCCTGGAACAGACTCCCCCATCAGCTCCTTACATGAAGCACATGAGTTCTCCAACACCTATGATTCTCCAATTATTTTCAAGGCTGCCTATGGAGGTGGGGGCCGTGGTATGAGGGTTGTGCATAGCTATGAAgtgagaggaggagcacatatactacagtctctgtgataagccggcagcca #### Pcx_ID564_13 --> 2 - 2 Original Alignment gcCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCaa tgagatggctttttttgtaagacaggcactgggcttttttgcattcacaggaCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCTCGAGCAGTGCGGAATCACCATGGGCTGCTGTTGATGGACACAACGTTCAGGGATGCTCACCAGTCATTACTGGCCACTCGAGTGCGCACACATGATCTCAAGAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAGTGCCCCTGGCGGCGGCTCCAGAAGCTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTATGCTGACAATGTTGTC---aagtacctcttctgagtctgctcagaccacggcagtggacgccaagggtttt Alignment from CESAR gcCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCaa tgagatggctttttttgtaagacaggcactgggcttttttgcattcacaggaCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCTCGAGCAGTGCGGAATCACCATGGGCTGCTGTTGATGGACACAACGTTCAGGGATGCTCACCAGTCATTACTGGCCACTCGAGTGCGCACACATGATCTCAAGAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAGTGCCCCTGGCGGCGGCTCCAGAAGCTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTATGCTGACAATGTTGTC---aagtacctcttctgagtctgctcagaccacggcagtggacgccaagggtttt Alignment from Spaln_aa2Genome GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTT tgagatggctttttttgtaagacaggcactgggcttttttgcattcacagGACCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCTCGAGCAGTGCGGAATCACCATGGGCTGCTGTTGATGGACACAACGTTCAGGGATGCTCACCAGTCATTACTGGCCACTCGAGTGCGCACACATGATCTCAAGAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAGTGCCCCTGGCGGCGGCTCCAGAAGCTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTATGCTGACAATGTTGTCAAgtacctcttctgagtctgctcagaccacggcagtggacgccaagggtttt Alignment from Spaln_nt2Genome GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgagatggctttttttgtaagacaggcactgggcttttttgcattcacagGACCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCTCGAGCAGTGCGGAATCACCATGGGCTGCTGTTGATGGACACAACGTTCAGGGATGCTCACCAGTCATTACTGGCCACTCGAGTGCGCACACATGATCTCAAGAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAGTGCCCCTGGCGGCGGCTCCAGAAGCTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTATGCTGACAATGTTG---TCAAgtacctcttctgagtctgctcagaccacggcagtggacgccaagggtttt Alignment from Pairagon GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgagatggctttttttgtaagacaggcactgggcttttttgcattcacagGACCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCTCGAGCAGTGCGGAATCACCATGGGCTGCTGTTGATGGACACAACGTTCAGGGATGCTCACCAGTCATTACTGGCCACTCGAGTGCGCACACATGATCTCAAGAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAGTGCCCCTGGCGGCGGCTCCAGAAGCTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTATGCTGACAATGTTG---TCAAgtacctcttctgagtctgctcagaccacggcagtggacgccaagggtttt Alignment from Exonerate_protein2genome GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgagatggctttttttgtaagacaggcactgggcttttttgcattcacagGACCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCTCGAGCAGTGCGGAATCACCATGGGCTGCTGTTGATGGACACAACGTTCAGGGATGCTCACCAGTCATTACTGGCCACTCGAGTGCGCACACATGATCTCAAGAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAGTGCCCCTGGCGGCGGCTCCAGAAGCTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTATGCTGACAATGTTGTC---AAgtacctcttctgagtctgctcagaccacggcagtggacgccaagggtttt Alignment from Exonerate_coding2genome GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTTCAA tgagatggctttttttgtaagacaggcactgggcttttttgcattcacagGACCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCTCGAGCAGTGCGGAATCACCATGGGCTGCTGTTGATGGACACAACGTTCAGGGATGCTCACCAGTCATTACTGGCCACTCGAGTGCGCACACATGATCTCAAGAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAGTGCCCCTGGCGGCGGCTCCAGAAGCTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTATGCTGACAATGTTGTC---AAgtacctcttctgagtctgctcagaccacggcagtggacgccaagggtttt Alignment from GeneWise GCCCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGGCCAGAGGGCTTTGCCCGAGCTGTGCGGAATCACCAGGGGCTGCTGTTGATGGACACAACCTTCCGGGATGCCCACCAGTCACTACTGGCCACTAGAGTGCGCACACATGATCTCAAAAAGATTGCGCCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGCGCCACGTTCGACGTTGCCATGCGCTTCCTGTACGAGTGCCCCTGGCGGCGGCTCCAGGAGCTCCGGGAGCTTATCCCGAACATCCCGTTCCAGATGCTACTGAGGGGGGCCAATGCTGTGGGCTACACCAACTACCCTGACAACGTGGTCTT tgagatggctttttttgtaagacaggcactgggcttttttgcattcacagGACCACCTCCAGCTGGTTTCAGGGACATCCTTCTGCGAGAAGGACCAGAGGGCTTTGCTCGAGCAGTGCGGAATCACCATGGGCTGCTGTTGATGGACACAACGTTCAGGGATGCTCACCAGTCATTACTGGCCACTCGAGTGCGCACACATGATCTCAAGAAGATTGCACCCTATGTTGCCCACAACTTCAACAAGCTCTTCAGCATGGAGAACTGGGGAGGTGCCACATTTGATGTTGCAATGCACTTCCTGTATGAGTGCCCCTGGCGGCGGCTCCAGAAGCTGCGGAAGCTAATCCCAAATATCCCATTCCAGATGCTACTCAGGGGGGCCAATGCTGTGGGCTATACCAACTATGCTGACAATGTTGTCAAgtacctcttctgagtctgctcagaccacggcagtggacgccaagggtttt #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACA------------g cacagtgtgtcactcttgatcataattcacatacatcccttcgggggcagGACATAGCAGGCCTGCTGAAGCCCGCTGCCTGCACGATGCTAGTCAGTTCCCTGTGGGACCGGTCCCCAGACCTTCCTCTGCACATCCATACCCATGATACTTCAGGGGCAGGTGTGGCAGCCACACTGGCCTGTGCACAAGCAGGGGCTGATGTTGTAGAAGTGGTTGCAGTAGACGCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTCTGACACACTGGAAATGTGGggtaaaccagaagaatgactcaacagctgaatgacttgaggcaaaactgca Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACA------------g cacagtgtgtcactcttgatcataattcacatacatcccttcgggggcagGACATAGCAGGCCTGCTGAAGCCCGCTGCCTGCACGATGCTAGTCAGTTCCCTGTGGGACCGGTCCCCAGACCTTCCTCTGCACATCCATACCCATGATACTTCAGGGGCAGGTGTGGCAGCCACACTGGCCTGTGCACAAGCAGGGGCTGATGTTGTAGAAGTGGTTGCAGTAGACGCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTCTGACACACTGGAAATGTGGggtaaaccagaagaatgactcaacagctgaatgacttgaggcaaaactgca Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACA------------G cacagtgtgtcactcttgatcataattcacatacatcccttcgggggcagGACATAGCAGGCCTGCTGAAGCCCGCTGCCTGCACGATGCTAGTCAGTTCCCTGTGGGACCGGTCCCCAGACCTTCCTCTGCACATCCATACCCATGATACTTCAGGGGCAGGTGTGGCAGCCACACTGGCCTGTGCACAAGCAGGGGCTGATGTTGTAGAAGTGGTTGCAGTAGACGCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTCTGACACACTGGAAATGTGGGgtaaaccagaagaatgactcaacagctgaatgacttgaggcaaaactgca Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAGAGG---- cacagtgtgtcactcttgatcataattcacatacatcccttcgggggcagGACATAGCAGGCCTGCTGAAGCCCGCTGCCTGCACGATGCTAGTCAGTTCCCTGTGGGACCGGTCCCCAGACCTTCCTCTGCACATCCATACCCATGATACTTCAGGGGCAGGTGTGGCAGCCACACTGGCCTGTGCACAAGCAGGGGCTGATGTTGTAGAAGTGGTTGCAGTAGACGCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTCTGACACACTGGAAATgtggggtaaaccagaagaatgactcaacagctgaatgacttgaggcaaaactgca Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAGAGG---- cacagtgtgtcactcttgatcataattcacatacatcccttcgggggcagGACATAGCAGGCCTGCTGAAGCCCGCTGCCTGCACGATGCTAGTCAGTTCCCTGTGGGACCGGTCCCCAGACCTTCCTCTGCACATCCATACCCATGATACTTCAGGGGCAGGTGTGGCAGCCACACTGGCCTGTGCACAAGCAGGGGCTGATGTTGTAGAAGTGGTTGCAGTAGACGCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTCTGACACACTGGAAATgtggggtaaaccagaagaatgactcaacagctgaatgacttgaggcaaaactgca Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG cacagtgtgtcactcttgatcataattcacatacatcccttcgggggcagGACATAGCAGGCCTGCTGAAGCCCGCTGCCTGCACGATGCTAGTCAGTTCCCTGTGGGACCGGTCCCCAGACCTTCCTCTGCACATCCATACCCATGATACTTCAGGGGCAGGTGTGGCAGCCACACTGGCCTGTGCACAAGCAGGGGCTGATGTTGTAGAAGTGGTTGCAGTAGACGCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTCTGACACACtggaaatgtggggtaaaccagaagaatgactcaacagctgaatgacttgaggcaaaactgca Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAG cacagtgtgtcactcttgatcataattcacatacatcccttcgggggcagGACATAGCAGGCCTGCTGAAGCCCGCTGCCTGCACGATGCTAGTCAGTTCCCTGTGGGACCGGTCCCCAGACCTTCCTCTGCACATCCATACCCATGATACTTCAGGGGCAGGTGTGGCAGCCACACTGGCCTGTGCACAAGCAGGGGCTGATGTTGTAGAAGTGGTTGCAGTAGACGCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTCTGACACACtggaaatgtggggtaaaccagaagaatgactcaacagctgaatgacttgaggcaaaactgca Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACA------------G cacagtgtgtcactcttgatcataattcacatacatcccttcgggggcagGACATAGCAGGCCTGCTGAAGCCCGCTGCCTGCACGATGCTAGTCAGTTCCCTGTGGGACCGGTCCCCAGACCTTCCTCTGCACATCCATACCCATGATACTTCAGGGGCAGGTGTGGCAGCCACACTGGCCTGTGCACAAGCAGGGGCTGATGTTGTAGAAGTGGTTGCAGTAGACGCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTCTGACACACTGGAAATGTGGGgtaaaccagaagaatgactcaacagctgaatgacttgaggcaaaactgca #### Pcx_ID567_16 --> 2 - 0 Original Alignment agGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttgaatacaaccaacttctctgtttcttcaactttttggttccatttcagca---------GAGCGTGTGTTTGACTATAGTGGGTACTGGGAAGGGGCTAGGGGACTGTATGCAGCTTTTGATTGCATGGCCACCATGAAATCTGGTAACTTGGATCTATACGAGAATGAGATTCCAGGGGGCCAGTACACCAATCTACATTTCCCGGCTCAT------AGACTTGGTTCAAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAAATGCTAGGGGACCTCATCAAAgtggggtggagtgacaccagatgctgggcgactacctctggtgcttgcct Alignment from CESAR agGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG tccaactatttgaatacaaccaactcttcaactttttggttccatttcagca---------GAGCGTGTGTTTGACTATAGTGGGTACTGGGAAGGGGCTAGGGGACTGTATGCAGCTTTTGATTGCATGGCCACCATGAAATCTGGTAACTTGGATCTATACGAGAATGAGATTCCAGGGGGCCAGTACACCAATCTACATTTCCCGGCTCATAGA------CTTGGTTCAAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAAATGCTAGGGGACCTCATCAAAgtggggtggagtgacaccagatgctgggcgactacctctggtgcttgcct Alignment from Spaln_aa2Genome AGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttgaatacaaccaacttctctgtttcttcaactttttggttccatttcagcagAGCGTGTGTTTGACTATAGTGGGTACTGGGAAGGGGCTAGGGGACTGTATGCAGCTTTTGATTGCATGGCCACCATGAAATCTGGTAACTTGGATCTATACGAGAATGAGATTCCAGGGGGCCAGTACACCAATCTACATTTCCCGGCTCAT------AGACTTGGTTCAAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAAATGCTAGGGGACCTCATCAAAgtggggtggagtgacaccagatgctgggcgactacctctggtgcttgcct Alignment from Spaln_nt2Genome AGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttgaatacaaccaacttctctgtttcttcaactttttggttccatttcagcagAGCGTGTGTTTGACTATAGTGGGTACTGGGAAGGGGCTAGGGGACTGTATGCAGCTTTTGATTGCATGGCCACCATGAAATCTGGTAACTTGGATCTATACGAGAATGAGATTCCAGGGGGCCAGTACACCAATCTACATTTCCCGGCTCATA------GACTTGGTTCAAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAAATGCTAGGGGACCTCATCAAAgtggggtggagtgacaccagatgctgggcgactacctctggtgcttgcct Alignment from Pairagon AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttgaatacaaccaacttctctgtttcttcaactttttggttccatttcagcag------------AGCGTGTGTTTGACTATAGTGGGTACTGGGAAGGGGCTAGGGGACTGTATGCAGCTTTTGATTGCATGGCCACCATGAAATCTGGTAACTTGGATCTATACGAGAATGAGATTCCAGGGGGCCAGTACACCAATCTACATTTCCCGGCTCATA------GACTTGGTTCAAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAAATGCTAGGGGACCTCATCAAAgtggggtggagtgacaccagatgctgggcgactacctctggtgcttgcct Alignment from Exonerate_protein2genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttgaatacaaccaacttctctgtttcttcaactttttggttCCATTTCAGCAGAGCGTGTGTTTGACTATAGTGGGTACTGGGAAGGGGCTAGGGGACTGTATGCAGCTTTTGATTGCATGGCCACCATGAAATCTGGTAACTTGGATCTATACGAGAATGAGATTCCAGGGGGCCAGTACACCAATCTACATTTCCCGGCTCATAGA------CTTGGTTCAAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAAATGCTAGGGGACCTCATCAAAgtggggtggagtgacaccagatgctgggcgactacctctggtgcttgcct Alignment from Exonerate_coding2genome AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttgaatacaaccaacttctctgtttcttcaactttttggttCCATTTCAGCAGAGCGTGTGTTTGACTATAGTGGGTACTGGGAAGGGGCTAGGGGACTGTATGCAGCTTTTGATTGCATGGCCACCATGAAATCTGGTAACTTGGATCTATACGAGAATGAGATTCCAGGGGGCCAGTACACCAATCTACATTTCCCGGCTCATAGA------CTTGGTTCAAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAAATGCTAGGGGACCTCATCAAAgtggggtggagtgacaccagatgctgggcgactacctctggtgcttgcct Alignment from GeneWise AGGTACCCCTGGAGCGTGTGTTTGACTACAGTGAGTACTGGGAAGGGGCTCGGGGACTGTACGCAGCCTTCGATTGCACGGCTACCATGAAGTCTGGCAACTCCGACGTGTATGAGAATGAGATTCCAGGGGGCCAGTACACCAACCTGCACTTCCAGGCCCATAGCATGGGGCTTGGCTCCAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAGATGCTGGGGGACCTCATCAAG ttgaatacaaccaacttctctgtttcttcaactttttggttccatttcagCA---------GAGCGTGTGTTTGACTATAGTGGGTACTGGGAAGGGGCTAGGGGACTGTATGCAGCTTTTGATTGCATGGCCACCATGAAATCTGGTAACTTGGATCTATACGAGAATGAGATTCCAGGGGGCCAGTACACCAATCTACATTTCCCGGCTCATAGA------CTTGGTTCAAAGTTCAAGGAGGTCAAGAAGGCCTATGTGGAGGCTAACCAAATGCTAGGGGACCTCATCAAAgtggggtggagtgacaccagatgctgggcgactacctctggtgcttgcct #### Pcx_ID568_17 --> 0 - 0 Original Alignment GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tggtgcttgcctggcatccttaccttgttaaaagactccttttctcacag------TCATCCTCCAAGATTGTGGGAGACCTGGCTCAGTTCATGGTACAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTTTCCTTCCCCTGCTCTGTGGTGGAGTTCCTGCAGGGCTATATTGGCATCCCACATGGAGGCTTCCCTAAGCCATTCCATTCTAAAgtgagtcaggtgcatcatggtgggaccggggcttacatgttctctttgac Alignment from CESAR GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacctctggtgcttgcctggcatcctgttaaaagactccttttctcacag------TCATCCTCCAAGATTGTGGGAGACCTGGCTCAGTTCATGGTACAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTTTCCTTCCCCTGCTCTGTGGTGGAGTTCCTGCAGGGCTATATTGGCATCCCACATGGAGGCTTCCCTAAGCCATTCCATTCTAAAgtgagtcaggtgcatcatggtgggaccggggcttatttctccatcccctg Alignment from Spaln_aa2Genome ACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tggtgcttgcctggcatccttaccttgttaaaagactccttttctcacagTCATCCTCCAAGATTGTG---GGAGACCTGGCTCAGTTCATGGTACAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTTTCCTTCCCCTGCTCTGTGGTGGAGTTCCTGCAGGGCTATATTGGCATCCCACATGGAGGCTTCCCTAAGCCATTCCATTCTAAAgtgagtcaggtgcatcatggtgggaccggggcttacatgttctctttgac Alignment from Spaln_nt2Genome CCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tggtgcttgcctggcatccttaccttgttaaaagactccttttctcacagTCATCCTCCAAGATTGTGGGAGACCTGGCTCAGTTCATGGTACAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTTTCCTTCCCCTGCTCTGTGGTGGAGTTCCTGCAGGGCTATATTGGCATCCCACATGGAGGCTTCCCTAAGCCATTCCATTCTAAAgtgagtcaggtgcatcatggtgggaccggggcttacatgttctctttgac Alignment from Pairagon CCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tggtgcttgcctggcatccttaccttgttaaaagactccttttctcacagTCATCCTCCAAGATTGTGGGAGACCTGGCTCAGTTCATGGTACAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTTTCCTTCCCCTGCTCTGTGGTGGAGTTCCTGCAGGGCTATATTGGCATCCCACATGGAGGCTTCCCTAAGCCATTCCATTCTAAAgtgagtcaggtgcatcatggtgggaccggggcttacatgttctctttgac Alignment from Exonerate_protein2genome CACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tggtgcttgcctggcatccttaccttgttaaaagactccttttctcacAGTCATCCTCCAAGATTGTGGGAGACCTGGCTCAGTTCATGGTACAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTTTCCTTCCCCTGCTCTGTGGTGGAGTTCCTGCAGGGCTATATTGGCATCCCACATGGAGGCTTCCCTAAGCCATTCCATTCTAAAgtgagtcaggtgcatcatggtgggaccggggcttacatgttctctttgac Alignment from Exonerate_coding2genome CACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tggtgcttgcctggcatccttaccttgttaaaagactccttttctcacAGTCATCCTCCAAGATTGTGGGAGACCTGGCTCAGTTCATGGTACAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTTTCCTTCCCCTGCTCTGTGGTGGAGTTCCTGCAGGGCTATATTGGCATCCCACATGGAGGCTTCCCTAAGCCATTCCATTCTAAAgtgagtcaggtgcatcatggtgggaccggggcttacatgttctctttgac Alignment from GeneWise GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG-------------------------------------------------- tggtgcttgcctggcatccttaccttgttaaaagactccttttctcacagTCA------TCCTCCAAGATTGTGGGAGACCTGGCTCAGTTCATGGTACAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTTTCCTTCCCCTGCTCTGTGGTGGAGTTCCTGCAGGGCTATATTGGCATCCCACATGGAGGCTTCCCTAAGCCATTCCATTCTAAAGTGAGTCAGGTGCATCATGGTGGGACCGGGGCTTACATGTTCTCTTTGAC #### Pcx_ID569_18 --> 0 - 0 Original Alignment GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG atggtgggaccggggcttatttctccatctgcctgccccgcctaccctag---------GACCTGCCAAGAATAGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTGAACCTGAAGGAACTGGAGAAGGACCTGATTGATAGACACGGGGAAGATGTGTCACAAGAGGATGTCCTCTCTGCAGCCATGTACCCATATGTCTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTGGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAATTTGAGgtcagaggctcctgtgtttgtgtctattcatccccagggcctctagtaat Alignment from CESAR GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG aggtgcatcatggtgggaccggggccatctgcctgccccgcctaccctag---------GACCTGCCAAGAATAGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTGAACCTGAAGGAACTGGAGAAGGACCTGATTGATAGACACGGGGAAGATGTGTCACAAGAGGATGTCCTCTCTGCAGCCATGTACCCATATGTCTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTGGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAATTTGAGgtcagaggctcctgtgtttgtgtctattcatccccagggcctctagtaat Alignment from Spaln_aa2Genome GTGCTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG atggtgggaccggggcttatttctccatctgcctgccccgcctaccctag---------GACCTGCCAAGAATAGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTGAACCTGAAGGAACTGGAGAAGGACCTGATTGATAGACACGGGGAAGATGTGTCACAAGAGGATGTCCTCTCTGCAGCCATGTACCCATATGTCTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTGGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAATTTGAGgtcagaggctcctgtgtttgtgtctattcatccccagggcctctagtaat Alignment from Spaln_nt2Genome A-G GACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG ATGgtgggaccggggcttatttctccatctgcctgccccgcctaccctagGACCTGCCAAGAATAGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTGAACCTGAAGGAACTGGAGAAGGACCTGATTGATAGACACGGGGAAGATGTGTCACAAGAGGATGTCCTCTCTGCAGCCATGTACCCATATGTCTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTGGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAATTTGAGgtcagaggctcctgtgtttgtgtctattcatccccagggcctctagtaat Alignment from Pairagon --------------------------------------------CTAAAGGACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG ATGGTGGGACCGGGGCTTATTTCTCCATCTGCCTGCCCCGCCTACCCTAGGACCTGCCAAGAATAGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTGAACCTGAAGGAACTGGAGAAGGACCTGATTGATAGACACGGGGAAGATGTGTCACAAGAGGATGTCCTCTCTGCAGCCATGTACCCATATGTCTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTGGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAATTTGAGgtcagaggctcctgtgtttgtgtctattcatccccagggcctctagtaat Alignment from Exonerate_protein2genome AGG ACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG ATGgtgggaccggggcttatttctccatctgcctgccccgcctaccctaggACCTGCCAAGAATAGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTGAACCTGAAGGAACTGGAGAAGGACCTGATTGATAGACACGGGGAAGATGTGTCACAAGAGGATGTCCTCTCTGCAGCCATGTACCCATATGTCTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTGGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAATTTGAGgtcagaggctcctgtgtttgtgtctattcatccccagggcctctagtaat Alignment from Exonerate_coding2genome AGG ACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG ATGgtgggaccggggcttatttctccatctgcctgccccgcctaccctaggACCTGCCAAGAATAGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTGAACCTGAAGGAACTGGAGAAGGACCTGATTGATAGACACGGGGAAGATGTGTCACAAGAGGATGTCCTCTCTGCAGCCATGTACCCATATGTCTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTGGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAATTTGAGgtcagaggctcctgtgtttgtgtctattcatccccagggcctctagtaat Alignment from GeneWise GACCTGCCAAGAATAGAGGGGCGGCCTGGAGCCTCCCTCCCTCCCCTGAACCTGAAGGAGCTGGAGAAGGACCTGATTGATAGGCATGGGGAGGAGGTGACCCCAGAGGACGTCCTCTCTGCAGCCATGTACCCTGATGTCTTTGCTCAATTCAAAGACTTCACGGCTACCTTCGGCCCCCTGGATAGCCTTAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAGTTTGAG atggtgggaccggggcttatttctccatctgcctgccccgcctaccctagGACCTGCCAAGAATAGAAGGGCGGCCTGGAGCCTCCTTACCTCCCCTGAACCTGAAGGAACTGGAGAAGGACCTGATTGATAGACACGGGGAAGATGTGTCACAAGAGGATGTCCTCTCTGCAGCCATGTACCCATATGTCTTTACTCAATTCAAAGACTTCACAGCTACTTTCAGCCCCCTGGATAGCCTAAATACTCGTCTCTTTCTTCAAGGACCCAAAATTGCAGAGGAATTTGAGgtcagaggctcctgtgtttgtgtctattcatccccagggcctctagtaat #### Pcx_ID570_19 --> 0 - 0 Original Alignment ---------GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ggcctgtcaccaagacttaatctgccccctggctagaacttttctttcagATCAATGAAGTTGAGCTGGAGCGAGGCAAGACGCTGCACATTAAAGCTTTGGCCATAAGTGACCTGAACCGCACTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGGCCATGAAGgtgtggttgaacctgatccagtcaggtagtagcagtgacttgataggttg Alignment from CESAR ---------GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ggcctgtcaccaagacttaatctgccccctggctagaacttttctttcagATCAATGAAGTTGAGCTGGAGCGAGGCAAGACGCTGCACATTAAAGCTTTGGCCATAAGTGACCTGAACCGCACTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGGCCATGAAGgtgtggttgaacctgatccagtcaggtagtagcagtgacttgataggttg Alignment from Spaln_aa2Genome GAGGTTGAGCTGGAACGG------GGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ggcctgtcaccaagacttaatctgccccctggctagaacttttctttcagATCAATGAAGTTGAGCTGGAGCGAGGCAAGACGCTGCACATTAAAGCTTTGGCCATAAGTGACCTGAACCGCACTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGGCCATGAAGgtgtggttgaacctgatccagtcaggtagtagcagtgacttgataggttg Alignment from Spaln_nt2Genome GTTGAGCTGGA---------ACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ggcctgtcaccaagacttaatctgccccctggctagaacttttctttcagATCAATGAAGTTGAGCTGGAGCGAGGCAAGACGCTGCACATTAAAGCTTTGGCCATAAGTGACCTGAACCGCACTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGGCCATGAAGgtgtggttgaacctgatccagtcaggtagtagcagtgacttgataggttg Alignment from Pairagon ---------GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ggcctgtcaccaagacttaatctgccccctggctagaacttttctttcagATCAATGAAGTTGAGCTGGAGCGAGGCAAGACGCTGCACATTAAAGCTTTGGCCATAAGTGACCTGAACCGCACTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGGCCATGAAGgtgtggttgaacctgatccagtcaggtagtagcagtgacttgataggttg Alignment from Exonerate_protein2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ggcctgtcaccaagacttaatctgccccctggctagaacttttctttcagatcaatgaaGTTGAGCTGGAGCGAGGCAAGACGCTGCACATTAAAGCTTTGGCCATAAGTGACCTGAACCGCACTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGGCCATGAAGgtgtggttgaacctgatccagtcaggtagtagcagtgacttgataggttg Alignment from Exonerate_coding2genome GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ggcctgtcaccaagacttaatctgccccctggctagaacttttctttcagatcaatgaaGTTGAGCTGGAGCGAGGCAAGACGCTGCACATTAAAGCTTTGGCCATAAGTGACCTGAACCGCACTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGGCCATGAAGgtgtggttgaacctgatccagtcaggtagtagcagtgacttgataggttg Alignment from GeneWise ---------GTTGAGCTGGAACGGGGCAAGACCCTGCACATCAAAGCCCTGGCTGTAAGCGACCTGAACCGTGCTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTCTGGTTAAAGACACCCAGGCCATGAAG ggcctgtcaccaagacttaatctgccccctggctagaacttttctttcagATCAATGAAGTTGAGCTGGAGCGAGGCAAGACGCTGCACATTAAAGCTTTGGCCATAAGTGACCTGAACCGCACTGGCCAGAGGCAGGTGTTCTTTGAACTCAATGGGCAGCTTCGATCCATTTTAGTCAAAGACACCCAGGCCATGAAGgtgtggttgaacctgatccagtcaggtagtagcagtgacttgataggttg #### Pdcd11_ID10119_13 --> 0 - 0 Original Alignment GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG aggcctactgccacaaggaggtagcagcatccctgctgtttttaccttag------AAGGTGGCTGTGCTAAGCTGTGAGCCTTCCAAGGAAAGGATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACGGCCGAAAGATCCAGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCTGTGCGCATTGGGCAGgtaagtaggcaatgacctcatctaatggtgacagtgtttggagaggaagg Alignment from CESAR GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG tcctgaaggcctactgccacaaggaagcatccctgctgtttttaccttag------AAGGTGGCTGTGCTAAGCTGTGAGCCTTCCAAGGAAAGGATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACGGCCGAAAGATCCAGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCTGTGCGCATTGGGCAGgtaagtaggcaatgacctcatctaatggtgacagtgtttggagaggaagg Alignment from Spaln_aa2Genome AAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG aggcctactgccacaaggaggtagcagcatccctgctgtttttaccttagAAGGTGGCTGTGCTAAGCTGTGAGCCTTCCAAGGAAAGGATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACGGCCGAAAGATCCAGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCTGTGCGCATTGGGCAGgtaagtaggcaatgacctcatctaatggtgacagtgtttggagaggaagg Alignment from Spaln_nt2Genome AAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG aggcctactgccacaaggaggtagcagcatccctgctgtttttaccttagAAGGTGGCTGTGCTAAGCTGTGAGCCTTCCAAGGAAAGGATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACGGCCGAAAGATCCAGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCTGTGCGCATTGGGCAGgtaagtaggcaatgacctcatctaatggtgacagtgtttggagaggaagg Alignment from Pairagon GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG aggcctactgccacaaggaggtagcagcatccctgctgtttttaccttag------AAGGTGGCTGTGCTAAGCTGTGAGCCTTCCAAGGAAAGGATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACGGCCGAAAGATCCAGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCTGTGCGCATTGGGCAGgtaagtaggcaatgacctcatctaatggtgacagtgtttggagaggaagg Alignment from Exonerate_protein2genome AAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG aggcctactgccacaaggaggtagcagcatccctgctgtttttaccttagAAGGTGGCTGTGCTAAGCTGTGAGCCTTCCAAGGAAAGGATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACGGCCGAAAGATCCAGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCTGTGCGCATTGGGCAGgtaagtaggcaatgacctcatctaatggtgacagtgtttggagaggaagg Alignment from Exonerate_coding2genome AAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG aggcctactgccacaaggaggtagcagcatccctgctgtttttaccttagAAGGTGGCTGTGCTAAGCTGTGAGCCTTCCAAGGAAAGGATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACGGCCGAAAGATCCAGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCTGTGCGCATTGGGCAGgtaagtaggcaatgacctcatctaatggtgacagtgtttggagaggaagg Alignment from GeneWise AAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG aggcctactgccacaaggaggtagcagcatccctgctgtttttaccttagAAGGTGGCTGTGCTAAGCTGTGAGCCTTCCAAGGAAAGGATGCTCCTCTCCTTCAGGTTGCTGAGTGACTCACGGCCGAAAGATCCAGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCTGTGCGCATTGGGCAGgtaagtaggcaatgacctcatctaatggtgacagtgtttggagaggaagg #### Pdcd11_ID10129_23 --> 0 - 1 Original Alignment ---GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAg ggcgccacgttcgctaacaaatctgggatttctccctgtctgtatttcagATTGTTCTCAAACACCCAGATAGAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACTGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCATTggtaagaaatgatttggtgcctggtcagagagagactgtggtgggagtttt Alignment from CESAR ---GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAg ggcgccacgttcgctaacaaatctgggatttctccctgtctgtatttcagATTGTTCTCAAACACCCAGATAGAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACTGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCATTggtaagaaatgatttggtgcctggtcagagagagactgtggtgggagtttt Alignment from Spaln_aa2Genome GTTCTGAAACACCCA---GACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG ggcgccacgttcgctaacaaatctgggatttctccctgtctgtatttcagATTGTTCTCAAACACCCAGATAGAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACTGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCATTGgtaagaaatgatttggtgcctggtcagagagagactgtggtgggagtttt Alignment from Spaln_nt2Genome GTTCTGAAACACC---CAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTC ggcgccacgttcgctaacaaatctgggatttctccctgtctgtatttcagATTGTTCTCAAACACCCAGATAGAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACTGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCattggtaagaaatgatttggtgcctggtcagagagagactgtggtgggagtttt Alignment from Pairagon ---GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG ggcgccacgttcgctaacaaatctgggatttctccctgtctgtatttcagATTGTTCTCAAACACCCAGATAGAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACTGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCATTGgtaagaaatgatttggtgcctggtcagagagagactgtggtgggagtttt Alignment from Exonerate_protein2genome ---GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG ggcgccacgttcgctaacaaatctgggatttctccctgtctgtatttcagATTGTTCTCAAACACCCAGATAGAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACTGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCATTGgtaagaaatgatttggtgcctggtcagagagagactgtggtgggagtttt Alignment from Exonerate_coding2genome ---GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG ggcgccacgttcgctaacaaatctgggatttctccctgtctgtatttcagATTGTTCTCAAACACCCAGATAGAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACTGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCATTGgtaagaaatgatttggtgcctggtcagagagagactgtggtgggagtttt Alignment from GeneWise ---GTTCTGAAACACCCAGACAAGAAGTTCCAGGTTGGGCAGGCCATCGAGGCCACCGTTGTTGACCCAGACGTCCCCAGGGCTTTCTTATGTCTGTCACTCATAG ggcgccacgttcgctaacaaatctgggatttctccctgtctgtatttcagATTGTTCTCAAACACCCAGATAGAAAGTTCCAAGTTGGGCAGGCCATTGAGGCCACTGTTGTTGACCCAGAAGTCCCCAGGGCTTTCTTGTGTCTGTCACTCATTGgtaagaaatgatttggtgcctggtcagagagagactgtggtgggagtttt #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG tggtgtgcagacaccttctgccccatctcacgtgtacattttcattacagcGTAAATCCCATGAAGAACCTGATAGAGCTGTCCCTCCTTCCCAGTGACACTGGGAGGCCGGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAACCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAATCTGAG---------gtaagcaccgacagctaaactccccgggcagtattgcctcatctcaccca Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG tggtgtgcagacaccttctgccccatctcacgtgtacattttcattacagcGTAAATCCCATGAAGAACCTGATAGAGCTGTCCCTCCTTCCCAGTGACACTGGGAGGCCGGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAACCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAATCTGAG---------gtaagcaccgacagctaaactccccgggcagtattgcctca Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAG tggtgtgcagacaccttctgccccatctcacgtgtacattttcattacagCGTAAATCCCATGAAGAACCTGATAGAGCTGTCCCTCCTTCCCAGTGACACTGGGAGGCCGGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAACCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAATCTGAGgtaagcaccgacagctaaactccccgggcagtattgcctcatctcaccca Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAG tggtgtgcagacaccttctgccccatctcacgtgtacattttcattacagCGTAAATCCCATGAAGAACCTGATAGAGCTGTCCCTCCTTCCCAGTGACACTGGGAGGCCGGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAACCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAATCTGAGgtaagcaccgacagctaaactccccgggcagtattgcctcatctcaccca Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAG tggtgtgcagacaccttctgccccatctcacgtgtacattttcattacagCGTAAATCCCATGAAGAACCTGATAGAGCTGTCCCTCCTTCCCAGTGACACTGGGAGGCCGGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAACCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAATCTGAGgtaagcaccgacagctaaactccccgggcagtattgcctcatctcaccca Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG tggtgtgcagacaccttctgccccatctcacgtgtacattttcattacagCGTAAATCCCATGAAGAACCTGATAGAGCTGTCCCTCCTTCCCAGTGACACTGGGAGGCCGGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAACCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAATCTGAGGTAAGCACCgacagctaaactccccgggcagtattgcctcatctcaccca Alignment from Exonerate_coding2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG tggtgtgcagacaccttctgccccatctcacgtgtacattttcattacagCGTAAATCCCATGAAGAACCTGATAGAGCTGTCCCTCCTTCCCAGTGACACTGGGAGGCCGGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAACCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAATCTGAGGTAAGCACCgacagctaaactccccgggcagtattgcctcatctcaccca Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAG tggtgtgcagacaccttctgccccatctcacgtgtacattttcattacagCGTAAATCCCATGAAGAACCTGATAGAGCTGTCCCTCCTTCCCAGTGACACTGGGAGGCCGGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGGGGGCCAAAAAAAGAAGGAGAAGAACCAGAAGAGACGGGATGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAATCTGAGgtaagcaccgacagctaaactccccgggcagtattgcctcatctcaccca #### Pdcd11_ID10135_29 --> 0 - 0 Original Alignment GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG ggtgaggggaaaccccccatgtctctctgtgtgactctttctgctcaaag---------AACAAGAGGCCAAAGAGGTCTGGGGCTGCAGAGGAGGATGACAGTGGTGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaaggtttgctgggtgcgaactggggaatagctttggtgaagagctcct Alignment from CESAR GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggggaaacccctctgtgtgactctttctgctcaaag---------AACAAGAGGCCAAAGAGGTCTGGGGCTGCAGAGGAGGATGACAGTGGTGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaaggtttgctgggtgcgaactggggaatagctttggtgaagagctcct Alignment from Spaln_aa2Genome AACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG ggtgaggggaaaccccccatgtctctctgtgtgactctttctgctcaaagAACAAGAGGCCAAAGAGGTCTGGGGCTGCAGAGGAGGATGACAGTGGTGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaaggtttgctgggtgcgaactggggaatagctttggtgaagagctcct Alignment from Spaln_nt2Genome G AACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGA------AGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG GgtgaggggaaaccccccatgtctctctgtgtgactctttctgctcaaagAACAAGAGGCCAAAGAGGTCTGGGGCTGCAGAGGAGGATGACAGTGGTGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaaggtttgctgggtgcgaactggggaatagctttggtgaagagctcct Alignment from Pairagon GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGA------AGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG ggtgaggggaaaccccccatgtctctctgtgtgactctttctgctcaaag---------AACAAGAGGCCAAAGAGGTCTGGGGCTGCAGAGGAGGATGACAGTGGTGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaaggtttgctgggtgcgaactggggaatagctttggtgaagagctcct Alignment from Exonerate_protein2genome AACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG ggtgaggggaaaccccccatgtctctctgtgtgactctttctgctcaaagAACAAGAGGCCAAAGAGGTCTGGGGCTGCAGAGGAGGATGACAGTGGTGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaaggtttgctgggtgcgaactggggaatagctttggtgaagagctcct Alignment from Exonerate_coding2genome AACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG ggtgaggggaaaccccccatgtctctctgtgtgactctttctgctcaaagAACAAGAGGCCAAAGAGGTCTGGGGCTGCAGAGGAGGATGACAGTGGTGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaaggtttgctgggtgcgaactggggaatagctttggtgaagagctcct Alignment from GeneWise ---AAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG ggtgaggggaaaccccccatgtctctctgtgtgactctttctgctcaaagAACAAGAGGCCAAAGAGGTCTGGGGCTGCAGAGGAGGATGACAGTGGTGTGGAAGCTTCAGTATACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaaggtttgctgggtgcgaactggggaatagctttggtgaagagctcct #### Pdcd11_ID10139_33 --> 0 - 1 Original Alignment ---------GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGG------GCCAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc acttcatcgacatagtgccacactctaatctggatttgctttttttgcagGGAGAAAGAGAAGCTGGAGAGCTGTATAACCGGATGATCAAACGGTTCCGGCAGGAGAAGGCTGTCTGTATCAAATATGGTGCCTTTGGTTTGGGAAGGAGTCAGGCTGGGGCTGGAGTCAGTCACCGTGTCCTACAGCGAGCCCCGGAGTGCTTGCCGGCCAAAGAAcgtgagttcttttcctggcacctgatcccactcaatttgatacatatttag Alignment from CESAR ---------GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAc acttcatcgacatagtgccacactctaatctggatttgctttttttgcagGGAGAAAGAGAAGCTGGAGAGCTGTATAACCGGATGATCAAACGGTTCCGGCAGGAGAAGGCTGTCTGTATCAAATATGGTGCCTTTGGTTTGGGAAGGAGTCAGGCTGGGGCTGGAGTCAGTCACCGTGTCCTACAGCGAGCCCCGGAGTGCTTGCCGGCCAAAGAAcgtgagttcttttcctggcacctgatcccactcaatttgatacatatttag Alignment from Spaln_aa2Genome GAAGCTGGTGAG---------CTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acttcatcgacatagtgccacactctaatctggatttgctttttttgcagGGAGAAAGAGAAGCTGGAGAGCTGTATAACCGGATGATCAAACGGTTCCGGCAGGAGAAGGCTGTCTGTATCAAATATGGTGCCTTTGGTTTGGGAAGGAGTCAGGCTGGGGCTGGAGTCAGTCACCGTGTCCTACAGCGAGCCCCGGAGTGCTTGCCGGCCAAAGAACgtgagttcttttcctggcacctgatcccactcaatttgatacatatttag Alignment from Spaln_nt2Genome GAAGCTGGTGAG---------CTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGC------CAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acttcatcgacatagtgccacactctaatctggatttgctttttttgcagGGAGAAAGAGAAGCTGGAGAGCTGTATAACCGGATGATCAAACGGTTCCGGCAGGAGAAGGCTGTCTGTATCAAATATGGTGCCTTTGGTTTGGGAAGGAGTCAGGCTGGGGCTGGAGTCAGTCACCGTGTCCTACAGCGAGCCCCGGAGTGCTTGCCGGCCAAAGAACgtgagttcttttcctggcacctgatcccactcaatttgatacatatttag Alignment from Pairagon ---------GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGC------CAGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acttcatcgacatagtgccacactctaatctggatttgctttttttgcagGGAGAAAGAGAAGCTGGAGAGCTGTATAACCGGATGATCAAACGGTTCCGGCAGGAGAAGGCTGTCTGTATCAAATATGGTGCCTTTGGTTTGGGAAGGAGTCAGGCTGGGGCTGGAGTCAGTCACCGTGTCCTACAGCGAGCCCCGGAGTGCTTGCCGGCCAAAGAACgtgagttcttttcctggcacctgatcccactcaatttgatacatatttag Alignment from Exonerate_protein2genome ---------GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acttcatcgacatagtgccacactctaatctggatttgctttttttgcagGGAGAAAGAGAAGCTGGAGAGCTGTATAACCGGATGATCAAACGGTTCCGGCAGGAGAAGGCTGTCTGTATCAAATATGGTGCCTTTGGTTTGGGAAGGAGTCAGGCTGGGGCTGGAGTCAGTCACCGTGTCCTACAGCGAGCCCCGGAGTGCTTGCCGGCCAAAGAACgtgagttcttttcctggcacctgatcccactcaatttgatacatatttag Alignment from Exonerate_coding2genome ---------GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acttcatcgacatagtgccacactctaatctggatttgctttttttgcagGGAGAAAGAGAAGCTGGAGAGCTGTATAACCGGATGATCAAACGGTTCCGGCAGGAGAAGGCTGTCTGTATCAAATATGGTGCCTTTGGTTTGGGAAGGAGTCAGGCTGGGGCTGGAGTCAGTCACCGTGTCCTACAGCGAGCCCCGGAGTGCTTGCCGGCCAAAGAACgtgagttcttttcctggcacctgatcccactcaatttgatacatatttag Alignment from GeneWise ---------GAAGCTGGTGAGCTGTACAACCGGATGCTGAAACGGTTCCGGCAGGAGAAGGCTGTCTGGATCAAATATGGTGCCTTTGTTTTGGGGAGGAGTCAGGCTGGGGCC------AGTCACCGAGTGCTGCAGCGAGCCCTGGAGTGCCTGCCCGCCAAGGAAC acttcatcgacatagtgccacactctaatctggatttgctttttttgcagGGAGAAAGAGAAGCTGGAGAGCTGTATAACCGGATGATCAAACGGTTCCGGCAGGAGAAGGCTGTCTGTATCAAATATGGTGCCTTTGGTTTGGGAAGGAGTCAGGCTGGGGCTGGAGTCAGTCACCGTGTCCTACAGCGAGCCCCGGAGTGCTTGCCGGCCAAAGAACgtgagttcttttcctggcacctgatcccactcaatttgatacatatttag #### Pdcd11_ID10140_34 --> 2 - 2 Original Alignment atGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag aatcagccactctgggggtcttgccttttaacattttgttccctgctcagat---GATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGACGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCACGGCAGCCATACAGCAGTCaggtaagttcaacaacagggctcattgcaatagagtgaggggtgggaagaga Alignment from CESAR atGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag cccaatcagccactctgggggtcttttttaacattttgttccctgctcagat---GATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGACGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCACGGCAGCCATACAGCAGTCaggtaagttcaacaacagggctcattgcaatagagtgaggggtgggaagaga Alignment from Spaln_aa2Genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG aatcagccactctgggggtcttgccttttaacattttgttccctgctcagAT---GATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGACGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCACGGCAGCCATACAGCAGTCAGgtaagttcaacaacagggctcattgcaatagagtgaggggtgggaagaga Alignment from Spaln_nt2Genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG aatcagccactctgggggtcttgccttttaacattttgttccctgctcagAT---GATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGACGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCACGGCAGCCATACAGCAGTCAGgtaagttcaacaacagggctcattgcaatagagtgaggggtgggaagaga Alignment from Pairagon ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG aatcagccactctgggggtcttgccttttaacattttgttccctgctcagAT---GATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGACGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCACGGCAGCCATACAGCAGTCAGgtaagttcaacaacagggctcattgcaatagagtgaggggtgggaagaga Alignment from Exonerate_protein2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG aatcagccactctgggggtcttgccttttaacattttgttccctgctcagAT---GATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGACGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCACGGCAGCCATACAGCAGTCAGgtaagttcaacaacagggctcattgcaatagagtgaggggtgggaagaga Alignment from Exonerate_coding2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG aatcagccactctgggggtcttgccttttaacattttgttccctgctcagAT---GATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGACGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCACGGCAGCCATACAGCAGTCAGgtaagttcaacaacagggctcattgcaatagagtgaggggtgggaagaga Alignment from GeneWise ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG aatcagccactctgggggtcttgccttttaacattttgttccctgctcagAT---GATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGACGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATTGACATGACCATCAAGCACGGCAGCCATACAGCAGTCAGgtaagttcaacaacagggctcattgcaatagagtgaggggtgggaagaga #### Pde6c_ID7536_6 --> 0 - 2 Original Alignment GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTcc ccttctatgcaaattattattgcatcctaactgcagtatccctgttccag---ATCATATTCTACAAAATTACTGATTACATTTTGCATGGCAAAGAAGAAATCAATGTGATTccgtgagtggtccctggaagcaggcttgcctctggaactctggcctgatcca Alignment from CESAR GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTcc ataccttctatgcaaattattattgcctaactgcagtatccctgttccag---ATCATATTCTACAAAATTACTGATTACATTTTGCATGGCAAAGAAGAAATCAATGTGATTccgtgagtggtccctggaagcaggcttgcctctggaactctggcctgatcca Alignment from Spaln_aa2Genome GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC ccttctatgcaaattattattgcatcctaactgcagtatccctgttccag---ATCATATTCTACAAAATTACTGATTACATTTTGCATGGCAAAGAAGAAATCAATGTGATTCCgtgagtggtccctggaagcaggcttgcctctggaactctggcctgatcca Alignment from Spaln_nt2Genome GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC ccttctatgcaaattattattgcatcctaactgcagtatccctgttccag---ATCATATTCTACAAAATTACTGATTACATTTTGCATGGCAAAGAAGAAATCAATGTGATTCCgtgagtggtccctggaagcaggcttgcctctggaactctggcctgatcca Alignment from Pairagon GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC ccttctatgcaaattattattgcatcctaactgcagtatccctgttccag---ATCATATTCTACAAAATTACTGATTACATTTTGCATGGCAAAGAAGAAATCAATGTGATTCCgtgagtggtccctggaagcaggcttgcctctggaactctggcctgatcca Alignment from Exonerate_protein2genome ATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC ccttctatgcaaattattattgcatcctaactgcagtatccctgttccagATCATATTCTACAAAATTACTGATTACATTTTGCATGGCAAAGAAGAAATCAATGTGATTCCgtgagtggtccctggaagcaggcttgcctctggaactctggcctgatcca Alignment from Exonerate_coding2genome ATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC ccttctatgcaaattattattgcatcctaactgcagtatccctgttccagATCATATTCTACAAAATTACTGATTACATTTTGCATGGCAAAGAAGAAATCAATGTGATTCCgtgagtggtccctggaagcaggcttgcctctggaactctggcctgatcca Alignment from GeneWise ATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC ccttctatgcaaattattattgcatcctaactgcagtatccctgttccagATCATATTCTACAAAATTACTGATTACATTTTGCATGGCAAAGAAGAAATCAATGTGATTCCgtgagtggtccctggaagcaggcttgcctctggaactctggcctgatcca #### Pde6c_ID7543_13 --> 0 - 0 Original Alignment GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tgttgtgtgtcatctcaagcatgaatgactgacccattcttcctttttagATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTA---gtaagcaggactgatgcaattagaagtcgttataactctgaatgctaccc Alignment from CESAR GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tgttgtgtgtcatctcaagcatgaatgactgacccattcttcctttttagATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTA---gtaagcaggactgatgcaattagaagtcgttataactctgaatgcta Alignment from Spaln_aa2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTA tgttgtgtgtcatctcaagcatgaatgactgacccattcttcctttttagATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAgtaagcaggactgatgcaattagaagtcgttataactctgaatgctaccc Alignment from Spaln_nt2Genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTA tgttgtgtgtcatctcaagcatgaatgactgacccattcttcctttttagATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAgtaagcaggactgatgcaattagaagtcgttataactctgaatgctaccc Alignment from Pairagon GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTA tgttgtgtgtcatctcaagcatgaatgactgacccattcttcctttttagATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAgtaagcaggactgatgcaattagaagtcgttataactctgaatgctaccc Alignment from Exonerate_protein2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTA tgttgtgtgtcatctcaagcatgaatgactgacccattcttcctttttagATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAgtaagcaggactgatgcaattagaagtcgttataactctgaatgctaccc Alignment from Exonerate_coding2genome GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTA tgttgtgtgtcatctcaagcatgaatgactgacccattcttcctttttagATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATGTCCCCTTTGTTAgtaagcaggactgatgcaattagaagtcgttataactctgaatgctaccc Alignment from GeneWise GTTCTTACAAGGTGGATGTACACAGTCCGGAAAGGGTACCGTCCTGTCACCTACCACAACTGGCGGCACGGATTCAACGTGGGGCAGACCATGTTCACTTTGTTAATG tgttgtgtgtcatctcaagcatgaatgactgacccattcttcctttttagATTCTTACAAGGTGGATGTACACAGTCCGAAAGGGGTACCGACCTGCCACCTACCATAACTGGCGGCATGGATCCAATGTGGGGCATACTATG---TCCCCTTTGTTAgtaagcaggactgatgcaattagaagtcgttataactctgaatgctaccc #### Pde6c_ID7550_20 --> 0 - 0 Original Alignment CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG------ ctccccaaactctcaggaaacctcttaagatcatctatatttctgaccagCCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGATCATCgtaatttacctgaatgaaatatagcttaacttggtttcattgacaagtta Alignment from CESAR CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG------ ctccccaaactctcaggaaacctcttaagatcatctatatttctgaccagCCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGATCATCgtaatttacctgaatgaaatatagcttaacttggtttcattgacaagtta Alignment from Spaln_aa2Genome CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG------ ctccccaaactctcaggaaacctcttaagatcatctatatttctgaccagCCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGATCATCgtaatttacctgaatgaaatatagcttaacttggtttcattgacaagtta Alignment from Spaln_nt2Genome CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG------ ctccccaaactctcaggaaacctcttaagatcatctatatttctgaccagCCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGATCATCgtaatttacctgaatgaaatatagcttaacttggtttcattgacaagtta Alignment from Pairagon CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG------ ctccccaaactctcaggaaacctcttaagatcatctatatttctgaccagCCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGATCATCgtaatttacctgaatgaaatatagcttaacttggtttcattgacaagtta Alignment from Exonerate_protein2genome CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaagatcatctatatttctgaccagCCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGatcatcgtaatttacctgaatgaaatatagcttaacttggtttcattgacaagtta Alignment from Exonerate_coding2genome CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaagatcatctatatttctgaccagCCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGatcatcgtaatttacctgaatgaaatatagcttaacttggtttcattgacaagtta Alignment from GeneWise CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG------ ctccccaaactctcaggaaacctcttaagatcatctatatttctgaccagCCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGATCATCgtaatttacctgaatgaaatatagcttaacttggtttcattgacaagtta #### Pga5_ID2970_8 --> 0 - 0 Original Alignment ---------TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggaagtctgctctgggcctcctaccggtttgttatcatttttaataagCATGAAGTATACTTCCTAAAGTGTGAC---GTCAACTGCTTGCCTGATATTGTCTTCTCCATTGGTAGTGTTACATACCCAGTGCCAGCTAGTGCCTACATTCGAAAGgtaagtaaggtgggagtgggtgagcacctcatcatgctttggtttctatg Alignment from CESAR ---------TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggaagtctgctctgggcctcctaccggtttgttatcatttttaataagCATGAAGTATACTTCCTAAAGTGTGAC---GTCAACTGCTTGCCTGATATTGTCTTCTCCATTGGTAGTGTTACATACCCAGTGCCAGCTAGTGCCTACATTCGAAAGgtaagtaaggtgggagtgggtgagcacctcatcatgctttggtttctatg Alignment from Spaln_aa2Genome ---------TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggaagtctgctctgggcctcctaccggtttgttatcatttttaataagCATGAAGTATACTTCCTAAAGTGTGAC---GTCAACTGCTTGCCTGATATTGTCTTCTCCATTGGTAGTGTTACATACCCAGTGCCAGCTAGTGCCTACATTCGAAAGgtaagtaaggtgggagtgggtgagcacctcatcatgctttggtttctatg Alignment from Spaln_nt2Genome TA--CTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggaagtctgctctgggcctcctaccggtttgttatcatttttaataagcatgaagTATACTTCCTAAAGTGTGA---CGTCAACTGCTTGCCTGATATTGTCTTCTCCATTGGTAGTGTTACATACCCAGTGCCAGCTAGTGCCTACATTCGAAAGgtaagtaaggtgggagtgggtgagcacctcatcatgctttggtttctatg Alignment from Pairagon -----------------------------------------------------------TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGGAAGTCTGCTCTGGGCCTCCTACCGGTTTGTTATCATTTTTAATAAGCATGAAGTATACTTCCTAAAGTGTGA---CGTCAACTGCTTGCCTGATATTGTCTTCTCCATTGGTAGTGTTACATACCCAGTGCCAGCTAGTGCCTACATTCGAAAGgtaagtaaggtgggagtgggtgagcacctcatcatgctttggtttctatg Alignment from Exonerate_protein2genome ------TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggaagtctgctctgggcctcctaccggtttgttatcatttttaataagcatGAAGTATACTTCCTAAAGTGTGAC---GTCAACTGCTTGCCTGATATTGTCTTCTCCATTGGTAGTGTTACATACCCAGTGCCAGCTAGTGCCTACATTCGAAAGgtaagtaaggtgggagtgggtgagcacctcatcatgctttggtttctatg Alignment from Exonerate_coding2genome ------TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG tgggaagtctgctctgggcctcctaccggtttgttatcatttttaataagcatGAAGTATACTTCCTAAAGTGTGAC---GTCAACTGCTTGCCTGATATTGTCTTCTCCATTGGTAGTGTTACATACCCAGTGCCAGCTAGTGCCTACATTCGAAAGgtaagtaaggtgggagtgggtgagcacctcatcatgctttggtttctatg Alignment from GeneWise -----------------------------------------------------------TACTTCCTCAAGTGTGACACCATCAACACCCTGCCTGATATTGTCTTCACCATCGGCAGTGTTACCTACCCAGTGCCAGCCAGTGCCTACATCCGAAAG TGGGAAGTCTGCTCTGGGCCTCCTACCGGTTTGTTATCATTTTTAATAAGCATGAAGTATACTTCCTAAAGTGTGAC---GTCAACTGCTTGCCTGATATTGTCTTCTCCATTGGTAGTGTTACATACCCAGTGCCAGCTAGTGCCTACATTCGAAAGgtaagtaaggtgggagtgggtgagcacctcatcatgctttggtttctatg #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tc------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtggtggacagcagtcccccctgactctcacttgctgacctttccccagtcCACGAGCTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtgagtgaacccagggtgtgggcccaacactgagacaacaaggactattt Alignment from CESAR tc------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtggtggacagcagtcccccctgactctcacttgctgacctttccccagtcCACGAGCTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtgagtgaacccagggtgtgggcccaacactgagacaacaaggactattt Alignment from Spaln_aa2Genome TC------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtggtggacagcagtcccccctgactctcacttgctgacctttccccagTCCACGAGCTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtgagtgaacccagggtgtgggcccaacactgagacaacaaggactattt Alignment from Spaln_nt2Genome TCC------TGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtggtggacagcagtcccccctgactctcacttgctgacctttccccagTCCACGAGCTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtgagtgaacccagggtgtgggcccaacactgagacaacaaggactattt Alignment from Pairagon TC------CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtggtggacagcagtcccccctgactctcacttgctgacctttccccagTCCACGAGCTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtgagtgaacccagggtgtgggcccaacactgagacaacaaggactattt Alignment from Exonerate_protein2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtggtggacagcagtcccccctgactctcacttgctgacctttccccagtccacgAGCTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtgagtgaacccagggtgtgggcccaacactgagacaacaaggactattt Alignment from Exonerate_coding2genome TCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtggtggacagcagtcccccctgactctcacttgctgacctttccccagtccacgAGCTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtgagtgaacccagggtgtgggcccaacactgagacaacaaggactattt Alignment from GeneWise -----ATCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG agtggtggacagcagtcccccctgactctcacttgctgacctttccccagTCCACGAGCTGGACCGCTGGTGGGGAAACAAGCGCATTGACTATTCACTCTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTTCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtgagtgaacccagggtgtgggcccaacactgagacaacaaggactattt #### Pitpnm1_ID321_18 --> 0 - 0 Original Alignment AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG--------- GTGGATGTCTACGTCATGACACAGC ccaactaacccttccctctgtcttctgttctgtgtgcttcattcacaaagAATGTCACTTCCAACCACCGAGCAAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCGTTGGATGTGGTCACACTCACTGGAGAAGAGCAAGAATCAgtaaatgtgcagtcttgtcttacagGTTGATGTCTATGTCATGACACAGC Alignment from CESAR AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG--------- GTGGATGTCTACGTCATGACACAGC ccaactaacccttccctctgtcttctgttctgtgtgcttcattcacaaagAATGTCACTTCCAACCACCGAGCAAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCGTTGGATGTGGTCACACTCACTGGAGAAGAGCAAGAATCAgtccttagaattttctgttttacagGTTGATGTCTATGTCATGACACAGC Alignment from Spaln_aa2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAA GGTGGATGTCTACGTCATGACACAG ccaactaacccttccctctgtcttctgttctgtgtgcttcattcacaaagAATGTCACTTCCAACCACCGAGCAAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCGTTGGATGTGGTCACACTCACTGGAGAAGAgcaagaatcagtaaatgtgcagtcttgtcttacagGTT-GATGTCTATGTCATGACACAG Alignment from Spaln_nt2Genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAA GGTGGATGTCTACGTCATGACACAG ccaactaacccttccctctgtcttctgttctgtgtgcttcattcacaaagAATGTCACTTCCAACCACCGAGCAAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCGTTGGATGTGGTCACACTCACTGGAGAAGAgcaagaatcagtaaatgtgcagtcttgtcttacag-GTTGATGTCTATGTCATGACACAG Alignment from Pairagon AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGA----------------------------------AGGTGGATGTCTACGTCATGACACAGC ccaactaacccttccctctgtcttctgttctgtgtgcttcattcacaaagAATGTCACTTCCAACCACCGAGCAAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCGTTGGATGTGGTCACACTCACTGGAGAAGAGCAAGAATCAGTAAATGTGCAGTCTTGTCTTACAGGTTGATGTCTATGTCATGACACAGC Alignment from Exonerate_protein2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC ccaactaacccttccctctgtcttctgttctgtgtgcttcattcacaaagAATGTCACTTCCAACCACCGAGCAAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCGTTGGATGTGGTCACACTCACTGGAGAAGAGcaagaatcagtaaatgtgcagtcttgtcttacagGTTGATGTCTATGTCATGACACAGC Alignment from Exonerate_coding2genome AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAGAAG GTGGATGTCTACGTCATGACACAGC ccaactaacccttccctctgtcttctgttctgtgtgcttcattcacaaagAATGTCACTTCCAACCACCGAGCAAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCGTTGGATGTGGTCACACTCACTGGAGAAGAGcaagaatcagtaaatgtgcagtcttgtcttacagGTTGATGTCTATGTCATGACACAGC Alignment from GeneWise AACGTCACTTCCAACCACCGAGCGAGTGACACCGTGGTATGTGAGGGCCGTCCCCAGGTGCTGAATGGGCGCTTCATGTATGGACCATTGGATGTGGTCACGCTCACTGGAGAG------------------------------------AAGGTGGATGTCTACGTCATGACACA ccaactaacccttccctctgtcttctgttctgtgtgcttcattcacaaagAATGTCACTTCCAACCACCGAGCAAGTGACACTGTGGTATGTGAGGGCCGTCCCCAGGTGCTCAATGGCCATTTCATGTATGGACCGTTGGATGTGGTCACACTCACTGGAGAAGAGCAAGAATCAGTAAATGTGCAGTCTTGTCTTA--CAGGTTGATGTCTATGTCATGACACA #### Pkd2l1_ID8954_14 --> 1 - 0 Original Alignment g---CTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG catccagacatcaattttggtttcctcgacattttgtttttcctttggaggCGCCTTACAAGGAGAGTATTGCAGCTGCAATGTATTCTGGAAGGAGTTGTGTCCCAGATTGACGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGgtaagtgccctccagtttggcacacagagtcagctactactggagtccat Alignment from CESAR g---CTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG catccagacatcaattttggtttcctcgacattttgtttttcctttggaggCGCCTTACAAGGAGAGTATTGCAGCTGCAATGTATTCTGGAAGGAGTTGTGTCCCAGATTGACGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGgtaagtgccctccagtttggcacacagagtcagctactactggagtccat Alignment from Spaln_aa2Genome GCTCACAAGGAGA---GTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG catccagacatcaattttggtttcctcgacattttgtttttcctttggagGCGCCTTACAAGGAGAGTATTGCAGCTGCAATGTATTCTGGAAGGAGTTGTGTCCCAGATTGACGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGgtaagtgccctccagtttggcacacagagtcagctactactggagtccat Alignment from Spaln_nt2Genome GCTC---ACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG catccagacatcaattttggtttcctcgacattttgtttttcctttggagGCGCCTTACAAGGAGAGTATTGCAGCTGCAATGTATTCTGGAAGGAGTTGTGTCCCAGATTGACGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGgtaagtgccctccagtttggcacacagagtcagctactactggagtccat Alignment from Pairagon G---CTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG catccagacatcaattttggtttcctcgacattttgtttttcctttggagGCGCCTTACAAGGAGAGTATTGCAGCTGCAATGTATTCTGGAAGGAGTTGTGTCCCAGATTGACGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGgtaagtgccctccagtttggcacacagagtcagctactactggagtccat Alignment from Exonerate_protein2genome G---CTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG catccagacatcaattttggtttcctcgacattttgtttttcctttggagGCGCCTTACAAGGAGAGTATTGCAGCTGCAATGTATTCTGGAAGGAGTTGTGTCCCAGATTGACGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGgtaagtgccctccagtttggcacacagagtcagctactactggagtccat Alignment from Exonerate_coding2genome G---CTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG catccagacatcaattttggtttcctcgacattttgtttttcctttggagGCGCCTTACAAGGAGAGTATTGCAGCTGCAATGTATTCTGGAAGGAGTTGTGTCCCAGATTGACGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGgtaagtgccctccagtttggcacacagagtcagctactactggagtccat Alignment from GeneWise -ATGCTCACAAGGAGAGTTCTGCAGCTGCAGTGTGTTCTGGAAGGAGTTGTGTCCCAGATTGATGCTGTAGGCTCAAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTCCCCAGGAATG catccagacatcaattttggtttcctcgacattttgtttttcctttggagGCGCCTTACAAGGAGAGTATTGCAGCTGCAATGTATTCTGGAAGGAGTTGTGTCCCAGATTGACGCTGTAGGCTCTAAGCTGAAGATGCTGGAGAGGAAAGGGGAGCTGGCTCCCTACCCAGGCATGgtaagtgccctccagtttggcacacagagtcagctactactggagtccat #### Pkd2l1_ID8955_13 --> 0 - 2 Original Alignment ---------GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat tgactccccagactcagcatctcttgatagtgggtctgtgtctttttcagAACTTGATGGTGACCCTCAATGCTGAGATCGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAGAATTTGACatgtgagttgaggttagtgtaaggaatggctgactgtggcaccttttgagac Alignment from CESAR ---------GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat tgactccccagactcagcatctcttgatagtgggtctgtgtctttttcagAACTTGATGGTGACCCTCAATGCTGAGATCGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAGAATTTGACatgtgagttgaggttagtgtaaggaatggctgactgtggcaccttttgagac Alignment from Spaln_aa2Genome GTGACCCTCAATGCT---------GAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatctcttgatagtgggtctgtgtctttttcagAACTTGATGGTGACCCTCAATGCTGAGATCGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGAGGCT------GCAAGGGGAAAAAGCTGGGTTTCAGGAGAAGAATTTGACATgtgagttgaggttagtgtaaggaatggctgactgtggcaccttttgagac Alignment from Spaln_nt2Genome GGTGACCCTCAA--------TGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatctcttgatagtgggtctgtgtctttttcagAACTTGATGGTGACCCTCAATGCTGAGATCGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACT------GGAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAGAATTTGACATgtgagttgaggttagtgtaaggaatggctgactgtggcaccttttgagac Alignment from Pairagon ---------GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatctcttgatagtgggtctgtgtctttttcagAACTTGATGGTGACCCTCAATGCTGAGATCGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACT------GGAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAGAATTTGACATgtgagttgaggttagtgtaaggaatggctgactgtggcaccttttgagac Alignment from Exonerate_protein2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatctcttgatagtgggtctgtgtctttttcagaacttgatgGTGACCCTCAATGCTGAGATCGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAGAATTTGACATgtgagttgaggttagtgtaaggaatggctgactgtggcaccttttgagac Alignment from Exonerate_coding2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatctcttgatagtgggtctgtgtctttttcagaacttgatgGTGACCCTCAATGCTGAGATCGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAGAATTTGACATgtgagttgaggttagtgtaaggaatggctgactgtggcaccttttgagac Alignment from GeneWise ---------GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatctcttgatagtgggtctgtgtctttttcagAACTTGATGGTGACCCTCAATGCTGAGATCGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTG------GAGGCTGCAAGGGGAAAAAGCTGGGTTTCAGGAGAAGAATTTGACATgtgagttgaggttagtgtaaggaatggctgactgtggcaccttttgagac #### Pkd2l1_ID8958_10 --> 0 - 0 Original Alignment AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG--------- gaaaaactgatggcttcagagattgctgaacggctcaactttctccctagAATATGTTCCTGGCCATTATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTGCGTTGTgtaagtgccccagctctgcatagcttccataccaccagtgtcccccattt Alignment from CESAR AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG--------- gaaaaactgatggcttcagagattgctgaacggctcaactttctccctagAATATGTTCCTGGCCATTATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTGCGTTGTgtaagtgccccagctctgcatagcttccataccaccagtgtcccccattt Alignment from Spaln_aa2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG--------- gaaaaactgatggcttcagagattgctgaacggctcaactttctccctagAATATGTTCCTGGCCATTATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTGCGTTGTgtaagtgccccagctctgcatagcttccataccaccagtgtcccccattt Alignment from Spaln_nt2Genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG--------- gaaaaactgatggcttcagagattgctgaacggctcaactttctccctagAATATGTTCCTGGCCATTATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTGCGTTGTgtaagtgccccagctctgcatagcttccataccaccagtgtcccccattt Alignment from Pairagon AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG--------- gaaaaactgatggcttcagagattgctgaacggctcaactttctccctagAATATGTTCCTGGCCATTATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTGCGTTGTgtaagtgccccagctctgcatagcttccataccaccagtgtcccccattt Alignment from Exonerate_protein2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gaaaaactgatggcttcagagattgctgaacggctcaactttctccctagAATATGTTCCTGGCCATTATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGctgcgttgtgtaagtgccccagctctgcatagcttccataccaccagtgtcccccattt Alignment from Exonerate_coding2genome AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG gaaaaactgatggcttcagagattgctgaacggctcaactttctccctagAATATGTTCCTGGCCATTATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGctgcgttgtgtaagtgccccagctctgcatagcttccataccaccagtgtcccccattt Alignment from GeneWise AACATGTTCCTGGCCATCATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGTTGCAGCTTTCTGACTTCCTGAAACAG--------- gaaaaactgatggcttcagagattgctgaacggctcaactttctccctagAATATGTTCCTGGCCATTATCAACGACACATACTCCGAGGTCAAGGAGGAGCTGGCTGGCCAGAAGGATCAGCTGCAGCTTTCTGACTTCCTGAAACAGCTGCGTTGTgtaagtgccccagctctgcatagcttccataccaccagtgtcccccattt #### Pkd2l1_ID8959_9 --> 1 - 0 Original Alignment t------------------TTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG aagtgcctgtgggcaggcttctgacagattgttttccaattgtgtttcagtGGCTCTCTGCAGCCAGGTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTGgtaagcgtccctcagtaggctggtgatttgggagacctttaaagtgcagt Alignment from CESAR t------------------TTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG aagtgcctgtgggcaggcttctgacagattgttttccaattgtgtttcagtGGCTCTCTGCAGCCAGGTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTGgtaagcgtccctcagtaggctggtgatttgggagacctttaaagtgcagt Alignment from Spaln_aa2Genome GCATTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG aagtgcctgtgggcaggcttctgacagattgttttccaattgtgtttcagtggctctctgcagccagGT---TTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTGgtaagcgtccctcagtaggctggtgatttgggagacctttaaagtgcagt Alignment from Spaln_nt2Genome TTTCACTCA-GTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG aagtgcctgtgggcaggcttctgacagattgttttccaattgtgtttcagtggctctctgcagccagGTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTGgtaagcgtccctcagtaggctggtgatttgggagacctttaaagtgcagt Alignment from Pairagon -----TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG aagtgcctgtgggcaggcttctgacagattgttttccaattgtgtttcagtggctctctgcagCCAGGTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTGgtaagcgtccctcagtaggctggtgatttgggagacctttaaagtgcagt Alignment from Exonerate_protein2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG aagtgcctgtgggcaggcttctgacagattgttttccaattgtgtttcagtggctctctgcagccaggTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTGgtaagcgtccctcagtaggctggtgatttgggagacctttaaagtgcagt Alignment from Exonerate_coding2genome TTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG aagtgcctgtgggcaggcttctgacagattgttttccaattgtgtttcagtggctctctgcagccaggTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTGgtaagcgtccctcagtaggctggtgatttgggagacctttaaagtgcagt Alignment from GeneWise ----------------ATTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATCGACAATGCCAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTG aagtgcctgtgggcaggcttctgacagattgttttccaattgtgtttcagTGGCTCTCTGCAGCCAGGTTTCACTCAGTTCCGGATAATCCTTGGGGATTTTGACTACAATGCCATTGACAATGCTAACAGAATCCTGGGCCCTGTGTACTTTGTCACCTATGTCTTCTTCGTCTTCTTCGTGCTCCTGgtaagcgtccctcagtaggctggtgatttgggagacctttaaagtgcagt #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat tcttcctggagcagtctatcccttgactctaccctgtctgtcttttccagAATTTAATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCatgtaggaatacctgtatcattgtagatcactcatttttcagatcccagcat Alignment from CESAR ------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat tcttcctggagcagtctatcccttgactctaccctgtctgtcttttccagAATTTAATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCatgtaggaatacctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Spaln_aa2Genome ATATTCAAGTAT------ATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagcagtctatcccttgactctaccctgtctgtcttttccagAATTTAATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggaatacctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Spaln_nt2Genome ATATTCAAGTA------TATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagcagtctatcccttgactctaccctgtctgtcttttccagAATTTAATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggaatacctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Pairagon ------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagcagtctatcccttgactctaccctgtctgtcttttccagAATTTAATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggaatacctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Exonerate_protein2genome ------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagcagtctatcccttgactctaccctgtctgtcttttccagAATTTAATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggaatacctgtatcattgtagatcactcatttttcagatcccagcat Alignment from Exonerate_coding2genome ------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagcagtctatcccttgactctaccctgtctgtcttttccagAATTTAATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggaatacctgtatcattgtagatcactcatttttcagatcccagcat Alignment from GeneWise ------ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagcagtctatcccttgactctaccctgtctgtcttttccagAATTTAATATTTAAGTATATCAGTTTCAATAAGACCATGACACAGCTCTCATCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggaatacctgtatcattgtagatcactcatttttcagatcccagcat #### Plcb3_ID1902_29 --> 1 - 0 Original Alignment gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gggcgcagggacatagcttagcttcttcttgtgttttatctgtttgccagg------ACAGAGATTAATCGGCAACACATCACTGAGTCAGTAAACTCCAACAGACGGgtgagagggtctcatctctctttcaccaacaggagctaagctttactgtg Alignment from CESAR gGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gttagtgggcgcagggacatagcttttcttgtgttttatctgtttgccagg------ACAGAGATTAATCGGCAACACATCACTGAGTCAGTAAACTCCAACAGACGGgtgagagggtctcatctctctttcaccaacaggagctaagctttactgtg Alignment from Spaln_aa2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gggcgcagggacatagcttagcttcttcttgtgttttatctgtttgccagG------ACAGAGATTAATCGGCAACACATCACTGAGTCAGTAAACTCCAACAGACGGgtgagagggtctcatctctctttcaccaacaggagctaagctttactgtg Alignment from Spaln_nt2Genome GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gggcgcagggacatagcttagcttcttcttgtgttttatctgtttgccag------GACAGAGATTAATCGGCAACACATCACTGAGTCAGTAAACTCCAACAGACGGgtgagagggtctcatctctctttcaccaacaggagctaagctttactgtg Alignment from Pairagon GGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gggcgcagggacatagcttagcttcttcttgtgttttatctgtttgccag------GACAGAGATTAATCGGCAACACATCACTGAGTCAGTAAACTCCAACAGACGGgtgagagggtctcatctctctttcaccaacaggagctaagctttactgtg Alignment from Exonerate_protein2genome GTGGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gggcgcagggacatagcttagcttcttcttgtgttttatctgTTTGCCAGGACAGAGATTAATCGGCAACACATCACTGAGTCAGTAAACTCCAACAGACGGgtgagagggtctcatctctctttcaccaacaggagctaagctttactgtg Alignment from Exonerate_coding2genome GTGGAACTGACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gggcgcagggacatagcttagcttcttcttgtgttttatctgTTTGCCAGGACAGAGATTAATCGGCAACACATCACTGAGTCAGTAAACTCCAACAGACGGgtgagagggtctcatctctctttcaccaacaggagctaagctttactgtg Alignment from GeneWise GACAGAGATTAATCGGCGGCACATCACTGAGTCGGTAAACTCCATCAGACGG gggcgcagggacatagcttagcttcttcttgtgttttatctgtttgccagGACAGAGATTAATCGGCAACACATCACTGAGTCAGTAAACTCCAACAGACGGgtgagagggtctcatctctctttcaccaacaggagctaagctttactgtg #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment g------GAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------gt ggtgaccatcatccaacgtctgagtctcccttttctctgtgctctggcaggGTACTGGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTGTATGGCCACTGGgtgtgagtgcaccgagttagtgggcgcagggacatagcttagcatgtattta Alignment from CESAR g------GAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt ggtgaccatcatccaacgtctgagtctcccttttctctgtgctctggcaggGTACTGGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAgtgtatggccactgggtgtgagtgcaccgagttagtgggcgcagggacatagcttagcttcttcccc Alignment from Spaln_aa2Genome GGAGAAGAAG------GAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT ggtgaccatcatccaacgtctgagtctcccttttctctgtgctctggcagGGTACTGGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtgagtgcaccgagttagtgggcgcagggacatagcttagcatgtattta Alignment from Spaln_nt2Genome GGAGAAGAAG------GAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT ggtgaccatcatccaacgtctgagtctcccttttctctgtgctctggcagGGTACTGGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtgagtgcaccgagttagtgggcgcagggacatagcttagcatgtattta Alignment from Pairagon --------------------------------------------------------GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT GGTGACCATCATCCAACGTCTGAGTCTCCCTTTTCTCTGTGCTCTGGCAGGGTACTGGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtgagtgcaccgagttagtgggcgcagggacatagcttagcatgtattta Alignment from Exonerate_protein2genome G------GAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT ggtgaccatcatccaacgtctgagtctcccttttctctgtgctctggcagGGTACTGGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtgagtgcaccgagttagtgggcgcagggacatagcttagcatgtattta Alignment from Exonerate_coding2genome G------GAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT ggtgaccatcatccaacgtctgagtctcccttttctctgtgctctggcagGGTACTGGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtgagtgcaccgagttagtgggcgcagggacatagcttagcatgtattta Alignment from GeneWise ----AGGGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT ggtgaccatcatccaacgtctgagtctcccttttctctgtgctctggcagGGTACTGGAGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtgagtgcaccgagttagtgggcgcagggacatagcttagcatgtattta #### Plcb3_ID1905_26 --> 1 - 0 Original Alignment g---GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG taccaggagatttgtggcaatcagaaagctgttttgtttttgtttttaagaCTAGGCAAGGCCACCAACTCAGAGGATGTGAAGGATGAAGAGGAAGCCAAACAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAAACCAAGCGGAAGCTGGAACATCTACGACAGgtaggtgacaggtgaggggaatgtgacactgggggcaaggaccaacttcc Alignment from CESAR g---GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG taccaggagatttgtggcaatcagaaagctgttttgtttttgtttttaagaCTAGGCAAGGCCACCAACTCAGAGGATGTGAAGGATGAAGAGGAAGCCAAACAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAAACCAAGCGGAAGCTGGAACATCTACGACAGgtaggtgacaggtgaggggaatgtgacactgggggcaaggaccaacttcc Alignment from Spaln_aa2Genome GGGCAAGGCCACC---AACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG taccaggagatttgtggcaatcagaaagctgttttgtttttgtttttaagACTAGGCAAGGCCACCAACTCAGAGGATGTGAAGGATGAAGAGGAAGCCAAACAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAAACCAAGCGGAAGCTGGAACATCTACGACAGgtaggtgacaggtgaggggaatgtgacactgggggcaaggaccaacttcc Alignment from Spaln_nt2Genome CTGGGCAAGGCC-ACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG taccaggagatttgtggcaatcagaaagctgttttgtttttgtttttaagACTAGGCAAGGCCACCAACTCAGAGGATGTGAAGGATGAAGAGGAAGCCAAACAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAAACCAAGCGGAAGCTGGAACATCTACGACAGgtaggtgacaggtgaggggaatgtgacactgggggcaaggaccaacttcc Alignment from Pairagon GCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG taccaggagatttgtggcaatcagaaagctgttttgtttttgtttttaagactagGCAAGGCCACCAACTCAGAGGATGTGAAGGATGAAGAGGAAGCCAAACAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAAACCAAGCGGAAGCTGGAACATCTACGACAGgtaggtgacaggtgaggggaatgtgacactgggggcaaggaccaacttcc Alignment from Exonerate_protein2genome G---GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG taccaggagatttgtggcaatcagaaagctgttttgtttttgtttttaagACTAGGCAAGGCCACCAACTCAGAGGATGTGAAGGATGAAGAGGAAGCCAAACAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAAACCAAGCGGAAGCTGGAACATCTACGACAGgtaggtgacaggtgaggggaatgtgacactgggggcaaggaccaacttcc Alignment from Exonerate_coding2genome G---GGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG taccaggagatttgtggcaatcagaaagctgttttgtttttgtttttaagACTAGGCAAGGCCACCAACTCAGAGGATGTGAAGGATGAAGAGGAAGCCAAACAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAAACCAAGCGGAAGCTGGAACATCTACGACAGgtaggtgacaggtgaggggaatgtgacactgggggcaaggaccaacttcc Alignment from GeneWise -CTGGGCAAGGCCACCAACTCGGAGGACGTGAAGGAGGAAGAGGAGGCCAAACAGTATCGAGAGTTCCAGAACCGACAAGTACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAGACCAAGCGGAAGCTGGAGCATCTACGACAG taccaggagatttgtggcaatcagaaagctgttttgtttttgtttttaagACTAGGCAAGGCCACCAACTCAGAGGATGTGAAGGATGAAGAGGAAGCCAAACAGTATAGGGAGTTCCAGAACCAAAAAGCACAGAGCCTGTTGGAGCTGAGGGAAGCCCAGGCAGATGTGGAAACCAAGCGGAAGCTGGAACATCTACGACAGgtaggtgacaggtgaggggaatgtgacactgggggcaaggaccaacttcc #### Plcb3_ID1913_18 --> 2 - 0 Original Alignment atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG atctctggctgtcccatgcttagaccctgatcctctcatctctcttccagatTTGCCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTC---gtaatgagcgggccaggcttggcatagggtgttttgaggaggatacaaca Alignment from CESAR atTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG atctctggctgtcccatgcttagaccctgatcctctcatctctcttccagatTTGCCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTC---gtaatgagcgggccaggcttggcatagggtgttttgaggaggataca Alignment from Spaln_aa2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTC atctctggctgtcccatgcttagaccctgatcctctcatctctcttccagATTTGCCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCgtaatgagcgggccaggcttggcatagggtgttttgaggaggatacaaca Alignment from Spaln_nt2Genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTC--AA------G atctctggctgtcccatgcttagaccctgatcctctcatctctcttccagATTTGCCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCGTAATGAGCGGgccaggcttggcatagggtgttttgaggaggatacaaca Alignment from Pairagon ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTC-------------------------------------------------- atctctggctgtcccatgcttagaccctgatcctctcatctctcttccagATTTGCCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCGTAATGAGCGGGCCAGGCTTGGCATAGGGTGTTTTGAGGAGGATACAACA Alignment from Exonerate_protein2genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG atctctggctgtcccatgcttagaccctgatcctctcatctctcttccagATTTGCCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCGTAatgagcgggccaggcttggcatagggtgttttgaggaggatacaaca Alignment from Exonerate_coding2genome ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAG atctctggctgtcccatgcttagaccctgatcctctcatctctcttccagATTTGCCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGGGTCGTAatgagcgggccaggcttggcatagggtgttttgaggaggatacaaca Alignment from GeneWise ATTTGCCAATGCAGCTCAACGCAGGCGTGTTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCCGAGTTTATGCGGCGGCCGGACAAGTCTTTTGATCCCTTCACTGAGGTCATCGTAGATGGCATAGTGGCCAACGCCTTGCGGGTCAAGGTG atctctggctgtcccatgcttagaccctgatcctctcatctctcttccagATTTGCCAATGCAGCTCAACGCAGGCGTGGTTGAGTACAATGGGCGCAGCGGGTACTTGCTCAAGCCTGAGTTTATGCGGCGGCCGGACAAATCTTTTGATCCCTTCGCTGAGGTCATTGTAGATGGCATAGTGGCCAACGCGTTGCGG------GTCgtaatgagcgggccaggcttggcatagggtgttttgaggaggatacaaca #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg gaaaatgatgcttctttttctatgaaataatgcatttttctgtgttacagg---AACAGACAACAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGggtaggcgagctctagccctagcttagggatttttgccaagtaaagcaatt Alignment from CESAR aTACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg gtagaaaatgatgcttctttttctaaataatgcatttttctgtgttacagg---AACAGACAACAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGggtaggcgagctctagccctagcttagggatttttgccaagtaaagcaatt Alignment from Spaln_aa2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gaaaatgatgcttctttttctatgaaataatgcatttttctgtgttacagG---AACAGACAACAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtaggcgagctctagccctagcttagggatttttgccaagtaaagcaatt Alignment from Spaln_nt2Genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gaaaatgatgcttctttttctatgaaataatgcatttttctgtgttacag---GAACAGACAACAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtaggcgagctctagccctagcttagggatttttgccaagtaaagcaatt Alignment from Pairagon ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gaaaatgatgcttctttttctatgaaataatgcatttttctgtgttacag---GAACAGACAACAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtaggcgagctctagccctagcttagggatttttgccaagtaaagcaatt Alignment from Exonerate_protein2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gaaaatgatgcttctttttctatgaaataatgcatttttctgtgttacagG---AACAGACAACAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtaggcgagctctagccctagcttagggatttttgccaagtaaagcaatt Alignment from Exonerate_coding2genome ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gaaaatgatgcttctttttctatgaaataatgcatttttctgtgttacagG---AACAGACAACAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtaggcgagctctagccctagcttagggatttttgccaagtaaagcaatt Alignment from GeneWise ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG gaaaatgatgcttctttttctatgaaataatgcatttttctgtgttacagG---AACAGACAACAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCACCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtaggcgagctctagccctagcttagggatttttgccaagtaaagcaatt #### Plcb3_ID1915_16 --> 2 - 2 Original Alignment aaAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga gggtctgccaggccatggctccctacctcatctcttgtctttgatggcagaa---------TGCTTTAGGATGTCATCCTTCGTGGAAACCAAAGCAATGGACCAATTGACCAAGAGTCCTATGGAGTTTGTGgagtgagttcaccaataccatggctagtgcggggccaggagtactacctggt Alignment from CESAR aaAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGga cagggagctgggtctgccaggccatcctcatctcttgtctttgatggcagaa---------TGCTTTAGGATGTCATCCTTCGTGGAAACCAAAGCAATGGACCAATTGACCAAGAGTCCTATGGAGTTTGTGgagtgagttcaccaataccatggctagtgcggggccaggagtactacctggt Alignment from Spaln_aa2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gggtctgccaggccatggctccctacctcatctcttgtctttgatggcagAA---------TGCTTTAGGATGTCATCCTTCGTGGAAACCAAAGCAATGGACCAATTGACCAAGAGTCCTATGGAGTTTGTGGAgtgagttcaccaataccatggctagtgcggggccaggagtactacctggt Alignment from Spaln_nt2Genome AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gggtctgccaggccatggctccctacctcatctcttgtctttgatggcagAA---------TGCTTTAGGATGTCATCCTTCGTGGAAACCAAAGCAATGGACCAATTGACCAAGAGTCCTATGGAGTTTGTGGAgtgagttcaccaataccatggctagtgcggggccaggagtactacctggt Alignment from Pairagon AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gggtctgccaggccatggctccctacctcatctcttgtctttgatggcagaatgctttag-------------------GATGTCATCCTTCGTGGAAACCAAAGCAATGGACCAATTGACCAAGAGTCCTATGGAGTTTGTGGAgtgagttcaccaataccatggctagtgcggggccaggagtactacctggt Alignment from Exonerate_protein2genome AGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gggtctgccaggccatggctccctacctcatctcttgtctttgatggcagAATGCTTTAGGATGTCATCCTTCGTGGAAACCAAAGCAATGGACCAATTGACCAAGAGTCCTATGGAGTTTGTGGAgtgagttcaccaataccatggctagtgcggggccaggagtactacctggt Alignment from Exonerate_coding2genome AGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gggtctgccaggccatggctccctacctcatctcttgtctttgatggcagAATGCTTTAGGATGTCATCCTTCGTGGAAACCAAAGCAATGGACCAATTGACCAAGAGTCCTATGGAGTTTGTGGAgtgagttcaccaataccatggctagtgcggggccaggagtactacctggt Alignment from GeneWise AAAGGAACAAGTGCTTCGAGATGTCATCCTTCGTGGAGACCAAGGCAATGGAGCAACTGACCAAGAGTCCTATGGAGTTTGTGGA gggtctgccaggccatggctccctacctcatctcttgtctttgatggcagAA---------TGCTTTAGGATGTCATCCTTCGTGGAAACCAAAGCAATGGACCAATTGACCAAGAGTCCTATGGAGTTTGTGGAgtgagttcaccaataccatggctagtgcggggccaggagtactacctggt #### Plcb3_ID1919_12 --> 1 - 0 Original Alignment g---------GCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG atcggccttagacccctgcagagccctgaacttccttcttgccttcacagaGATGGGGACGCAAAGCAGCAC---AAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTCATTGACCCTCTTGACAAATACCCAgtaagtgaaagtttggactggatccaggcatatgaaggtgaagggagctc Alignment from CESAR g---------GCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG atcggccttagacccctgcagagccctgaacttccttcttgccttcacagaGATGGGGACGCAAAGCAGCAC---AAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTCATTGACCCTCTTGACAAATACCCAgtaagtgaaagtttggactggatccaggcatatgaaggtgaagggagctc Alignment from Spaln_aa2Genome -GACTCGGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG atcggccttagacccctgcagagccctgaacttccttcttgccttcacagAGATGGGGACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTCATTGACCCTCTTGACAAATACCCAgtaagtgaaagtttggactggatccaggcatatgaaggtgaagggagctc Alignment from Spaln_nt2Genome ----GGCAAAGCA--GCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG atcggccttagacccctgcagagccctgaacttccttcttgccttcacagAGATGGGGACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTCATTGACCCTCTTGACAAATACCCAgtaagtgaaagtttggactggatccaggcatatgaaggtgaagggagctc Alignment from Pairagon ---------GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG atcggccttagacccctgcagagccctgaacttccttcttgccttcacagAGATGGGGACGCAAAGCAGCA---CAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTCATTGACCCTCTTGACAAATACCCAgtaagtgaaagtttggactggatccaggcatatgaaggtgaagggagctc Alignment from Exonerate_protein2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG atcggccttagacccctgcagagccctgaacttccttcttgccttcacagagatggGGACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTCATTGACCCTCTTGACAAATACCCAgtaagtgaaagtttggactggatccaggcatatgaaggtgaagggagctc Alignment from Exonerate_coding2genome GGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG atcggccttagacccctgcagagccctgaacttccttcttgccttcacagagatggGGACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTCATTGACCCTCTTGACAAATACCCAgtaagtgaaagtttggactggatccaggcatatgaaggtgaagggagctc Alignment from GeneWise ----TCGGCAAAGCAGCAGGCCAAGATGGCTGAGTACTGCCGCTCTATCTTTGGGGATGCGCTGCTCATTGACCCTCTCGACAAATACCCG atcggccttagacccctgcagagccctgaacttccttcttgccttcacagAGATGGGGACGCAAAGCAGCACAAGATGGCTGAATACTGCCGCTCTATCTTTGGGGATGCACTACTCATTGACCCTCTTGACAAATACCCAgtaagtgaaagtttggactggatccaggcatatgaaggtgaagggagctc #### Plcb3_ID1923_8 --> 1 - 2 Original Alignment tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGat tttggaactggctgaccaagattctcacttaaatactttcatatctatagtGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTG---atgtgaccagtaacttggaaatggattccatagggtggactctgtctccagt Alignment from CESAR tGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGat tttggaactggctgaccaagattctcacttaaatactttcatatctatagtGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTG---atgtgaccagtaacttggaaatggattccatagggtggactctgtctccagt Alignment from Spaln_aa2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGA tttggaactggctgaccaagattctcacttaaatactttcatatctatagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGATgtgaccagtaacttggaaatggattccatagggtggactctgtctccagt Alignment from Spaln_nt2Genome TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tttggaactggctgaccaagattctcacttaaatactttcatatctatagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCT---GATgtgaccagtaacttggaaatggattccatagggtggactctgtctccagt Alignment from Pairagon TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tttggaactggctgaccaagattctcacttaaatactttcatatctatagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCT---GATgtgaccagtaacttggaaatggattccatagggtggactctgtctccagt Alignment from Exonerate_protein2genome tttggaactggctgaccaagattctcacttaaatactttcatatctatagtgaatccattcgccctgatgaatttcccttggaagtttttgagcggttcttgaataaactgtgtctgcgcccagatattgacaagatcctgctgatgtgaccagtaacttggaaatggattccatagggtggactctgtctccagt Alignment from Exonerate_coding2genome tttggaactggctgaccaagattctcacttaaatactttcatatctatagtgaatccattcgccctgatgaatttcccttggaagtttttgagcggttcttgaataaactgtgtctgcgcccagatattgacaagatcctgctgatgtgaccagtaacttggaaatggattccatagggtggactctgtctccagt Alignment from GeneWise TGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGA tttggaactggctgaccaagattctcacttaaatactttcatatctatagTGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGATgtgaccagtaacttggaaatggattccatagggtggactctgtctccagt #### Plcb3_ID1924_7 --> 1 - 2 Original Alignment c---ATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt ttctgctgcctgcccattcattgacgctcacacgtccctctccccaccagcACAATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTAGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGGgtgtaaatgtcagggccagggtgtgggttaggcaggatgggcttttgcaatt Alignment from CESAR c---ATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAgt ttctgctgcctgcccattcattgacgctcacacgtccctctccccaccagcACAATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTAGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGGgtgtaaatgtcagggccagggtgtgggttaggcaggatgggcttttgcaatt Alignment from Spaln_aa2Genome C---ATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ttctgctgcctgcccattcattgacgctcacacgtccctctccccaccagCACAATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTAGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGGGTgtaaatgtcagggccagggtgtgggttaggcaggatgggcttttgcaatt Alignment from Spaln_nt2Genome CATTCTGAAG---ATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ttctgctgcctgcccattcattgacgctcacacgtccctctccccaccagCACAATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTAGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGGGTgtaaatgtcagggccagggtgtgggttaggcaggatgggcttttgcaatt Alignment from Pairagon C---ATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ttctgctgcctgcccattcattgacgctcacacgtccctctccccaccagCACAATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTAGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGGGTgtaaatgtcagggccagggtgtgggttaggcaggatgggcttttgcaatt Alignment from Exonerate_protein2genome ttctgctgcctgcccattcattgacgctcacacgtccctctccccaccagcacaattctgaagatgttctcggcggacaagaagcgggtagagactgcgctggagtcctgtggcctcaacttaaaccgggtgtaaatgtcagggccagggtgtgggttaggcaggatgggcttttgcaatt Alignment from Exonerate_coding2genome ttctgctgcctgcccattcattgacgctcacacgtccctctccccaccagcacaattctgaagatgttctcggcggacaagaagcgggtagagactgcgctggagtcctgtggcctcaacttaaaccgggtgtaaatgtcagggccagggtgtgggttaggcaggatgggcttttgcaatt Alignment from GeneWise -AACATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGT ttctgctgcctgcccattcattgacgctcacacgtccctctccccaccagCACAATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTAGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGGGTgtaaatgtcagggccagggtgtgggttaggcaggatgggcttttgcaatt #### Plcb3_ID1928_3 --> 0 - 0 Original Alignment GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG aagatcaccttgtacctttaaggtataaaatatgtctgttccttccaaagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCC---gtaagtagtcggttagtattacagctgaataagcgccacggttaagatca Alignment from CESAR GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG aagatcaccttgtacctttaaggtataaaatatgtctgttccttccaaagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCC---gtaagtagtcggttagtattacagctgaataagcgccacggttaaga Alignment from Spaln_aa2Genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCC aagatcaccttgtacctttaaggtataaaatatgtctgttccttccaaagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCgtaagtagtcggttagtattacagctgaataagcgccacggttaagatca Alignment from Spaln_nt2Genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCA-AG aagatcaccttgtacctttaaggtataaaatatgtctgttccttccaaagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCGTAAgtagtcggttagtattacagctgaataagcgccacggttaagatca Alignment from Pairagon GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCC aagatcaccttgtacctttaaggtataaaatatgtctgttccttccaaagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCgtaagtagtcggttagtattacagctgaataagcgccacggttaagatca Alignment from Exonerate_protein2genome aagatcaccttgtacctttaaggtataaaatatgtctgttccttccaaaggaggtggacacactggatatcagctccatcagagacacaagaacaggtcgttatgcccgcctgcccgtaagtagtcggttagtattacagctgaataagcgccacggttaagatca Alignment from Exonerate_coding2genome aagatcaccttgtacctttaaggtataaaatatgtctgttccttccaaaggaggtggacacactggatatcagctccatcagagacacaagaacaggtcgttatgcccgcctgcccgtaagtagtcggttagtattacagctgaataagcgccacggttaagatca Alignment from GeneWise GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG------------ aagatcaccttgtacctttaaggtataaaatatgtctgttccttccaaagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCGTAAGTAGTCGGTTAgtattacagctgaataagcgccacggttaagatca #### Pnlip_ID12748_7 --> 2 - 1 Original Alignment gaTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAg ataatgttgggggtgcatctctctaatggagcccgtgactctggttttagga---------AGCCAGACTGTGGGTCACTTAGATTTCTTTCCGAATGAAGGTATTGAAATGCCAGGATGCCAGAAAAATATTCTTTCCCAAATTGTTGATATCGACGGGATCTGGGAAggtgagtattatgtgcatgaatttatcttaattgaggtatgcattgtgaat Alignment from CESAR gaTTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAg gagctttggataatgttgggggtgcatggagcccgtgactctggttttagga---------AGCCAGACTGTGGGTCACTTAGATTTCTTTCCGAATGAAGGTATTGAAATGCCAGGATGCCAGAAAAATATTCTTTCCCAAATTGTTGATATCGACGGGATCTGGGAAggtgagtattatgtgcatgaatttatcttaattgaggtatgcattgtgaat Alignment from Spaln_aa2Genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG ataatgttgggggtgcatctctctaatggagcccgtgactctggttttagGA---------AGCCAGACTGTGGGTCACTTAGATTTCTTTCCGAATGAAGGTATTGAAATGCCAGGATGCCAGAAAAATATTCTTTCCCAAATTGTTGATATCGACGGGATCTGGGAAGgtgagtattatgtgcatgaatttatcttaattgaggtatgcattgtgaat Alignment from Spaln_nt2Genome A--AT GA-GCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG ATAATgttgggggtgcatctctctaatggagcccgtgactctggttttagGAAGCCAGACTGTGGGTCACTTAGATTTCTTTCCGAATGAAGGTATTGAAATGCCAGGATGCCAGAAAAATATTCTTTCCCAAATTGTTGATATCGACGGGATCTGGGAAGgtgagtattatgtgcatgaatttatcttaattgaggtatgcattgtgaat Alignment from Pairagon GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG ataatgttgggggtgcatctctctaatggagcccgtgactctggttttagGA---------AGCCAGACTGTGGGTCACTTAGATTTCTTTCCGAATGAAGGTATTGAAATGCCAGGATGCCAGAAAAATATTCTTTCCCAAATTGTTGATATCGACGGGATCTGGGAAGgtgagtattatgtgcatgaatttatcttaattgaggtatgcattgtgaat Alignment from Exonerate_protein2genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG ataatgttgggggtgcatctctctaatggagcccgtgactctggTTTTAGGA---AGCCAGACTGTGGGTCACTTAGATTTCTTTCCGAATGAAGGTATTGAAATGCCAGGATGCCAGAAAAATATTCTTTCCCAAATTGTTGATATCGACGGGATCTGGGAAGgtgagtattatgtgcatgaatttatcttaattgaggtatgcattgtgaat Alignment from Exonerate_coding2genome GATTTGGAATGAGCCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG ataatgttgggggtgcatctctctaatggagcccgtgactctggTTTTAGGA---AGCCAGACTGTGGGTCACTTAGATTTCTTTCCGAATGAAGGTATTGAAATGCCAGGATGCCAGAAAAATATTCTTTCCCAAATTGTTGATATCGACGGGATCTGGGAAGgtgagtattatgtgcatgaatttatcttaattgaggtatgcattgtgaat Alignment from GeneWise CCAGACTGTGGGTCACTTAGATTTCTTTCCAAACGGAGGAATCGAAATGCCAGGATGCCAGAAGAATATTCTTTCCCAAATTGTTGACATCGACGGGATCTGGGAAG ataatgttgggggtgcatctctctaatggagcccgtgactctggttttaggaagCCAGACTGTGGGTCACTTAGATTTCTTTCCGAATGAAGGTATTGAAATGCCAGGATGCCAGAAAAATATTCTTTCCCAAATTGTTGATATCGACGGGATCTGGGAAGgtgagtattatgtgcatgaatttatcttaattgaggtatgcattgtgaat #### Pnlip_ID12751_10 --> 2 - 2 Original Alignment gtTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCaa tgcagaaacttttccctcccagataacaactagattgcattgtcttccaggtTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAA------aagtaagatgagacaaaaatagaaagcatcacacagctctttttatatctaa Alignment from CESAR gtTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCaa tgcagaaacttttccctcccagataacaactagattgcattgtcttccaggtTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAA------aagtaagatgagacaaaaatagaaagcatcacacagctctttttatatctaa Alignment from Spaln_aa2Genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGT tgcagaaacttttccctcccagataacaactagattgcattgtcttccagGTTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAAAgtaagatgagacaaaaatagaaagcatcacacagctctttttatatctaa Alignment from Spaln_nt2Genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGT tgcagaaacttttccctcccagataacaactagattgcattgtcttccagGTTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAAAgtaagatgagacaaaaatagaaagcatcacacagctctttttatatctaa Alignment from Pairagon GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA tgcagaaacttttccctcccagataacaactagattgcattgtcttccagGTTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAA------AAgtaagatgagacaaaaatagaaagcatcacacagctctttttatatctaa Alignment from Exonerate_protein2genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA tgcagaaacttttccctcccagataacaactagattgcattgtcttccagGTTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAA------AAgtaagatgagacaaaaatagaaagcatcacacagctctttttatatctaa Alignment from Exonerate_coding2genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA tgcagaaacttttccctcccagataacaactagattgcattgtcttccagGTTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAA------AAgtaagatgagacaaaaatagaaagcatcacacagctctttttatatctaa Alignment from GeneWise GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGT tgcagaaacttttccctcccagataacaactagattgcattgtcttccagGTTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAAAgtaagatgagacaaaaatagaaagcatcacacagctctttttatatctaa #### Pnlip_ID12752_11 --> 1 - 2 Original Alignment gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGA---------gt gtctcttcaaacatatccacaatgctttgattgcatttctcctatcctaggGGCTCTCTGCAGCCAGGTACTTCGCATGGCAATGAATTTGACTCTGAT------GTTGGAGATTTGCAGAAGGTTAAATTTATCTGGTACAACAATGTGATAAACCCAACTCTGCCAAAAGTGGGAGCATCAAGGATTACAGTGGAAAGAAATGATGGCAGATTGGAGATGgtgtatgttacttgtgtagtatcagtcctaaagctagcaggacttagagact Alignment from CESAR gGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGA---------gt gtctcttcaaacatatccacaatgctttgattgcatttctcctatcctaggGGCTCTCTGCAGCCAGGTACTTCGCATGGCAATGAATTTGACTCT------GATGTTGGAGATTTGCAGAAGGTTAAATTTATCTGGTACAACAATGTGATAAACCCAACTCTGCCAAAAGTGGGAGCATCAAGGATTACAGTGGAAAGAAATGATGGCAGATTGGAGATGgtgtatgttacttgtgtagtatcagtcctaaagctagcaggacttagagact Alignment from Spaln_aa2Genome GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGTG-------- gtctcttcaaacatatccacaatgctttgattgcatttctcctatcctagGGGCTCTCTGCAGCCAGGTACTTCGCATGGCAATGAATTTGACTCT------GATGTTGGAGATTTGCAGAAGGTTAAATTTATCTGGTACAACAATGTGATAAACCCAACTCTGCCAAAAGTGGGAGCATCAAGGATTACAGTGGAAAGAAATGATGGCAGATTGGAGATGGTgtatgttacttgtgtagtatcagtcctaaagctagcaggacttagagact Alignment from Spaln_nt2Genome GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGTG------ gtctcttcaaacatatccacaatgctttgattgcatttctcctatcctagGGGCTCTCTGCAGCCAGGTACTTCGCATGGCAATGAATTTGACTCT------GATGTTGGAGATTTGCAGAAGGTTAAATTTATCTGGTACAACAATGTGATAAACCCAACTCTGCCAAAAGTGGGAGCATCAAGGATTACAGTGGAAAGAAATGATGGCAGATTGGAGATGgtgtatgttacttgtgtagtatcagtcctaaagctagcaggacttagagact Alignment from Pairagon GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGA---------GT gtctcttcaaacatatccacaatgctttgattgcatttctcctatcctagGGGCTCTCTGCAGCCAGGTACTTCGCATGGCAATGAATTTGACTCT------GATGTTGGAGATTTGCAGAAGGTTAAATTTATCTGGTACAACAATGTGATAAACCCAACTCTGCCAAAAGTGGGAGCATCAAGGATTACAGTGGAAAGAAATGATGGCAGATTGGAGATGGTgtatgttacttgtgtagtatcagtcctaaagctagcaggacttagagact Alignment from Exonerate_protein2genome GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT gtctcttcaaacatatccacaatgctttgattgcatttctcctatcctagGGGCTCTCTGCAGCCAGGTACTTCGCATGGCAATGAATTTGACTCT------GATGTTGGAGATTTGCAGAAGGTTAAATTTATCTGGTACAACAATGTGATAAACCCAACTCTGCCAAAAGTGGGAGCATCAAGGATTACAGTGGAAAGAAATGATGGCAGATTggagatggtgtatgttacttgtgtagtatcagtcctaaagctagcaggacttagagact Alignment from Exonerate_coding2genome GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGAGT gtctcttcaaacatatccacaatgctttgattgcatttctcctatcctagGGGCTCTCTGCAGCCAGGTACTTCGCATGGCAATGAATTTGACTCT------GATGTTGGAGATTTGCAGAAGGTTAAATTTATCTGGTACAACAATGTGATAAACCCAACTCTGCCAAAAGTGGGAGCATCAAGGATTACAGTGGAAAGAAATGATGGCAGATTggagatggtgtatgttacttgtgtagtatcagtcctaaagctagcaggacttagagact Alignment from GeneWise GGGCTCTCTGCAGCCAGGTACTTCTCACGTCAATGAATTCGACTCTGATGTGGATGTTGGAGATTTGCAGAAGGTTAAATTTATTTGGTACAACAATGTGATCAACCCAACTCTACCCAAAGTGGGAGCATCAAGGATCACAGTGGAAAGAAATGATGGCAGA---------GT gtctcttcaaacatatccacaatgctttgattgcatttctcctatcctagGGGCTCTCTGCAGCCAGGTACTTCGCATGGCAATGAATTTGACTCTGATGTT------GGAGATTTGCAGAAGGTTAAATTTATCTGGTACAACAATGTGATAAACCCAACTCTGCCAAAAGTGGGAGCATCAAGGATTACAGTGGAAAGAAATGATGGCAGATTGGAGATGGTgtatgttacttgtgtagtatcagtcctaaagctagcaggacttagagact #### Pola2_ID1324_16 --> 1 - 2 Original Alignment cTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAag tagtaacctggtcttatccccccccaaactgcatctatttgttccctcagc---TCAGGGACACCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAaggtaagtgatgtccttccaaccccaagaggaatggaccatatttattagca Alignment from CESAR cTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAag gattagtaacctggtcttatcccccaaactgcatctatttgttccctcagcTCA---GGGACACCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAaggtaagtgatgtccttccaaccccaagaggaatggaccatatttattagca Alignment from Spaln_aa2Genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tagtaacctggtcttatccccccccaaactgcatctatttgttccctcagC---TCAGGGACACCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtaagtgatgtccttccaaccccaagaggaatggaccatatttattagca Alignment from Spaln_nt2Genome TTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tagtaacctggtcttatccccccccaaactgcatctatttgttccctcagCTCAGGGACACCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtaagtgatgtccttccaaccccaagaggaatggaccatatttattagca Alignment from Pairagon CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tagtaacctggtcttatccccccccaaactgcatctatttgttccctcagC---TCAGGGACACCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtaagtgatgtccttccaaccccaagaggaatggaccatatttattagca Alignment from Exonerate_protein2genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tagtaacctggtcttatccccccccaaactgcatctatttgttccctCAGCTCAGGGACACCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtaagtgatgtccttccaaccccaagaggaatggaccatatttattagca Alignment from Exonerate_coding2genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tagtaacctggtcttatccccccccaaactgcatctatttgttccctCAGCTCAGGGACACCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtaagtgatgtccttccaaccccaagaggaatggaccatatttattagca Alignment from GeneWise CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tagtaacctggtcttatccccccccaaactgcatctatttgttccctcagCTCA---GGGACACCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtaagtgatgtccttccaaccccaagaggaatggaccatatttattagca #### Pold4_ID438_3 --> 2 - 2 Original Alignment gtATCACAAGG---CTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag actgccactatgaccccctgcctgtcgctgttctattttggttgttttaggt------------------------------------------------AAGCCCCCTCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCaggtatgtatagacccagacagcttcaggggacccaaggatgtctccaggaa Alignment from CESAR gtATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCag catgccactatgaccccctgcctgtcgctgttctattttggttgttttaggt---------------------------------------------AAGCCCCCTCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCaggtatgtatagacccagacagcttcaggggacccaaggatgtctccaggaa Alignment from Spaln_aa2Genome AGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG actgccactatgaccccctgcctgtcgctgttctattttggttgttttagGT---------AAGCCCCCTCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCAGgtatgtatagacccagacagcttcaggggacccaaggatgtctccaggaa Alignment from Spaln_nt2Genome CTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG actgccactatgaccccctgcctgtcgctgttctattttggttgttttagGT--AAGCCCCCTCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCAGgtatgtatagacccagacagcttcaggggacccaaggatgtctccaggaa Alignment from Pairagon GTATCACAAGGCTGCAGCGCTGGAGTCGGGCAGAGCAGATGGGCTTGAAGCCCCCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGCAG actgccactatgaccccctgcctgtcgctgttctattttggttgttttagGT---------------------------------------------AAGCCCCCTCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCAGgtatgtatagacccagacagcttcaggggacccaaggatgtctccaggaa Alignment from Exonerate_protein2genome actgccactatgaccccctgcctgtcgctgttctattttggttgttttaggtaagccccctctagaggtgtatccagtgttgaaggcacaccctgaagaccctcactaccaatgcaggtatgtatagacccagacagcttcaggggacccaaggatgtctccaggaa Alignment from Exonerate_coding2genome actgccactatgaccccctgcctgtcgctgttctattttggttgttttaggtaagccccctctagaggtgtatccagtgttgaaggcacaccctgaagaccctcactaccaatgcaggtatgtatagacccagacagcttcaggggacccaaggatgtctccaggaa Alignment from GeneWise ---CCCCTAGAGGTGTACCAAGTGTTGAAGGCACACCCTGAAGACCCTCACTTCCAATGC actgccactatgaccccctgcctgtcgctgttctattttggttgttttaggtaagCCCCCTCTAGAGGTGTATCCAGTGTTGAAGGCACACCCTGAAGACCCTCACTACCAATGCaggtatgtatagacccagacagcttcaggggacccaaggatgtctccaggaa #### Polr2g_ID2378_5 --> 0 - 0 Original Alignment CAT TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG CATgtagggctggggttcctggaagtcacagtgtctcctctgtttctcagTCCATACCCTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTAT---------------gtaatggagcatggagcgcacatcgctaagggagtggtgaagggtgagga Alignment from CESAR CAT TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG CATgtaagtctggggttcctggaagtcacagtgtctcctctgtttctcagTCCATACCCTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTAT---------------gtaatggagcatggagcgcacatcgctaagggagt Alignment from Spaln_aa2Genome CAT TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG CATgtagggctggggttcctggaagtcacagtgtctcctctgtttctcagTCCATACCCTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATGTAATGGAGCATGGAgcgcacatcgctaagggagtggtgaagggtgagga Alignment from Spaln_nt2Genome CAT TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACCATGGACGAG CATgtagggctggggttcctggaagtcacagtgtctcctctgtttctcagTCCATACCCTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATGTAATGGAGCATGGAgcgcacatcgctaagggagtggtgaagggtgagga Alignment from Pairagon CAT TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATA----AGACCATGGA----------------------------------- CATgtagggctggggttcctggaagtcacagtgtctcctctgtttctcagTCCATACCCTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATGTAATGGAGCATGGAGCGCACATCGCTAAGGGAGTGGTGAAGGGTGAGGA Alignment from Exonerate_protein2genome CAT TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTATAAGACC CATgtagggctggggttcctggaagtcacagtgtctcctctgtttctcagTCCATACCCTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATGTAATGgagcatggagcgcacatcgctaagggagtggtgaagggtgagga Alignment from Exonerate_coding2genome CAT TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCTTGCTAT CATgtagggctggggttcctggaagtcacagtgtctcctctgtttctcagTCCATACCCTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTGTTATgtaatggagcatggagcgcacatcgctaagggagtggtgaagggtgagga Alignment from GeneWise CAT TCCATCCCTTCAGAGATGGAGTTTGATCCAAATTCAAACCCCCCT- CATgtagggctggggttcctggaagtcacagtgtctcctctgtttctcagTCCATACCCTCAGAGATGGAGTTTGACCCAAATTCAAACCCCCCTTgttatgtaatggagcatggagcgcacatcgctaagggagtggtgaagggtgagga #### Polr2g_ID2381_2 --> 0 - 2 Original Alignment ---ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa ctcctgtcccccatgcagctggctgggtccactgttcattttcttctcagCCCATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACTGAGGTGGAGGGGACCTGCACCGGGaagtaagtttcttcttcacagcaggttctgttgaatgcatccataatgacac Alignment from CESAR ---ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGaa ctcctgtcccccatgcagctggctgggtccactgttcattttcttctcagCCCATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACTGAGGTGGAGGGGACCTGCACCGGGaagtaagtttcttcttcacagcaggttctgttgaatgcatccataatgacac Alignment from Spaln_aa2Genome ---ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA ctcctgtcccccatgcagctggctgggtccactgttcattttcttctcagCCCATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACTGAGGTGGAGGGGACCTGCACCGGGAAgtaagtttcttcttcacagcaggttctgttgaatgcatccataatgacac Alignment from Spaln_nt2Genome TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA ctcctgtcccccatgcagctggctgggtccactgttcattttctTCTCAGCCCATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACTGAGGTGGAGGGGACCTGCACCGGGAAgtaagtttcttcttcacagcaggttctgttgaatgcatccataatgacac Alignment from Pairagon TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA ctcctgtcccccatgcagctggctgggtccactgttcattttctTCTCAGCCCATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACTGAGGTGGAGGGGACCTGCACCGGGAAgtaagtttcttcttcacagcaggttctgttgaatgcatccataatgacac Alignment from Exonerate_protein2genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA ctcctgtcccccatgcagctggctgggtccactgttcattttcttctcagcccATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACTGAGGTGGAGGGGACCTGCACCGGGAAgtaagtttcttcttcacagcaggttctgttgaatgcatccataatgacac Alignment from Exonerate_coding2genome ATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA ctcctgtcccccatgcagctggctgggtccactgttcattttcttctcagcccATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACTGAGGTGGAGGGGACCTGCACCGGGAAgtaagtttcttcttcacagcaggttctgttgaatgcatccataatgacac Alignment from GeneWise TTTTATCACATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACCGAGGTGGAGGGGACCTGCACTGGGAA ctcctgtcccccatgcagctggctgggtccactgttcattttctTCTCAGCCCATTTCCCTGGAGCACGAGATCCTCCTGCACCCACGATACTTCGGTCCAAACTTGCTCAACACGGTGAAGCAGAAGCTGTTTACTGAGGTGGAGGGGACCTGCACCGGGAAgtaagtttcttcttcacagcaggttctgttgaatgcatccataatgacac #### Ppp1r32_ID2843_8 --> 0 - 0 Original Alignment GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA--- gcatggtttctgtgaagaggtgatatctctgtcttcaatatcctcaacagGGGAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACGGGATTTAGCCGAGTAAATGAAAGAACTTTAAACCCCAGACCCgtgagcggcactgggagtagggaaatgtacagtggtagatcaggggtgtg Alignment from CESAR GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA--- gcatggtttctgtgaagaggtgatatctctgtcttcaatatcctcaacagGGGAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACGGGATTTAGCCGAGTAAATGAAAGAACTTTAAACCCCAGACCCgtgagcggcactgggagtagggaaatgtacagtggtagatcaggggtgtg Alignment from Spaln_aa2Genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA--- gcatggtttctgtgaagaggtgatatctctgtcttcaatatcctcaacagGGGAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACGGGATTTAGCCGAGTAAATGAAAGAACTTTAAACCCCAGACCCgtgagcggcactgggagtagggaaatgtacagtggtagatcaggggtgtg Alignment from Spaln_nt2Genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA--- gcatggtttctgtgaagaggtgatatctctgtcttcaatatcctcaacagGGGAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACGGGATTTAGCCGAGTAAATGAAAGAACTTTAAACCCCAGACCCgtgagcggcactgggagtagggaaatgtacagtggtagatcaggggtgtg Alignment from Pairagon GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA--- gcatggtttctgtgaagaggtgatatctctgtcttcaatatcctcaacagGGGAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACGGGATTTAGCCGAGTAAATGAAAGAACTTTAAACCCCAGACCCgtgagcggcactgggagtagggaaatgtacagtggtagatcaggggtgtg Alignment from Exonerate_protein2genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA--- gcatggtttctgtgaagaggtgatatctctgtcttcaatatcctcaacagGGGAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACGGGATTTAGCCGAGTAAATGAAAGAACTTTAAACCCCAGACCCgtgagcggcactgggagtagggaaatgtacagtggtagatcaggggtgtg Alignment from Exonerate_coding2genome GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA--- gcatggtttctgtgaagaggtgatatctctgtcttcaatatcctcaacagGGGAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACGGGATTTAGCCGAGTAAATGAAAGAACTTTAAACCCCAGACCCgtgagcggcactgggagtagggaaatgtacagtggtagatcaggggtgtg Alignment from GeneWise GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGAGTG gcatggtttctgtgaagaggtgatatctctgtcttcaatatcctcaacagGGGAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACGGGATTTAGCCGAGTAAATGAAAGAACTTTAAACCCCAGACCCgtgagcggcactgggagtagggaaatgtacagtggtagatcaggggtgtg #### Prdx5_ID1852_5 --> 0 - 2 Original Alignment GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---------ag gtcctgggcctggcagaggcttctggcccccaagcccttgttctctctagGTGACAGACCTATTATTGGATGATTCTCTGGTGTCTCTCTTTGGGAACCATTGGCTGAAAAGTCGCGGGaggtaagtgagaccccttcaccccaacctcacccccatgccgattggtgcta Alignment from CESAR GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---------ag gtcctgggcctggcagaggcttctggcccccaagcccttgttctctctagGTGACAGACCTATTATTGGATGATTCTCTGGTGTCTCTCTTTGGGAACCATTGGCTGAAAAGTCGCGGGaggtaagtgagaccccttcaccccaacctcacccccatgccgattggtgcta Alignment from Spaln_aa2Genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAGG-------- gtcctgggcctggcagaggcttctggcccccaagcccttgttctctctagGTGACAGACCTATTATTGGATGATTCTCTGGTGTCTCTCTTTGGGAACCATTGGCTGAAAAGTCGCGGGAGgtaagtgagaccccttcaccccaacctcacccccatgccgattggtgcta Alignment from Spaln_nt2Genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAGG-------- gtcctgggcctggcagaggcttctggcccccaagcccttgttctctctagGTGACAGACCTATTATTGGATGATTCTCTGGTGTCTCTCTTTGGGAACCATTGGCTGAAAAGTCGCGGGAGgtaagtgagaccccttcaccccaacctcacccccatgccgattggtgcta Alignment from Pairagon GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAG--------- gtcctgggcctggcagaggcttctggcccccaagcccttgttctctctagGTGACAGACCTATTATTGGATGATTCTCTGGTGTCTCTCTTTGGGAACCATTGGCTGAAAAGTCGCGGGAGgtaagtgagaccccttcaccccaacctcacccccatgccgattggtgcta Alignment from Exonerate_protein2genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAG gtcctgggcctggcagaggcttctggcccccaagcccttgttctctctagGTGACAGACCTATTATTGGATGATTCTCTGGTGTCTCTCTTTGGGAACCATTGGCTGAAAAGtcgcgggaggtaagtgagaccccttcaccccaacctcacccccatgccgattggtgcta Alignment from Exonerate_coding2genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAG gtcctgggcctggcagaggcttctggcccccaagcccttgttctctctagGTGACAGACCTATTATTGGATGATTCTCTGGTGTCTCTCTTTGGGAACCATTGGCTGAAAAGtcgcgggaggtaagtgagaccccttcaccccaacctcacccccatgccgattggtgcta Alignment from GeneWise GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---------AG gtcctgggcctggcagaggcttctggcccccaagcccttgttctctctagGTGACAGACCTATTATTGGATGATTCTCTGGTGTCTCTCTTTGGGAACCATTGGCTGAAAAGTCGCGGGAGgtaagtgagaccccttcaccccaacctcacccccatgccgattggtgcta #### Prdx5_ID1854_3 --> 0 - 0 Original Alignment ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG taagtatctgcacctgcttttcattccctttatttctccctccaatttag---CACCTGCCTGGCTTTGTGGAGCAAGCCGGAGCTCAGAAAGCCAAGGGAGCGCAGGTAGTGGCCTGTCTAAGTGTTAATGATGTCTTTGTGATTGAGGAGTGGGGCCGAGCTCATGAAGCAGAAGGTAAGgtaaggagtctctgtggctcattgtgagggtccagggccaggtaggaagt Alignment from CESAR ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG ctataagtatctgcacctgcttttcccctttatttctccctccaatttag---CACCTGCCTGGCTTTGTGGAGCAAGCCGGAGCTCAGAAAGCCAAGGGAGCGCAGGTAGTGGCCTGTCTAAGTGTTAATGATGTCTTTGTGATTGAGGAGTGGGGCCGAGCTCATGAAGCAGAAGGTAAGgtaaggagtctctgtggctcattgtgagggtccagggccaggtaggaagt Alignment from Spaln_aa2Genome ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG taagtatctgcacctgcttttcattccctttatttctccctccaatttag---CACCTGCCTGGCTTTGTGGAGCAAGCCGGAGCTCAGAAAGCCAAGGGAGCGCAGGTAGTGGCCTGTCTAAGTGTTAATGATGTCTTTGTGATTGAGGAGTGGGGCCGAGCTCATGAAGCAGAAGGTAAGgtaaggagtctctgtggctcattgtgagggtccagggccaggtaggaagt Alignment from Spaln_nt2Genome C--CTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG taagtatctgcacctgcttttcattccctttatttctccctccaatttagCACCTGCCTGGCTTTGTGGAGCAAGCCGGAGCTCAGAAAGCCAAGGGAGCGCAGGTAGTGGCCTGTCTAAGTGTTAATGATGTCTTTGTGATTGAGGAGTGGGGCCGAGCTCATGAAGCAGAAGGTAAGgtaaggagtctctgtggctcattgtgagggtccagggccaggtaggaagt Alignment from Pairagon ACCCACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG taagtatctgcacctgcttttcattccctttatttctccctccaatttag---CACCTGCCTGGCTTTGTGGAGCAAGCCGGAGCTCAGAAAGCCAAGGGAGCGCAGGTAGTGGCCTGTCTAAGTGTTAATGATGTCTTTGTGATTGAGGAGTGGGGCCGAGCTCATGAAGCAGAAGGTAAGgtaaggagtctctgtggctcattgtgagggtccagggccaggtaggaagt Alignment from Exonerate_protein2genome CACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG taagtatctgcacctgcttttcattccctttatttctccctccaatttagCACCTGCCTGGCTTTGTGGAGCAAGCCGGAGCTCAGAAAGCCAAGGGAGCGCAGGTAGTGGCCTGTCTAAGTGTTAATGATGTCTTTGTGATTGAGGAGTGGGGCCGAGCTCATGAAGCAGAAGGTAAGgtaaggagtctctgtggctcattgtgagggtccagggccaggtaggaagt Alignment from Exonerate_coding2genome CACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG taagtatctgcacctgcttttcattccctttatttctccctccaatttagCACCTGCCTGGCTTTGTGGAGCAAGCCGGAGCTCAGAAAGCCAAGGGAGCGCAGGTAGTGGCCTGTCTAAGTGTTAATGATGTCTTTGTGATTGAGGAGTGGGGCCGAGCTCATGAAGCAGAAGGTAAGgtaaggagtctctgtggctcattgtgagggtccagggccaggtaggaagt Alignment from GeneWise CACCTGCCTGGGTTTGTGGAGCAAGCTGGAGCTCTGAAGGCCAAGGGAGCGCAGGTGGTGGCCTGTCTGAGCGTTAATGACGTCTTTGTGATTGAAGAGTGGGGTCGAGCCCACCAGGCAGAAGGCAAG taagtatctgcacctgcttttcattccctttatttctccctccaatttagCACCTGCCTGGCTTTGTGGAGCAAGCCGGAGCTCAGAAAGCCAAGGGAGCGCAGGTAGTGGCCTGTCTAAGTGTTAATGATGTCTTTGTGATTGAGGAGTGGGGCCGAGCTCATGAAGCAGAAGGTAAGgtaaggagtctctgtggctcattgtgagggtccagggccaggtaggaagt #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment ttGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA catcctagttccttatactagctgccacgtactgtatatttgttttgtagtg---------ATCCGACCCAAGCCTCCCTCTGCCACCAGTATCCCAGCCATTCTGAAGGCCTTGCAAGATGAGTGGgtaaatcctatcctgctcatgttgtctttccagGATGCAGTCATGCTGCA Alignment from CESAR ttGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA agctccctgcatcctagttccttatcacgtactgtatatttgttttgtagtg---------ATCCGACCCAAGCCTCCCTCTGCCACCAGTATCCCAGCCATTCTGAAGGCCTTGCAAGATGAGTGGgtaaatcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCA Alignment from Spaln_aa2Genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA catcctagttccttatactagctgccacgtactgtatatttgttttgtagTG---------ATCCGACCCAAGCCTCCCTCTGCCACCAGTATCCCAGCCATTCTGAAGGCCTTGCAAGATGAGTGGgtaaatcctatcctgctcatgttgtctttccagGATGCAGTCATGCTGCA Alignment from Spaln_nt2Genome TCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA catcctagttccttatactagctgccacgtactgtatatttgttttgtagT-----GATCCGACCCAAGCCTCCCTCTGCCACCAGTATCCCAGCCATTCTGAAGGCCTTGCAAGATGAGTGGgtaaatcctatcctgctcatgttgtctttccagGATGCAGTCATGCTGCA Alignment from Pairagon TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA catcctagttccttatactagctgccacgtactgtatatttgttttgtagT---------GATCCGACCCAAGCCTCCCTCTGCCACCAGTATCCCAGCCATTCTGAAGGCCTTGCAAGATGAGTGGgtaaatcctatcctgctcatgttgtctttccagGATGCAGTCATGCTGCA Alignment from Exonerate_protein2genome CAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA catcctagttccttatactagctgccacgtactgtatatttgttttgtagTGATCCGACCCAAGCCTCCCTCTGCCACCAGTATCCCAGCCATTCTGAAGGCCTTGCAAGATGAGTGGgtaaatcctatcctgctcatgttgtctttccagGATGCAGTCATGCTGCA Alignment from Exonerate_coding2genome CAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG GATGCAGTCATGCTGCA catcctagttccttatactagctgccacgtactgtatatttgttttgtagTGATCCGACCCAAGCCTCCCTCTGCCACCAGTATCCCAGCCATTCTGAAGGCCTTGCAAGATGAGTGGgtaaatcctatcctgctcatgttgtctttccagGATGCAGTCATGCTGCA Alignment from GeneWise TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG---------------------------------GATGCAGTCATGCTGCA catcctagttccttatactagctgccacgtactgtatatttgttttgtagTG---------ATCCGACCCAAGCCTCCCTCTGCCACCAGTATCCCAGCCATTCTGAAGGCCTTGCAAGATGAGTGGGTAAATCCTATCCTGCTCATGTTGTCTTTCCAGGATGCAGTCATGCTGCA #### Prpf19_ID3045_4 --> 0 - 1 Original Alignment CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAA---------------------g CCTTGCAAGATGAGTGGgtgaggcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAATGATAGACATGATGTACTTTggtgagtcatatttcatcgtaatgtccctatctgacttcctgtgtgttcca Alignment from CESAR CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAA---------------------g CCTTGCAAGATGAGTGGgtaaatcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAATGATAGACATGATGTACTTTggtgagtcatatttcatcgtaatgtccctatctgttaaatgtcaatcccaa Alignment from Spaln_aa2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAA---------------------G CCTTGCAAGATGAGTGGgtgaggcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAATGATAGACATGATGTACTTTGgtgagtcatatttcatcgtaatgtccctatctgacttcctgtgtgttcca Alignment from Spaln_nt2Genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG------------- CCTTGCAAGATGAGTGGgtgaggcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAATGATAGACATGATgtactttggtgagtcatatttcatcgtaatgtccctatctgacttcctgtgtgttcca Alignment from Pairagon CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGA------------------------------------------------------------------------- CCTTGCAAGATGAGTGGgtgaggcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAATGATAGACATGATGTACTTTGGTGAGTCATATTTCATCGTAATGTCCCTATCTGACTTCCTGTGTGTTCCA Alignment from Exonerate_protein2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CCTTGCAAGATGAGTGGgtgaggcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAAtgatagacatgatgtactttggtgagtcatatttcatcgtaatgtccctatctgacttcctgtgtgttcca Alignment from Exonerate_coding2genome CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG CCTTGCAAGATGAGTGGgtgaggcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAAtgatagacatgatgtactttggtgagtcatatttcatcgtaatgtccctatctgacttcctgtgtgttcca Alignment from GeneWise CCTTGCAGGATGAGTGG GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAA---------------------G CCTTGCAAGATGAGTGGgtgaggcctattgtgtttggtatttttttatagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAATGATAGACATGATGTACTTTGgtgagtcatatttcatcgtaatgtccctatctgacttcctgtgtgttcca #### Prpf19_ID3048_7 --> 0 - 0 Original Alignment CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG ataattatttttgtcaatcgaatgtcgcaaacacttttttcttttaacag------------------GTGTTAACCACAGAACGAAAGAAGgtatccctgtctgttatgaacatggctgcatttttggaaagaagtgtagc Alignment from CESAR CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG agcacactttgttccaaaataattacgcaaacacttttttcttttaacag------------------GTGTTAACCACAGAACGAAAGAAGgtatccctgtctgttatgaacatggctgcatttttggaaagaagtgtagc Alignment from Spaln_aa2Genome GTGCTAACCACGGAGCGTAAGAAG ataattatttttgtcaatcgaatgtcgcaaacacttttttcttttaacagGTGTTAACCACAGAACGAAAGAAGgtatccctgtctgttatgaacatggctgcatttttggaaagaagtgtagc Alignment from Spaln_nt2Genome GTGCTAACCACGGAGCGTAAGAAG ataattatttttgtcaatcgaatgtcgcaaacacttttttcttttaacagGTGTTAACCACAGAACGAAAGAAGgtatccctgtctgttatgaacatggctgcatttttggaaagaagtgtagc Alignment from Pairagon CTTCAAGACAAGGCTACTGTGCTAACCACGGAGCGTAAGAAG ataattatttttgtcaatcgaatgtcgcaaacacttttttcttttaacag------------------GTGTTAACCACAGAACGAAAGAAGgtatccctgtctgttatgaacatggctgcatttttggaaagaagtgtagc Alignment from Exonerate_protein2genome GTGCTAACCACGGAGCGTAAGAAG ataattatttttgtcaatcgaatgtcgcaaacacttttttcttttaacagGTGTTAACCACAGAACGAAAGAAGgtatccctgtctgttatgaacatggctgcatttttggaaagaagtgtagc Alignment from Exonerate_coding2genome ataattatttttgtcaatcgaatgtcgcaaacacttttttcttttaacaggtgttaaccacagaacgaaagaaggtatccctgtctgttatgaacatggctgcatttttggaaagaagtgtagc Alignment from GeneWise ataattatttttgtcaatcgaatgtcgcaaacacttttttcttttaacaggtgttaaccacagaacgaaagaaggtatccctgtctgttatgaacatggctgcatttttggaaagaagtgtagc #### Prpf19_ID3050_9 --> 0 - 1 Original Alignment GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTg gactaggcatgaacaggttcttctgtgtttacctcacctctgctctccag---------AGTGCTAGTATTCCTGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTggtaaaggtaggcctgactaacacaattaaaaggaactatgggccctccat Alignment from CESAR GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTg ctgggaggcgactaggcatgaacagtgtttacctcacctctgctctccag---------AGTGCTAGTATTCCTGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTggtaaaggtaggcctgactaacacaattaaaaggaactatgggccctccat Alignment from Spaln_aa2Genome AGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG gactaggcatgaacaggttcttctgtgtttacctcacctctgctctccagAGTGCTAGTATTCCTGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtaaaggtaggcctgactaacacaattaaaaggaactatgggccctccat Alignment from Spaln_nt2Genome AGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG gactaggcatgaacaggttcttctgtgtttacctcacctctgctctccagAGTGCTAGTATTCCTGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtaaaggtaggcctgactaacacaattaaaaggaactatgggccctccat Alignment from Pairagon GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG gactaggcatgaacaggttcttctgtgtttacctcacctctgctctccag---------AGTGCTAGTATTCCTGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtaaaggtaggcctgactaacacaattaaaaggaactatgggccctccat Alignment from Exonerate_protein2genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG gactaggcatgaacaggttcttctgtgtttacctcacctctGCTCTCCAGAGTGCTAGTATTCCTGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtaaaggtaggcctgactaacacaattaaaaggaactatgggccctccat Alignment from Exonerate_coding2genome GGTCTACACAGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG gactaggcatgaacaggttcttctgtgtttacctcacctctGCTCTCCAGAGTGCTAGTATTCCTGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtaaaggtaggcctgactaacacaattaaaaggaactatgggccctccat Alignment from GeneWise AGTGCTAGCATTCCTGGGATTCTCGCTCTGGACCTGTGTCCCTCAGACACCAACAAGATTCTCACTG gactaggcatgaacaggttcttctgtgtttacctcacctctgctctccagAGTGCTAGTATTCCTGGGATTCTTGCTCTCGACCTGTGTCCCTCAGACACTAACAAGATTCTCACTGgtaaaggtaggcctgactaacacaattaaaaggaactatgggccctccat #### Prpf19_ID3054_13 --> 2 - 0 Original Alignment ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cttcctgcagaccactgactatactatactcctgcacatgtctgctttagctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATTAAGATTTGGGAC------gtgagcagcaggggacatataggcacaacaggagggactagtggggggga Alignment from CESAR ctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cttcctgcagaccactgactatactatactcctgcacatgtctgctttagctCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATTAAGATTTGGGAC------gtgagcagcaggggacatataggcacaacaggagggactagtgg Alignment from Spaln_aa2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGAC cttcctgcagaccactgactatactatactcctgcacatgtctgctttagCTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATTAAGATTTGGGACgtgagcagcaggggacatataggcacaacaggagggactagtggggggga Alignment from Spaln_nt2Genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGAC cttcctgcagaccactgactatactatactcctgcacatgtctgctttagCTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATTAAGATTTGGGACgtgagcagcaggggacatataggcacaacaggagggactagtggggggga Alignment from Pairagon CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGAC cttcctgcagaccactgactatactatactcctgcacatgtctgctttagCTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATTAAGATTTGGGACgtgagcagcaggggacatataggcacaacaggagggactagtggggggga Alignment from Exonerate_protein2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cttcctgcagaccactgactatactatactcctgcacatgtctgctttagCTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATTAAGATTTGGGACGTGAGCagcaggggacatataggcacaacaggagggactagtggggggga Alignment from Exonerate_coding2genome CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGACTTGAAG cttcctgcagaccactgactatactatactcctgcacatgtctgctttagCTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATTAAGATTTGGGACGTGAGCagcaggggacatataggcacaacaggagggactagtggggggga Alignment from GeneWise CTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATCAAGATCTGGGAC cttcctgcagaccactgactatactatactcctgcacatgtctgctttagCTCTTACCTGTGCACAGTTCCACCCTGATGGGCTCATCTTTGGAACAGGAACCATGGACTCCCAGATTAAGATTTGGGACgtgagcagcaggggacatataggcacaacaggagggactagtggggggga #### Prpf19_ID3055_14 --> 0 - 0 Original Alignment ---GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tcctcattaagtcagtggatatttccttcttagctgctttcctctttcagGGAGAGCATACCAATGTGGCAAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGCCTTCTCTGAGAATGGGTACTACCTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGCTGGACAACAACTTTGAGgtaagttctcccccatttcttctgctctggttgagctaccacttgtgatg Alignment from CESAR ---GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tcctcattaagtcagtggatatttccttcttagctgctttcctctttcagGGAGAGCATACCAATGTGGCAAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGCCTTCTCTGAGAATGGGTACTACCTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGCTGGACAACAACTTTGAGgtaagttctcccccatttcttctgctctggttgagctaccacttgtgatg Alignment from Spaln_aa2Genome GAGCGTACCAATGTGGCCAAC---TTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tcctcattaagtcagtggatatttccttcttagctgctttcctctttcagGGAGAGCATACCAATGTGGCAAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGCCTTCTCTGAGAATGGGTACTACCTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGCTGGACAACAACTTTGAGgtaagttctcccccatttcttctgctctggttgagctaccacttgtgatg Alignment from Spaln_nt2Genome G---AGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tcctcattaagtcagtggatatttccttcttagctgctttcctctttcagGGAGAGCATACCAATGTGGCAAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGCCTTCTCTGAGAATGGGTACTACCTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGCTGGACAACAACTTTGAGgtaagttctcccccatttcttctgctctggttgagctaccacttgtgatg Alignment from Pairagon ---GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tcctcattaagtcagtggatatttccttcttagctgctttcctctttcagGGAGAGCATACCAATGTGGCAAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGCCTTCTCTGAGAATGGGTACTACCTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGCTGGACAACAACTTTGAGgtaagttctcccccatttcttctgctctggttgagctaccacttgtgatg Alignment from Exonerate_protein2genome ---GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tcctcattaagtcagtggatatttccttcttagctgctttcctctttcagGGAGAGCATACCAATGTGGCAAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGCCTTCTCTGAGAATGGGTACTACCTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGCTGGACAACAACTTTGAGgtaagttctcccccatttcttctgctctggttgagctaccacttgtgatg Alignment from Exonerate_coding2genome ---GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tcctcattaagtcagtggatatttccttcttagctgctttcctctttcagGGAGAGCATACCAATGTGGCAAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGCCTTCTCTGAGAATGGGTACTACCTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGCTGGACAACAACTTTGAGgtaagttctcccccatttcttctgctctggttgagctaccacttgtgatg Alignment from GeneWise ---GAGCGTACCAATGTGGCCAACTTCCCTGGCCATTCTGGCCCCATTACCAGCATCGCCTTCTCTGAGAATGGGTACTACCTGGCCACAGCAGCTGATGATTCCTCAGTCAAGCTCTGGGACTTACGCAAGTTGAAGAACTTCAAGACATTGCAGCTGGACAACAACTTTGAG tcctcattaagtcagtggatatttccttcttagctgctttcctctttcagGGAGAGCATACCAATGTGGCAAACTTCCCTGGCCATTCTGGCCCTATTACCAGCATTGCCTTCTCTGAGAATGGGTACTACCTGGCAACGGCAACAGATGATTCCCCAGTCAAGCTCTGGGACTTACGAAAGTTGAAGAACTTCAAAATGTTGCAGCTGGACAACAACTTTGAGgtaagttctcccccatttcttctgctctggttgagctaccacttgtgatg #### Pygm_ID1680_4 --> 2 - 0 Original Alignment ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG actcactttgggttcatacagatgtatgcctgtccctccttcccctccagct---TTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgatgcaccctgaccctaaccttgtggtgtttagtcacaataacaagac Alignment from CESAR ctTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG gttactcactttgggttcatacagaatgcctgtccctccttcccctccagct---TTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgatgcaccctgaccctaaccttgtggtgtttagtcacaataacaagac Alignment from Spaln_aa2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG actcactttgggttcatacagatgtatgcctgtccctccttcccctccagCT---TTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgatgcaccctgaccctaaccttgtggtgtttagtcacaataacaagac Alignment from Spaln_nt2Genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG actcactttgggttcatacagatgtatgcctgtccctccttcccctccagCT---TTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgatgcaccctgaccctaaccttgtggtgtttagtcacaataacaagac Alignment from Pairagon CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG actcactttgggttcatacagatgtatgcctgtccctccttcccctccagCT---TTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgatgcaccctgaccctaaccttgtggtgtttagtcacaataacaagac Alignment from Exonerate_protein2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGG actcactttgggttcatacagatgtatgcctgtccctccttcccctccagCT---TTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGGTGATGCACCCTGACCCTAACcttgtggtgtttagtcacaataacaagac Alignment from Exonerate_coding2genome CTTGCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAGATGGAAGAAGCTGATGACTGG actcactttgggttcatacagatgtatgcctgtccctccttcccctccagCT---TTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGGTGATGCACCCTGACCCTAACcttgtggtgtttagtcacaataacaagac Alignment from GeneWise GCTTTTTGGACTCCATGGCCACCCTGGGGCTCGCTGCCTATGGCTATGGGATCCGCTATGAGTTTGGGATTTTTAATCAGAAGATCTGTGGGGGCTGGCAG actcactttgggttcatacagatgtatgcctgtccctccttcccctccagCTTTTCTGGACTCTATGGCCACCCTAGGGCTTGCTGCTTATGGCTATGGGATCCGCTATGAGTTTGGAATTTTTAATCAGAAGATCTGTGGGGGTTGGCAGgtgatgcaccctgaccctaaccttgtggtgtttagtcacaataacaagac #### Pygm_ID1685_9 --> 0 - 0 Original Alignment GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG caatagtaccctctgcctagaagtcatcgtgtgcctttcttacttttcagGTGGTGATCCAACTCAATGACACACATCACTCTTTGGCCATCCCGGAGCTGATGAGGATTCCAGTAGACCTTGAACGACTAGAC---------gtgaggcttataaagaccgtcaacatcacccctggaaggacctgatctgt Alignment from CESAR GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG caatagtaccctctgcctagaagtcatcgtgtgcctttcttacttttcagGTGGTGATCCAACTCAATGACACACATCACTCTTTGGCCATCCCGGAGCTGATGAGGATTCCAGTAGACCTTGAACGACTAGAC---------gtgaggcttataaagaccgtcaacatcacccctggaaggac Alignment from Spaln_aa2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGAC caatagtaccctctgcctagaagtcatcgtgtgcctttcttacttttcagGTGGTGATCCAACTCAATGACACACATCACTCTTTGGCCATCCCGGAGCTGATGAGGATTCCAGTAGACCTTGAACGACTAGACgtgaggcttataaagaccgtcaacatcacccctggaaggacctgatctgt Alignment from Spaln_nt2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGAC caatagtaccctctgcctagaagtcatcgtgtgcctttcttacttttcagGTGGTGATCCAACTCAATGACACACATCACTCTTTGGCCATCCCGGAGCTGATGAGGATTCCAGTAGACCTTGAACGACTAGACgtgaggcttataaagaccgtcaacatcacccctggaaggacctgatctgt Alignment from Pairagon GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGAC caatagtaccctctgcctagaagtcatcgtgtgcctttcttacttttcagGTGGTGATCCAACTCAATGACACACATCACTCTTTGGCCATCCCGGAGCTGATGAGGATTCCAGTAGACCTTGAACGACTAGACgtgaggcttataaagaccgtcaacatcacccctggaaggacctgatctgt Alignment from Exonerate_protein2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG caatagtaccctctgcctagaagtcatcgtgtgcctttcttacttttcagGTGGTGATCCAACTCAATGACACACATCACTCTTTGGCCATCCCGGAGCTGATGAGGATTCCAGTAGACCTTGAACGACTAGACGTGAGGCTTataaagaccgtcaacatcacccctggaaggacctgatctgt Alignment from Exonerate_coding2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG caatagtaccctctgcctagaagtcatcgtgtgcctttcttacttttcagGTGGTGATCCAACTCAATGACACACATCACTCTTTGGCCATCCCGGAGCTGATGAGGATTCCAGTAGACCTTGAACGACTAGACGTGAGGCTTataaagaccgtcaacatcacccctggaaggacctgatctgt Alignment from GeneWise GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGAC------TGGGACAAGGCC caatagtaccctctgcctagaagtcatcgtgtgcctttcttacttttcagGTGGTGATCCAACTCAATGACACACATCACTCTTTGGCCATCCCGGAGCTGATGAGGATTCCAGTAGACCTTGAACGACTAGACGTGAGGCTTATAAAGACCgtcaacatcacccctggaaggacctgatctgt #### Pygm_ID1687_11 --> 0 - 2 Original Alignment CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat ggaagaccactgaagctgggtcatgactagctctggggacactgttccag------GCAGCTGCGTTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGACGTATCAATATGTCTCACCTGTGCATTGCTGGCTCACATGCTGTCAATAGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCatgtaagatctccagaagcaaaaacaccttaaaaacctctcttctgagatag Alignment from CESAR CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat aaaagaggaagaccactgaagctggactagctctggggacactgttccag------GCAGCTGCGTTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGACGTATCAATATGTCTCACCTGTGCATTGCTGGCTCACATGCTGTCAATAGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCatgtaagatctccagaagcaaaaacaccttaaaaacctctcttctgagatag Alignment from Spaln_aa2Genome CTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT ggaagaccactgaagctgggtcatgactagctctggggacactgttccaggcagCTGCGTTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGACGTATCAATATGTCTCACCTGTGCATTGCTGGCTCACATGCTGTCAATAGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtaagatctccagaagcaaaaacaccttaaaaacctctcttctgagatag Alignment from Spaln_nt2Genome GCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT ggaagaccactgaagctgggtcatgactagctctggggacactgttccagGCAGCTGCGTTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGACGTATCAATATGTCTCACCTGTGCATTGCTGGCTCACATGCTGTCAATAGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtaagatctccagaagcaaaaacaccttaaaaacctctcttctgagatag Alignment from Pairagon CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT ggaagaccactgaagctgggtcatgactagctctggggacactgttccag------GCAGCTGCGTTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGACGTATCAATATGTCTCACCTGTGCATTGCTGGCTCACATGCTGTCAATAGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtaagatctccagaagcaaaaacaccttaaaaacctctcttctgagatag Alignment from Exonerate_protein2genome CTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT ggaagaccactgaagctgggtcatgactagctctggggacactgttccaggcagCTGCGTTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGACGTATCAATATGTCTCACCTGTGCATTGCTGGCTCACATGCTGTCAATAGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtaagatctccagaagcaaaaacaccttaaaaacctctcttctgagatag Alignment from Exonerate_coding2genome CTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT ggaagaccactgaagctgggtcatgactagctctggggacactgttccaggcagCTGCGTTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGACGTATCAATATGTCTCACCTGTGCATTGCTGGCTCACATGCTGTCAATAGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtaagatctccagaagcaaaaacaccttaaaaacctctcttctgagatag Alignment from GeneWise CTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT ggaagaccactgaagctgggtcatgactagctctggggacactgttccaggcagCTGCGTTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGACGGAGCAGTGAGACGTATCAATATGTCTCACCTGTGCATTGCTGGCTCACATGCTGTCAATAGTGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtaagatctccagaagcaaaaacaccttaaaaacctctcttctgagatag #### Pygm_ID1695_19 --> 1 - 0 Original Alignment gTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG gacctggcctttgcccttacagagctgtttacttttatttctctccacagaTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTA------gtgagttggatctgtccagcaaccaggggttgggagagccttgactcttg Alignment from CESAR gTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG gacctggcctttgcccttacagagctgtttacttttatttctctccacagaTTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTA------gtgagttggatctgtccagcaaccaggggttgggagagccttga Alignment from Spaln_aa2Genome GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTG gacctggcctttgcccttacagagctgtttacttttatttctctccacagATTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTAgtgagttggatctgtccagcaaccaggggttgggagagccttgactcttg Alignment from Spaln_nt2Genome GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTG gacctggcctttgcccttacagagctgtttacttttatttctctccacagATTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTAgtgagttggatctgtccagcaaccaggggttgggagagccttgactcttg Alignment from Pairagon GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTG gacctggcctttgcccttacagagctgtttacttttatttctctccacagATTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTAgtgagttggatctgtccagcaaccaggggttgggagagccttgactcttg Alignment from Exonerate_protein2genome GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG gacctggcctttgcccttacagagctgtttacttttatttctctccacagATTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTAGTGAGTtggatctgtccagcaaccaggggttgggagagccttgactcttg Alignment from Exonerate_coding2genome GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGAGTTGTACAAG gacctggcctttgcccttacagagctgtttacttttatttctctccacagATTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGGTTAGTGAGTtggatctgtccagcaaccaggggttgggagagccttgactcttg Alignment from GeneWise GTTTAAAGTCTTTGCAGATTATGAGGAATACATTAAATGCCAGGACAAAGTCAGT-- gacctggcctttgcccttacagagctgtttacttttatttctctccacagATTTAAAGTCTTTGTAGATCATGAGGAATACATTAAATGCCAGGACAAAGTCAGTGGgttagtgagttggatctgtccagcaaccaggggttgggagagccttgactcttg #### Rce1_ID575_7 --> 2 - 1 Original Alignment cgTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg ttgagggtatgtgggtgtgtttgtgtggtctgctctctttctttaactagcgTTTCAGTTCTCCTACACTGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATT------ggtaagtaagttacaccatctcatcatggatcgaggcaaaggtttgatcac Alignment from CESAR cgTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCACAg ttgagggtatgtgggtgtgtttgtgtggtctgctctctttctttaactagcgTTTCAGTTCTCCTACACTGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATT------ggtaagtaagttacaccatctcatcatggatcgaggcaaaggtttgatcac Alignment from Spaln_aa2Genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATC- ttgagggtatgtgggtgtgtttgtgtggtctgctctctttctttaactagCGTTTCAGTTCTCCTACACTGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATTGgtaagtaagttacaccatctcatcatggatcgaggcaaaggtttgatcac Alignment from Spaln_nt2Genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCC GCACAG ttgagggtatgtgggtgtgtttgtgtggtctgctctctttctttaactagCGTTTCAGTTCTCCTACACTGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATTGgtaagtaagttacaccatctcatcatggatcgagGCAAAGgtttgatcac Alignment from Pairagon CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCC ttgagggtatgtgggtgtgtttgtgtggtctgctctctttctttaactagCGTTTCAGTTCTCCTACACTGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATTGgtaagtaagttacaccatctcatcatggatcgaggcaaaggtttgatcac Alignment from Exonerate_protein2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCAC ttgagggtatgtgggtgtgtttgtgtggtctgctctctttctttaactagCGTTTCAGTTCTCCTACACTGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATTGGTAAgtaagttacaccatctcatcatggatcgaggcaaaggtttgatcac Alignment from Exonerate_coding2genome CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCCGCAC ttgagggtatgtgggtgtgtttgtgtggtctgctctctttctttaactagCGTTTCAGTTCTCCTACACTGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATTGGTAAgtaagttacaccatctcatcatggatcgaggcaaaggtttgatcac Alignment from GeneWise CGTTCCAGTTCTCCTACACCGCTGTCTTCGGTGCTTATACAGCTTTCCTCTTCATCC ttgagggtatgtgggtgtgtttgtgtggtctgctctctttctttaactagCGTTTCAGTTCTCCTACACTGCTGTCTTCGGTGCTTATACAGCCTTCCTCTTCATTGgtaagtaagttacaccatctcatcatggatcgaggcaaaggtttgatcac #### Rce1_ID576_6 --> 2 - 1 Original Alignment TCTTTTTTGGAGTCg ccCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCA------g TCTTTTTTGGAGTTggtaagtctcaccttgtgtccctgccccctttgcagccCATTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGTATCTTTGTGTCTGCAGGATTTggtgagtccctggaaacatacttagttgaccagggggacaaagggtagagt Alignment from CESAR TCTTTTTTGGAGTCg ccCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCA------g TCTTTTTTGGAGTTggtacgtctcaccttgtgtccctgccccctttgcagccCATTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGTATCTTTGTGTCTGCAGGATTTggtgagtccctggaaacatacttagttgaccagggggacaaagggtagagt Alignment from Spaln_aa2Genome TCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCA------G TCTTTTTTGGAGTTGgtaagtctcaccttgtgtccctgccccctttgcagCCCATTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGTATCTTTGTGTCTGCAGGATTTGgtgagtccctggaaacatacttagttgaccagggggacaaagggtagagt Alignment from Spaln_nt2Genome TCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG------ TCTTTTTTGGAGTTGgtaagtctcaccttgtgtccctgccccctttgcagCCCATTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGTATCTTTGTGTCTGCAGGATTTGgtgagtccctggaaacatacttagttgaccagggggacaaagggtagagt Alignment from Pairagon TCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG------ TCTTTTTTGGAGTTGgtaagtctcaccttgtgtccctgccccctttgcagCCCATTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGTATCTTTGTGTCTGCAGGATTTGgtgagtccctggaaacatacttagttgaccagggggacaaagggtagagt Alignment from Exonerate_protein2genome TCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG TCTTTTTTGGAGTTGgtaagtctcaccttgtgtccctgccccctttgcagCCCATTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGTATCTTTGTGTCTGCAGgatttggtgagtccctggaaacatacttagttgaccagggggacaaagggtagagt Alignment from Exonerate_coding2genome TCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAG TCTTTTTTGGAGTTGgtaagtctcaccttgtgtccctgccccctttgcagCCCATTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGTATCTTTGTGTCTGCAGgatttggtgagtccctggaaacatacttagttgaccagggggacaaagggtagagt Alignment from GeneWise TCTTTTTTGGAGTCG CCCATTTTCACCACATTATTGAGCAGCTGCGCTTCCGCCAGAGCAGTGTGGGAAGTATCTTCGTGTCTGCAGCGTTC- TCTTTTTTGGAGTTGgtaagtctcaccttgtgtccctgccccctttgcagCCCATTTTCACCACATTATTGAGCAGTTACGCTTCCGCCAGAGCAGTGTGGGGAGTATCTTTGTGTCTGCAGGATTTGgtgagtccctggaaacatacttagttgaccagggggacaaagggtagagt #### Rce1_ID579_3 --> 0 - 0 Original Alignment CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG ttggcagaagcataaccaattctctccttcaccacttctgtgattgacag---------TCACTGCTCACCTTGATGGGTTTCAGACTGGAGGGCATTTTCCCAGCAGCACTGCTGCCCCTGCTGCTAACTATGgtgggccatgcttgatgttttcgcaactctattgtaactagtgtaatgac Alignment from CESAR CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG agaattttgttggcagaagcataacccttcaccacttctgtgattgacag---------TCACTGCTCACCTTGATGGGTTTCAGACTGGAGGGCATTTTCCCAGCAGCACTGCTGCCCCTGCTGCTAACTATGgtgggccatgcttgatgttttcgcaactctattgtaactagtgtaatgac Alignment from Spaln_aa2Genome ACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG ttggcagaagcataaccaattctctccttcaccacttctgtgattgacag---TCACTGCTCACCTTGATGGGTTTCAGACTGGAGGGCATTTTCCCAGCAGCACTGCTGCCCCTGCTGCTAACTATGgtgggccatgcttgatgttttcgcaactctattgtaactagtgtaatgac Alignment from Spaln_nt2Genome ACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG ttggcagaagcataaccaattctctccttcaccacttctgtgattgacag---TCACTGCTCACCTTGATGGGTTTCAGACTGGAGGGCATTTTCCCAGCAGCACTGCTGCCCCTGCTGCTAACTATGgtgggccatgcttgatgttttcgcaactctattgtaactagtgtaatgac Alignment from Pairagon CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG ttggcagaagcataaccaattctctccttcaccacttctgtgattgacag---------TCACTGCTCACCTTGATGGGTTTCAGACTGGAGGGCATTTTCCCAGCAGCACTGCTGCCCCTGCTGCTAACTATGgtgggccatgcttgatgttttcgcaactctattgtaactagtgtaatgac Alignment from Exonerate_protein2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG ttggcagaagcataaccaattctctccttcaccacttctgtGATTGACAGTCACTGCTCACCTTGATGGGTTTCAGACTGGAGGGCATTTTCCCAGCAGCACTGCTGCCCCTGCTGCTAACTATGgtgggccatgcttgatgttttcgcaactctattgtaactagtgtaatgac Alignment from Exonerate_coding2genome CCAGGCACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG ttggcagaagcataaccaattctctccttcaccacttctgtGATTGACAGTCACTGCTCACCTTGATGGGTTTCAGACTGGAGGGCATTTTCCCAGCAGCACTGCTGCCCCTGCTGCTAACTATGgtgggccatgcttgatgttttcgcaactctattgtaactagtgtaatgac Alignment from GeneWise ACATCACTGCTTACCTTGATGGGCTTCAGGCTGGAGGGCATTTTCCCAGCAGCGCTGCTGCCCCTGCTGCTAACTATG ttggcagaagcataaccaattctctccttcaccacttctgtgattgacagTCA---CTGCTCACCTTGATGGGTTTCAGACTGGAGGGCATTTTCCCAGCAGCACTGCTGCCCCTGCTGCTAACTATGgtgggccatgcttgatgttttcgcaactctattgtaactagtgtaatgac #### Rce1_ID580_2 --> 1 - 0 Original Alignment g---GACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG catcagcatggtcacaagtacctcccaggtgggcccctggttcttcataggCAGGACCACCCCTCTGTTATCAAGCGGCATTCCACTAGTGTTCTTGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagcaggaggagggtgaggcactaggcagcaaaggaagagtctagaat Alignment from CESAR g---GACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG catcagcatggtcacaagtacctcccaggtgggcccctggttcttcataggCAGGACCACCCCTCTGTTATCAAGCGGCATTCCACTAGTGTTCTTGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagcaggaggagggtgaggcactaggcagcaaaggaagagtctagaat Alignment from Spaln_aa2Genome GGACCACCCC---GCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG catcagcatggtcacaagtacctcccaggtgggcccctggttcttcatagGCAGGACCACCCCTCTGTTATCAAGCGGCATTCCACTAGTGTTCTTGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagcaggaggagggtgaggcactaggcagcaaaggaagagtctagaat Alignment from Spaln_nt2Genome GGACCACCCC---GCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG catcagcatggtcacaagtacctcccaggtgggcccctggttcttcatagGCAGGACCACCCCTCTGTTATCAAGCGGCATTCCACTAGTGTTCTTGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagcaggaggagggtgaggcactaggcagcaaaggaagagtctagaat Alignment from Pairagon ---GGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG catcagcatggtcacaagtacctcccaggtgggcccctggttcttcatagGCAGGACCACCCCTCTGTTATCAAGCGGCATTCCACTAGTGTTCTTGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagcaggaggagggtgaggcactaggcagcaaaggaagagtctagaat Alignment from Exonerate_protein2genome G---GACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG catcagcatggtcacaagtacctcccaggtgggcccctggttcttcatagGCAGGACCACCCCTCTGTTATCAAGCGGCATTCCACTAGTGTTCTTGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagcaggaggagggtgaggcactaggcagcaaaggaagagtctagaat Alignment from Exonerate_coding2genome G---GACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG catcagcatggtcacaagtacctcccaggtgggcccctggttcttcatagGCAGGACCACCCCTCTGTTATCAAGCGGCATTCCACTAGTGTTCTTGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagcaggaggagggtgaggcactaggcagcaaaggaagagtctagaat Alignment from GeneWise -AGGGACCACCCCGCTGTTATCAAGCGGCGTTCCACCAGTGTCCTGGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGCATCCAG catcagcatggtcacaagtacctcccaggtgggcccctggttcttcatagGCAGGACCACCCCTCTGTTATCAAGCGGCATTCCACTAGTGTTCTTGTAGTGTCCAGCTTGTCCCCTCTTTGCGTGCTGCTCTGGAGGGAACTCACTGGTATCCAGgtgagcaggaggagggtgaggcactaggcagcaaaggaagagtctagaat #### Rcor2_ID2093_4 --> 0 - 0 Original Alignment GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG--- taatgtagcactggcatggccaatcctttttgttgtttctttgtggctagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCAGATGAGTGGACAGTAGAGGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGGATgtaagcctatacttggggccccttgaatactcctctgccctttagtcaga Alignment from CESAR GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG--- taatgtagcactggcatggccaatcctttttgttgtttctttgtggctagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCAGATGAGTGGACAGTAGAGGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGGATgtaagcctatacttggggccccttgaatactcctctgccctttagtcaga Alignment from Spaln_aa2Genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG--- taatgtagcactggcatggccaatcctttttgttgtttctttgtggctagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCAGATGAGTGGACAGTAGAGGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGGATgtaagcctatacttggggccccttgaatactcctctgccctttagtcaga Alignment from Spaln_nt2Genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG--- taatgtagcactggcatggccaatcctttttgttgtttctttgtggctagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCAGATGAGTGGACAGTAGAGGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGGATgtaagcctatacttggggccccttgaatactcctctgccctttagtcaga Alignment from Pairagon GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG--- taatgtagcactggcatggccaatcctttttgttgtttctttgtggctagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCAGATGAGTGGACAGTAGAGGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGGATgtaagcctatacttggggccccttgaatactcctctgccctttagtcaga Alignment from Exonerate_protein2genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG--- taatgtagcactggcatggccaatcctttttgttgtttctttgtggctagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCAGATGAGTGGACAGTAGAGGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGGATgtaagcctatacttggggccccttgaatactcctctgccctttagtcaga Alignment from Exonerate_coding2genome GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATG--- taatgtagcactggcatggccaatcctttttgttgtttctttgtggctagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCAGATGAGTGGACAGTAGAGGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGGATgtaagcctatacttggggccccttgaatactcctctgccctttagtcaga Alignment from GeneWise GCACTCGGCATGCTTCTGTGGCATAAACACGATGTGGAGAAATCACTGGCTGACCTAGCCAACTTCACTCCCTTCCCTGATGAGTGGACGGTGGAGGACAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGCTTCCAGCGGATCCAGCAGATGCTC taatgtagcactggcatggccaatcctttttgttgtttctttgtggctagGCACTCGGTATGCTTCTGTGGCATAAACATGATGTGGAGAAATCACTAGCTGACCTTGCCAATTTCACTCCCTTTCCAGATGAGTGGACAGTAGAGGATAAGGTGCTGTTTGAACAGGCCTTTGGGTTCCATGGCAAGTGTTTCCAGCGTATCCAGCAGATGGATgtaagcctatacttggggccccttgaatactcctctgccctttagtcaga #### Rcor2_ID2094_5 --> 0 - 2 Original Alignment CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGAC------------------ag ttgaggggagagtctcatttggcctcctctccaacctctgtgccctccagCTCCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACCCGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAGTTTCATTAATCAAGATaggtattcagtgcagcttctgaccttgggaaatgggtagggggctaaaagta Alignment from CESAR CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACag ttgaggggagagtctcatttggcctcctctccaacctctgtgccctccagCTCCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACCCGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACagtttcattaatcaagataggtattcagtgcagcttctgaccttgggaaatgggtagggggctaaaagta Alignment from Spaln_aa2Genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAGT----------------- ttgaggggagagtctcatttggcctcctctccaacctctgtgccctccagCTCCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACCCGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAGTTTCATTAATCAAGATAGgtattcagtgcagcttctgaccttgggaaatgggtagggggctaaaagta Alignment from Spaln_nt2Genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACA ttgaggggagagtctcatttggcctcctctccaacctctgtgccctccagCTCCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACCCGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAgtttcattaatcaagataggtattcagtgcagcttctgaccttgggaaatgggtagggggctaaaagta Alignment from Pairagon CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGA----------------------------------------------------------------------- ttgaggggagagtctcatttggcctcctctccaacctctgtgccctccagCTCCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACCCGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAGTTTCATTAATCAAGATAGGTATTCAGTGCAGCTTCTGACCTTGGGAAATGGGTAGGGGGCTAAAAGTA Alignment from Exonerate_protein2genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG ttgaggggagagtctcatttggcctcctctccaacctctgtgccctccagCTCCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACCCGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAGtttcattaatcaagataggtattcagtgcagcttctgaccttgggaaatgggtagggggctaaaagta Alignment from Exonerate_coding2genome CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAG ttgaggggagagtctcatttggcctcctctccaacctctgtgccctccagCTCCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACCCGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAGtttcattaatcaagataggtattcagtgcagcttctgaccttgggaaatgggtagggggctaaaagta Alignment from GeneWise CTCCCTGACAAGGTGATTCCCAGCCTGGTGAAGTATTACTACTCTTGGAAGAAGACCCGAAGTCGAACTAGTGTGATGGACAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAGT----------------- ttgaggggagagtctcatttggcctcctctccaacctctgtgccctccagCTCCCTGATAAGATCATTCCCAGCCTGGTGAAATATTACTACTCTTGGAAGAAGACCCGTAGTCAAACTAGTGTGATGGATAGGCAGGCCAGGCGGCTGGGTGGCCGCAAGGACAAAGAAGACAGTTTCATTAATCAAGATAGgtattcagtgcagcttctgaccttgggaaatgggtagggggctaaaagta #### Rcor2_ID2095_6 --> 1 - 0 Original Alignment t---------GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tattctgagtaggaccttccctcattttcattcacctctctccctttcagtTGGGATGAGGATGAACTAGAAGAGGGACGGGGAGCCGTGAGTGAGGGGGAGCCGGATACTGGAGACCCCAAGCGAAAGgtacattccacgagctcttctgtcctatccaccactaagcttgtccctgg Alignment from CESAR t---------GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tattctgagtaggaccttccctcattttcattcacctctctccctttcagtTGGGATGAGGATGAACTAGAAGAGGGACGGGGAGCCGTGAGTGAGGGGGAGCCGGATACTGGAGACCCCAAGCGAAAGgtacattccacgagctcttctgtcctatccaccactaagcttgtccctgg Alignment from Spaln_aa2Genome T---------GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGA tattctgagtaggaccttccctcattttcattcacctctctccctttcagTTGGGATGAGGATGAACTAGAAGAGGGACGGGGAGCCGTGAGTGAGGGGGAGCCGGATACTGGAGACCCCAAGCGAAAGgtacattccacgagctcttctgtcctatccaccactaagcttgtccctgg Alignment from Spaln_nt2Genome TGATGAACTA---------GAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tattctgagtaggaccttccctcattttcattcacctctctccctttcagTTGGGATGAGGATGAACTAGAAGAGGGACGGGGAGCCGTGAGTGAGGGGGAGCCGGATACTGGAGACCCCAAGCGAAAGgtacattccacgagctcttctgtcctatccaccactaagcttgtccctgg Alignment from Pairagon T---------GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tattctgagtaggaccttccctcattttcattcacctctctccctttcagTTGGGATGAGGATGAACTAGAAGAGGGACGGGGAGCCGTGAGTGAGGGGGAGCCGGATACTGGAGACCCCAAGCGAAAGgtacattccacgagctcttctgtcctatccaccactaagcttgtccctgg Alignment from Exonerate_protein2genome T---------GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tattctgagtaggaccttccctcattttcattcacctctctccctttcagTTGGGATGAGGATGAACTAGAAGAGGGACGGGGAGCCGTGAGTGAGGGGGAGCCGGATACTGGAGACCCCAAGCGAAAGgtacattccacgagctcttctgtcctatccaccactaagcttgtccctgg Alignment from Exonerate_coding2genome T---------GATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tattctgagtaggaccttccctcattttcattcacctctctccctttcagTTGGGATGAGGATGAACTAGAAGAGGGACGGGGAGCCGTGAGTGAGGGGGAGCCGGATACTGGAGACCCCAAGCGAAAGgtacattccacgagctcttctgtcctatccaccactaagcttgtccctgg Alignment from GeneWise -------AGTGATGAACTAGAAGAGGGACGAGGAGCTGTGAGTGAGGGGGAACCGGATACTGGAGACCCCAAGCGAGAG tattctgagtaggaccttccctcattttcattcacctctctccctttcagTTGGGATGAGGATGAACTAGAAGAGGGACGGGGAGCCGTGAGTGAGGGGGAGCCGGATACTGGAGACCCCAAGCGAAAGgtacattccacgagctcttctgtcctatccaccactaagcttgtccctgg #### Rela_ID1126_3 --> 2 - 0 Original Alignment agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG------ aattgggggttgcatgaagagcacctgactactttatttcctatgaacagaaCCAGCCCAGGCTTCTGGGCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGCATGCGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCAAGCAGAATgtaaataagggcctgcaaggttgccgagcaaacttgctcccaggtcattg Alignment from CESAR agCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG------ aattgggggttgcatgaagagcacctgactactttatttcctatgaacagaaCCAGCCCAGGCTTCTGGGCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGCATGCGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCAAGCAGAATgtaaataagggcctgcaaggttgccgagcaaacttgctcccaggtcattg Alignment from Spaln_aa2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG------ aattgggggttgcatgaagagcacctgactactttatttcctatgaacagAACCAGCCCAGGCTTCTGGGCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGCATGCGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCAAGCAGAATgtaaataagggcctgcaaggttgccgagcaaacttgctcccaggtcattg Alignment from Spaln_nt2Genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG------ aattgggggttgcatgaagagcacctgactactttatttcctatgaacagAACCAGCCCAGGCTTCTGGGCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGCATGCGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCAAGCAGAATgtaaataagggcctgcaaggttgccgagcaaacttgctcccaggtcattg Alignment from Pairagon AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG------ aattgggggttgcatgaagagcacctgactactttatttcctatgaacagAACCAGCCCAGGCTTCTGGGCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGCATGCGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCAAGCAGAATgtaaataagggcctgcaaggttgccgagcaaacttgctcccaggtcattg Alignment from Exonerate_protein2genome AGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aattgggggttgcatgaagagcacctgactactttatttcctatgaacagAACCAGCCCAGGCTTCTGGGCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGCATGCGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCAAGcagaatgtaaataagggcctgcaaggttgccgagcaaacttgctcccaggtcattg Alignment from Exonerate_coding2genome TCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG aattgggggttgcatgaagagcacctgactactttatttcctatgaACAGAACCAGCCCAGGCTTCTGGGCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGCATGCGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCAAGcagaatgtaaataagggcctgcaaggttgccgagcaaacttgctcccaggtcattg Alignment from GeneWise TCAGAGCCAGCCCAGGCTTCTGGGCCTTATGTGGAGATCATCGAACAGCCGAAGCAACGGGGCATGCGATTCCGCTATAAATGCGAGGGGCGCTCAGCGGGCAGTATTCCTGGCGAGAGAAGCACAGATACCACCAAGACACACCCCACCATCAAG------ aattgggggttgcatgaagagcacctgactactttatttcctatgaACAGAACCAGCCCAGGCTTCTGGGCCTTATGTGGAAATCATCAAACAACCAAAGCAACAGGGCATGCGTTTCCGCTATAAATCCGAGGGGCGCTCAGAAGGTGGTATCCCTGGTGAGAGAAGCACAGATACCACAAAGACACACCCCACTATCAAGCAGAATgtaaataagggcctgcaaggttgccgagcaaacttgctcccaggtcattg #### Rela_ID1130_7 --> 2 - 1 Original Alignment ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA---------g tggtgggtgctagagctcctaaaggtacaccgtgggctcctcgtttctagggGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATATTCCTACTGTGTGACAGGGTACAGAAGCTTGGGCAGggtgaggagtgaactacacatggagaggggagggggaaatctgggtggagg Alignment from CESAR ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA---------g tggtgggtgctagagctcctaaaggtacaccgtgggctcctcgtttctagggGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATATTCCTACTGTGTGACAGGGTACAGAAGCTTGGGCAGggtgaggagtgaactacacatggagaggggagggggaaatctgggtggagg Alignment from Spaln_aa2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA---------G tggtgggtgctagagctcctaaaggtacaccgtgggctcctcgtttctagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATATTCCTACTGTGTGACAGGGTACAGAAGCTTGGGCAGGgtgaggagtgaactacacatggagaggggagggggaaatctgggtggagg Alignment from Spaln_nt2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAA tggtgggtgctagagctcctaaaggtacaccgtgggctcctcgtttctagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATATTCCTACTGTGTGACAGGGTACAGAAgcttgggcagggtgaggagtgaactacacatggagaggggagggggaaatctgggtggagg Alignment from Pairagon GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGA---------AAG tggtgggtgctagagctcctaaaggtacaccgtgggctcctcgtttctagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATATTCCTACTGTGTGACAGGGTACAGAAGCTTGGGCAGGgtgaggagtgaactacacatggagaggggagggggaaatctgggtggagg Alignment from Exonerate_protein2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG tggtgggtgctagagctcctaaaggtacaccgtgggctcctcgtttctagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATATTCCTACTGTGTGACAGGGTACAGAAGCttgggcagggtgaggagtgaactacacatggagaggggagggggaaatctgggtggagg Alignment from Exonerate_coding2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG tggtgggtgctagagctcctaaaggtacaccgtgggctcctcgtttctagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATATTCCTACTGTGTGACAGGGTACAGAAGCttgggcagggtgaggagtgaactacacatggagaggggagggggaaatctgggtggagg Alignment from GeneWise GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAA---------G tggtgggtgctagagctcctaaaggtacaccgtgggctcctcgtttctagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCAGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATATTCCTACTGTGTGACAGGGTACAGAAGCTTGGGCAGGgtgaggagtgaactacacatggagaggggagggggaaatctgggtggagg #### Rin1_ID809_4 --> 2 - 2 Original Alignment gt---------GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag cacatgcaggaggtcctcagtgaaacagctgtcctcctctttacctccaggtATTCGTGAAGTCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCaggtgaggctacctgtgggcacctgctgagctttcaggcccactcactgcac Alignment from CESAR gt---------GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCag cacatgcaggaggtcctcagtgaaacagctgtcctcctctttacctccaggtATTCGTGAAGTCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCaggtgaggctacctgtgggcacctgctgagctttcaggcccactcactgcac Alignment from Spaln_aa2Genome GTGTCTCTTTGGAGGGCTCA---------GAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG cacatgcaggaggtcctcagtgaaacagctgtcctcctctttacctccagGTATTCGTGAAGTCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCAGgtgaggctacctgtgggcacctgctgagctttcaggcccactcactgcac Alignment from Spaln_nt2Genome GTGTCTCTTTGG---------AGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG cacatgcaggaggtcctcagtgaaacagctgtcctcctctttacctccagGTATTCGTGAAGTCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCAGgtgaggctacctgtgggcacctgctgagctttcaggcccactcactgcac Alignment from Pairagon GT---------GTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG cacatgcaggaggtcctcagtgaaacagctgtcctcctctttacctccagGTATTCGTGAAGTCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCAGgtgaggctacctgtgggcacctgctgagctttcaggcccactcactgcac Alignment from Exonerate_protein2genome GTACTGGCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG cacatgcaggaggtcctcagtgaaacagctgtcctcctctttacctccagGTATTCGTGAAGTCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCAGgtgaggctacctgtgggcacctgctgagctttcaggcccactcactgcac Alignment from Exonerate_coding2genome GTACTGGCGGTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG cacatgcaggaggtcctcagtgaaacagctgtcctcctctttacctccagGTATTCGTGAAGTCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCAGgtgaggctacctgtgggcacctgctgagctttcaggcccactcactgcac Alignment from GeneWise -----TTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG cacatgcaggaggtcctcagtgaaacagctgtcctcctctttacctccaggtattcgtgaagTCTCTTTGGAGGTCTCAGAACTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCAGgtgaggctacctgtgggcacctgctgagctttcaggcccactcactgcac #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg cccctaatcgttaataggaggtacactgtattctacttcttgcccattagaa---------------------CATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCCCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGAGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCCAGGCAggtaagcgccgcccatcttcccctgtaccactctgctagagtacgagccat Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gggtatggtttcgtacaaactccccctgtattctacttcttgcccattagaa---------------------CATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCCCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGAGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCCAGGCAggtaagcgccgcccatcttcccctgtaccactctgctagagtacgagccat Alignment from Spaln_aa2Genome TGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cccctaatcgttaataggaggtacactgtattctacttcttgcccattagAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCCCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGAGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCCAGGCAGgtaagcgccgcccatcttcccctgtaccactctgctagagtacgagccat Alignment from Spaln_nt2Genome --CATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cccctaatcgttaataggaggtacactgtattctacttcttgcccattagAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCCCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGAGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCCAGGCAGgtaagcgccgcccatcttcccctgtaccactctgctagagtacgagccat Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cccctaatcgttaataggaggtacactgtattctacttcttgcccattagAA---------------------CATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCCCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGAGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCCAGGCAGgtaagcgccgcccatcttcccctgtaccactctgctagagtacgagccat Alignment from Exonerate_protein2genome TGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cccctaatcgttaataggaggtacactgtattctacttcttgcccattagAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCCCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGAGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCCAGGCAGgtaagcgccgcccatcttcccctgtaccactctgctagagtacgagccat Alignment from Exonerate_coding2genome TGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cccctaatcgttaataggaggtacactgtattctacttcttgcccattagAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCCCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGAGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCCAGGCAGgtaagcgccgcccatcttcccctgtaccactctgctagagtacgagccat Alignment from GeneWise --CATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG cccctaatcgttaataggaggtacactgtattctacttcttgcccattagAACATCGCTCAGTTCTCAAACCACTTCGACCCATCCTGGCTGCCCGCCTACGGCACCGGCTTTCTGCTGATGGTTCCCTTGGCCGCCTAGCTGAGGGCTTTCTCCTGGCCCGGACCCAGGGGCCTGGAGCCTTTGGGCCCCACCTGACTCTTTCTTCTCCGGTGGAGACAGAACAGGTGCGTCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCCAGGCAGgtaagcgccgcccatcttcccctgtaccactctgctagagtacgagccat #### Rnaseh2c_ID1103_2 --> 2 - 0 Original Alignment ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC tcttgggctttgtggcctgcagcagcacctaacctccttttctttcttagggTTACAGGCAGCATTTCGTGGTCGTGGACTGTGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAG------------------------------------------------------------GATGATGCCCAGGAGCCATTAGAGAGAGAC---gtaacaagtatggggagatagtacgttttgggtgagggcgttttgggtga Alignment from CESAR ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC tcttgggctttgtggcctgcagcagcacctaacctccttttctttcttagggTTACAGGCAGCATTTCGTGGTCGTGGACTGTGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAG------------------------------------------------------------GATGATGCCCAGGAGCCATTAGAGAGAGAC---gtaacaagtatggggagatagtacgttttgggtgagggcgttttggg Alignment from Spaln_aa2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGAC tcttgggctttgtggcctgcagcagcacctaacctccttttctttcttagGGTTACAGGCAGCATTTCGTGGTCGTGGACTGTGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAG------------------------------------------------------------GATGATGCCCAGGAGCCATTAGAGAGAGACgtaacaagtatggggagatagtacgttttgggtgagggcgttttgggtga Alignment from Spaln_nt2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGT--TGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCG tcttgggctttgtggcctgcagcagcacctaacctccttttctttcttagGGTTACAGGCAGCATTTCGTGGTCGTGGACTGTGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGATGATGCCCAGGAGCCATTAGAGAGAGACGTAACAAGTATGGGGA--GATAGTACGTTTTGGGTGAG--------GGCG Alignment from Pairagon GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGAC tcttgggctttgtggcctgcagcagcacctaacctccttttctttcttagGGTTACAGGCAGCATTTCGTGGTCGTGGACTGTGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGA------------------------------------------------------------GGATGATGCCCAGGAGCCATTAGAGAGAGACgtaacaagtatggggagatagtacgttttgggtgagggcgttttgggtga Alignment from Exonerate_protein2genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAG tcttgggctttgtggcctgcagcagcacctaacctccttttctttcttagGGTTACAGGCAGCATTTCGTGGTCGTGGACTGTGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGATGATGCCCAGgagccattagagagagacgtaacaagtatggggagatagtacgttttgggtgagggcgttttgggtga Alignment from Exonerate_coding2genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAG tcttgggctttgtggcctgcagcagcacctaacctccttttctttcttagGGTTACAGGCAGCATTTCGTGGTCGTGGACTGTGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAGGATGATGCCCAGgagccattagagagagacgtaacaagtatggggagatagtacgttttgggtgagggcgttttgggtga Alignment from GeneWise GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTCGAC tcttgggctttgtggcctgcagcagcacctaacctccttttctttcttagGGTTACAGGCAGCATTTCGTGGTCGTGGACTGTGGGGTGAGGAGGTAGCTGTGCCGCCAGGGTTTGCAGGATTTGTGATGGTGACAGAG------------------------------------------------------------GATGATGCCCAGGAGCCATTAGAGAGA------GACgtaacaagtatggggagatagtacgttttgggtgagggcgttttgggtga #### Rom1_ID2497_2 --> 1 - 0 Original Alignment c---------CGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tcgatgctttcacactccacctcatgattttactcctgatttcactctagtCTGAAAGACCGGATCCCAAGCAATGTAGAAGGCTTATATCTGATTGATGGAGTCCCCTTCTCCTGCTGTAATCCCCACTCACCT------TGTCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCATAAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGAACGTTGGGAAGTATTCTGGTGATAACTTTATTGCTGCAGgtaagtcgttaaggtccctaactcccacattcacttttgtgaccttaaaa Alignment from CESAR c---------CGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tcgatgctttcacactccacctcatgattttactcctgatttcactctagtCTGAAAGACCGGATCCCAAGCAATGTAGAAGGCTTATATCTGATTGATGGAGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGTCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCATAAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGAACGTTGGGAAGTATTCTGGTGATAACTTTATTGCTGCAGgtaagtcgttaaggtccctaactcccacattcacttttgtgaccttaaaa Alignment from Spaln_aa2Genome C---------CGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCA tcgatgctttcacactccacctcatgattttactcctgatttcactctagTCTGAAAGACCGGATCCCAAGCAATGTAGAAGGCTTATATCTGATTGATGGAGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGTCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCATAAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGAACGTTGGGAAGTATTCTGGTGATAACTTTATTGCTGCAGgtaagtcgttaaggtccctaactcccacattcacttttgtgaccttaaaa Alignment from Spaln_nt2Genome -CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tcgatgctttcacactccacctcatgattttactcctgatttcactctagtctgaaagACCGGATCCCAAGCAATGTAGAAGGCTTATATCTGATTGATGGAGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGTCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCT---TCCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCATAAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGAACGTTGGGAAGTATTCTGGTGATAACTTTATTGCTGCAGgtaagtcgttaaggtccctaactcccacattcacttttgtgaccttaaaa Alignment from Pairagon ---------CCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tcgatgctttcacactccacctcatgattttactcctgatttcactctagTCTGAAAGACCGGATCCCAAGCAATGTAGAAGGCTTATATCTGATTGATGGAGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGTCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCT---TCCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCATAAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGAACGTTGGGAAGTATTCTGGTGATAACTTTATTGCTGCAGgtaagtcgttaaggtccctaactcccacattcacttttgtgaccttaaaa Alignment from Exonerate_protein2genome TGTAGTTGACCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tcgatgctttcacactccacctcatgattttactcctgatttcactctagTCTGAAAGACCGGATCCCAAGCAATGTAGAAGGCTTATATCTGATTGATGGAGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGTCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCATAAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGAACGTTGGGAAGTATTCTGGTGATAACTTTATTGCTGCAGgtaagtcgttaaggtccctaactcccacattcacttttgtgaccttaaaa Alignment from Exonerate_coding2genome TGTAGTTGACCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tcgatgctttcacactccacctcatgattttactcctgatttcactctagTCTGAAAGACCGGATCCCAAGCAATGTAGAAGGCTTATATCTGATTGATGGAGTCCCCTTCTCCTGCTGTAATCCCCACTCA------CCTTGTCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCATAAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGAACGTTGGGAAGTATTCTGGTGATAACTTTATTGCTGCAGgtaagtcgttaaggtccctaactcccacattcacttttgtgaccttaaaa Alignment from GeneWise -------GACCGGATCCAGAGCAATGTGGAAGGCTTATATCTGATTGATGGCGTCCCCTTCTCCTGTTGTAATCCCCACTCACCCCGGCCTTGCCTGCAAAGCCAACTCTCGGACCCCTATGCCCATCCACTCTTCGATCCTCGGCAGCCCAACCTAAACCTCTGGGCCCAAGGGTGCCATGAAGTGCTGCTGGAACACCTGCAGGGTTTATCAGGCACACTGGGAAGTATTCTGGCTGTCACCTTATTGCTGCAG tcgatgctttcacactccacctcatgattttactcctgatttcactctagTCTGAAAGACCGGATCCCAAGCAATGTAGAAGGCTTATATCTGATTGATGGAGTCCCCTTCTCCTGCTGTAATCCCCACTCACCT------TGTCTGCAAAGCCAACTCTCAGACCCCTATGCCCATCCACTTCTT---CCTCAGCAGCCCAACCTAAACCTCTGGGCCCAAGGATGCCATAAAGTGCTGCTGGAACACCTGCAGGGTTTATCCGGAACGTTGGGAAGTATTCTGGTGATAACTTTATTGCTGCAGgtaagtcgttaaggtccctaactcccacattcacttttgtgaccttaaaa #### Rpp30_ID7089_9 --> 0 - 2 Original Alignment CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACtt gtaaacaacccttacaatggtttatacagtttctttgcctgtctctctagCCCTTGGAAATAAGAGGACCATACGATGTGGCT---ttgtattggggtctcagtataatgtttatcagtataatgtttggggtagctc Alignment from CESAR CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACtt gtaaacaacccttacaatggtttatacagtttctttgcctgtctctctagCCCTTGGAAATAAGAGGACCATACGATGTGGCT---ttgtattggggtctcagtataatgtttatcagtataatgtttggggtagctc Alignment from Spaln_aa2Genome CCTTTGGAAATAAGAGGACCATATGACGTGGCAAA gtaaacaacccttacaatggtttatacagtttctttgcctgtctctctagCCCTTGGAAATAAGAGGACCATACGATGTGGCTTTgtattggggtctcagtataatgtttatcagtataatgtttggggtagctc Alignment from Spaln_nt2Genome CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT gtaaacaacccttacaatggtttatacagtttctttgcctgtctctctagCCCTTGGAAATAAGAGGACCATACGATGTGGC---TTTgtattggggtctcagtataatgtttatcagtataatgtttggggtagctc Alignment from Pairagon CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT gtaaacaacccttacaatggtttatacagtttctttgcctgtctctctagCCCTTGGAAATAAGAGGACCATACGATGTGGC---TTTgtattggggtctcagtataatgtttatcagtataatgtttggggtagctc Alignment from Exonerate_protein2genome CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT gtaaacaacccttacaatggtttatacagtttctttgcctgtctctctagCCCTTGGAAATAAGAGGACCATACGATGTGGCTTTGTAttggggtctcagtataatgtttatcagtataatgtttggggtagctc Alignment from Exonerate_coding2genome CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT gtaaacaacccttacaatggtttatacagtttctttgcctgtctctctagCCCTTGGAAATAAGAGGACCATACGATGTGGCTTTGTAttggggtctcagtataatgtttatcagtataatgtttggggtagctc Alignment from GeneWise gtaaacaacccttacaatggtttatacagtttctttgcctgtctctctagcccttggaaataagaggaccatacgatgtggctttgtattggggtctcagtataatgtttatcagtataatgtttggggtagctc #### Rps6ka4_ID1805_15 --> 0 - 1 Original Alignment TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---g agcctacctgctggcagtgtgggatggtcttatgatgtctgtttccccagTACATGATGCTCTCTAGCCAGGTTCCCTTCCAAGGGGCCCCAGGCCAGGGTGGACAGAGTCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGGCGTTTCTCCCTGGATGGGGAGGCTTGGCAAGGTGTTTCGGAGGAAGCCAAGGAGCTGGTCCGAAACggtatgtcgccggaggattgggacctcattagggaaggaacaacatagaat Alignment from CESAR TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---g agcctacctgctggcagtgtgggatggtcttatgatgtctgtttccccagTACATGATGCTCTCTAGCCAGGTTCCCTTCCAAGGGGCCCCAGGCCAGGGTGGACAGAGTCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGGCGTTTCTCCCTGGATGGGGAGGCTTGGCAAGGTGTTTCGGAGGAAGCCAAGGAGCTGGTCCGAAACggtatgtcgccggaggattgggacctcattagggaaggaacaacatagaat Alignment from Spaln_aa2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G agcctacctgctggcagtgtgggatggtcttatgatgtctgtttccccagTACATGATGCTCTCTAGCCAGGTTCCCTTCCAAGGGGCCCCAGGCCAGGGTGGACAGAGTCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGGCGTTTCTCCCTGGATGGGGAGGCTTGGCAAGGTGTTTCGGAGGAAGCCAAGGAGCTGGTCCGAAACGgtatgtcgccggaggattgggacctcattagggaaggaacaacatagaat Alignment from Spaln_nt2Genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G agcctacctgctggcagtgtgggatggtcttatgatgtctgtttccccagTACATGATGCTCTCTAGCCAGGTTCCCTTCCAAGGGGCCCCAGGCCAGGGTGGACAGAGTCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGGCGTTTCTCCCTGGATGGGGAGGCTTGGCAAGGTGTTTCGGAGGAAGCCAAGGAGCTGGTCCGAAACGgtatgtcgccggaggattgggacctcattagggaaggaacaacatagaat Alignment from Pairagon TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCG------------------------------------------------------- agcctacctgctggcagtgtgggatggtcttatgatgtctgtttccccagTACATGATGCTCTCTAGCCAGGTTCCCTTCCAAGGGGCCCCAGGCCAGGGTGGACAGAGTCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGGCGTTTCTCCCTGGATGGGGAGGCTTGGCAAGGTGTTTCGGAGGAAGCCAAGGAGCTGGTCCGAAACGGTATGTCGCCGGAGGATTGGGACCTCATTAGGGAAGGAACAACATAGAAT Alignment from Exonerate_protein2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G agcctacctgctggcagtgtgggatggtcttatgatgtctgtttccccagTACATGATGCTCTCTAGCCAGGTTCCCTTCCAAGGGGCCCCAGGCCAGGGTGGACAGAGTCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGGCGTTTCTCCCTGGATGGGGAGGCTTGGCAAGGTGTTTCGGAGGAAGCCAAGGAGCTGGTCCGAAACGgtatgtcgccggaggattgggacctcattagggaaggaacaacatagaat Alignment from Exonerate_coding2genome TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGA---G agcctacctgctggcagtgtgggatggtcttatgatgtctgtttccccagTACATGATGCTCTCTAGCCAGGTTCCCTTCCAAGGGGCCCCAGGCCAGGGTGGACAGAGTCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGGCGTTTCTCCCTGGATGGGGAGGCTTGGCAAGGTGTTTCGGAGGAAGCCAAGGAGCTGGTCCGAAACGgtatgtcgccggaggattgggacctcattagggaaggaacaacatagaat Alignment from GeneWise TACATGATGCTGTCTGGCCAGGTTCCCTTCCAAGGGGCCTCCGGCCAGGGTGGACAGAGTCAGGCAGCTGAGATCATGTGCAAGATCCGTGAAGGGCGCTTCTCCCTGGACGGGGAAGCCTGGCAAGGTGTGTCGGAGGAAGCCAAGGAGCTGGTCCGAGGG- agcctacctgctggcagtgtgggatggtcttatgatgtctgtttccccagTACATGATGCTCTCTAGCCAGGTTCCCTTCCAAGGGGCCCCAGGCCAGGGTGGACAGAGTCAAGCAGCTGAGATCATGTGCAAGATCTGTGAAGGGCGTTTCTCCCTGGATGGGGAGGCTTGGCAAGGTGTTTCGGAGGAAGCCAAGGAGCTGGTCCGAAACGgtatgtcgccggaggattgggacctcattagggaaggaacaacatagaat #### Rps6ka4_ID1806_14 --> 0 - 0 Original Alignment ---------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcatatatgatgggtctggcccctgactttccattgttgtttcacaccagGGAGACCATAATATCTTGTACGCAGATGACACTCCCGGGGCCCCGCTCAAAATCATTGACTTTGGGTTCACACAACTGCGGCCCCAGAGTCCAGCAGGACCTATGCGGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagtttctcagtggagcaggggttattgttccttgttccagatagtta Alignment from CESAR ---------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcatatatgatgggtctggcccctgactttccattgttgtttcacaccagGGAGACCATAATATCTTGTACGCAGATGACACTCCCGGGGCCCCGCTCAAAATCATTGACTTTGGGTTCACACAACTGCGGCCCCAGAGTCCAGCAGGACCTATGCGGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagtttctcagtggagcaggggttattgttccttgttccagatagtta Alignment from Spaln_aa2Genome AACATCTTGTAC---------GCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcatatatgatgggtctggcccctgactttccattgttgtttcacaccagGGAGACCATAATATCTTGTACGCAGATGACACTCCCGGGGCCCCGCTCAAAATCATTGACTTTGGGTTCACACAACTGCGGCCCCAGAGTCCAGCAGGACCTATGCGGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagtttctcagtggagcaggggttattgttccttgttccagatagtta Alignment from Spaln_nt2Genome AACATCTTGTA---------CGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcatatatgatgggtctggcccctgactttccattgttgtttcacaccagGGAGACCATAATATCTTGTACGCAGATGACACTCCCGGGGCCCCGCTCAAAATCATTGACTTTGGGTTCACACAACTGCGGCCCCAGAGTCCAGCAGGACCTATGCGGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagtttctcagtggagcaggggttattgttccttgttccagatagtta Alignment from Pairagon -----------------------------------------------------------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG GCATATATGATGGGTCTGGCCCCTGACTTTCCATTGTTGTTTCACACCAGGGAGACCATAATATCTTGTACGCAGATGACACTCCCGGGGCCCCGCTCAAAATCATTGACTTTGGGTTCACACAACTGCGGCCCCAGAGTCCAGCAGGACCTATGCGGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagtttctcagtggagcaggggttattgttccttgttccagatagtta Alignment from Exonerate_protein2genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcatatatgatgggtctggcccctgactttccattgttgtttcacaccagggagaccatAATATCTTGTACGCAGATGACACTCCCGGGGCCCCGCTCAAAATCATTGACTTTGGGTTCACACAACTGCGGCCCCAGAGTCCAGCAGGACCTATGCGGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagtttctcagtggagcaggggttattgttccttgttccagatagtta Alignment from Exonerate_coding2genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcatatatgatgggtctggcccctgactttccattgttgtttcacaccagggagaccatAATATCTTGTACGCAGATGACACTCCCGGGGCCCCGCTCAAAATCATTGACTTTGGGTTCACACAACTGCGGCCCCAGAGTCCAGCAGGACCTATGCGGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagtttctcagtggagcaggggttattgttccttgttccagatagtta Alignment from GeneWise ---------AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcatatatgatgggtctggcccctgactttccattgttgtttcacaccagGGAGACCATAATATCTTGTACGCAGATGACACTCCCGGGGCCCCGCTCAAAATCATTGACTTTGGGTTCACACAACTGCGGCCCCAGAGTCCAGCAGGACCTATGCGGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtgagtttctcagtggagcaggggttattgttccttgttccagatagtta #### Rps6ka4_ID1807_13 --> 0 - 0 Original Alignment ------CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccacccggatacctgagcatgcagttgtcttccttgttgtcttgcagGAAAATCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtattaggaggaattaggaagtggagcagaacagcttggcatatatgatg Alignment from CESAR ------CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccacccggatacctgagcatgcagttgtcttccttgttgtcttgcagGAAAATCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtattaggaggaattaggaagtggagcagaacagcttggcatatatgatg Alignment from Spaln_aa2Genome CTACACACTTAC------CTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccacccggatacctgagcatgcagttgtcttccttgttgtcttgcagGAAAATCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtattaggaggaattaggaagtggagcagaacagcttggcatatatgatg Alignment from Spaln_nt2Genome CTACACACT------TACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccacccggatacctgagcatgcagttgtcttccttgttgtcttgcagGAAAATCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtattaggaggaattaggaagtggagcagaacagcttggcatatatgatg Alignment from Pairagon ------CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccacccggatacctgagcatgcagttgtcttccttgttgtcttgcagGAAAATCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtattaggaggaattaggaagtggagcagaacagcttggcatatatgatg Alignment from Exonerate_protein2genome ------CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccacccggatacctgagcatgcagttgtcttccttgttgtcttgcagGAAAATCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtattaggaggaattaggaagtggagcagaacagcttggcatatatgatg Alignment from Exonerate_coding2genome ------CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccacccggatacctgagcatgcagttgtcttccttgttgtcttgcagGAAAATCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtattaggaggaattaggaagtggagcagaacagcttggcatatatgatg Alignment from GeneWise ------CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccacccggatacctgagcatgcagttgtcttccttgttgtcttgcagGAAAATCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAGAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGTACGAGGAGGCAGGTGTAGTGCACCGTGACCTGAAACCTGAGgtattaggaggaattaggaagtggagcagaacagcttggcatatatgatg #### Rps6ka4_ID1814_6 --> 0 - 0 Original Alignment AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG--- gattaagtatactaggcagattttacacttgctttttttccctctgccagAAAGAGTGGACCTTCTCCTTCTGCGGTACAATTGAGTACATGGCTCCTGAAATTATCCGTAGCAAAGCTGGACATGGTAAGTCTgtaacatgcattggtgggcagaggtagggcttgtgtacaaggtctttctt Alignment from CESAR AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG--- gattaagtatactaggcagattttacacttgctttttttccctctgccagAAAGAGTGGACCTTCTCCTTCTGCGGTACAATTGAGTACATGGCTCCTGAAATTATCCGTAGCAAAGCTGGACATGGTAAGTCTgtaacatgcattggtgggcagaggtagggcttgtgtacaaggtctttttc Alignment from Spaln_aa2Genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAG--- gattaagtatactaggcagattttacacttgctttttttccctctgccagAAAGAGTGGACCTTCTCCTTCTGCGGTACAATTGAGTACATGGCTCCTGAAATTATCCGTAGCAAAGCTGGACATGGTAAGTCTgtaacatgcattggtgggcagaggtagggcttgtgtacaaggtctttctt Alignment from Spaln_nt2Genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAA gattaagtatactaggcagattttacacttgctttttttccctctgccagAAAGAGTGGACCTTCTCCTTCTGCGGTACAATTGAGTACATGGCTCCTGAAATTATCCGTAGCAAAGCTGGACATGGTAAgtctgtaacatgcattggtgggcagaggtagggcttgtgtacaaggtctttctt Alignment from Pairagon AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCA------------------------------------------------------- gattaagtatactaggcagattttacacttgctttttttccctctgccagAAAGAGTGGACCTTCTCCTTCTGCGGTACAATTGAGTACATGGCTCCTGAAATTATCCGTAGCAAAGCTGGACATGGTAAGTCTGTAACATGCATTGGTGGGCAGAGGTAGGGCTTGTGTACAAGGTCTTTCTT Alignment from Exonerate_protein2genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATG gattaagtatactaggcagattttacacttgctttttttccctctgccagAAAGAGTGGACCTTCTCCTTCTGCGGTACAATTGAGTACATGGCTCCTGAAATTATCCGTAGCAAAGCTGGACATGgtaagtctgtaacatgcattggtgggcagaggtagggcttgtgtacaaggtctttctt Alignment from Exonerate_coding2genome AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATG gattaagtatactaggcagattttacacttgctttttttccctctgccagAAAGAGTGGACCTTCTCCTTCTGCGGTACAATTGAGTACATGGCTCCTGAAATTATCCGTAGCAAAGCTGGACATGgtaagtctgtaacatgcattggtgggcagaggtagggcttgtgtacaaggtctttctt Alignment from GeneWise AAAGAGCGGACCTTCTCCTTCTGTGGCACAATCGAGTACATGGCTCCCGAAATCATCCGAAGCAAGGCTGGACATGGCAAGGCT gattaagtatactaggcagattttacacttgctttttttccctctgccagAAAGAGTGGACCTTCTCCTTCTGCGGTACAATTGAGTACATGGCTCCTGAAATTATCCGTAGCAAAGCTGGACATGGTAAGTCTgtaacatgcattggtgggcagaggtagggcttgtgtacaaggtctttctt #### Rps6ka4_ID1817_3 --> 2 - 1 Original Alignment ccTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGg tttcaacccacccagttcactatccgactgccttttctctgtgcctccagccTATGGAAAGGTGTTTCTCGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACC------------------ggtaagtgagttggattaaattggtcatagagcccaggcatccttataggc Alignment from CESAR ccTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGg tttcaacccacccagttcactatccgactgccttttctctgtgcctccagccTATGGAAAGGTGTTTCTCGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACC------------------ggtaagtgagttggattaaattggtcatagagcccaggcatccttataggc Alignment from Spaln_aa2Genome CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCC- tttcaacccacccagttcactatccgactgccttttctctgtgcctccagCCTATGGAAAGGTGTTTCTCGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCGgtaagtgagttggattaaattggtcatagagcccaggcatccttataggc Alignment from Spaln_nt2Genome CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCC- tttcaacccacccagttcactatccgactgccttttctctgtgcctccagCCTATGGAAAGGTGTTTCTCGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCGgtaagtgagttggattaaattggtcatagagcccaggcatccttataggc Alignment from Pairagon CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGG-------------------------------------------------------- tttcaacccacccagttcactatccgactgccttttctctgtgcctccagCCTATGGAAAGGTGTTTCTCGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCGGTAAGTGAGTTGGATTAAATTGGTCATAGAGCCCAGGCATCCTTATAGGC Alignment from Exonerate_protein2genome CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCA tttcaacccacccagttcactatccgactgccttttctctgtgcctccagCCTATGGAAAGGTGTTTCTCGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCGgtaagtgagttggattaaattggtcatagagcccaggcatccttataggc Alignment from Exonerate_coding2genome CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCA tttcaacccacccagttcactatccgactgccttttctctgtgcctccagCCTATGGAAAGGTGTTTCTCGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCGgtaagtgagttggattaaattggtcatagagcccaggcatccttataggc Alignment from GeneWise CCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCA tttcaacccacccagttcactatccgactgccttttctctgtgcctccagCCTATGGAAAGGTGTTTCTCGTTTGGAAAACGGGTGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTAGTGCAGCGCGCAAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGTCAGGCACCATTCTTGGTCACACTGCACTATGCCTTCCAGACGGATACCGgtaagtgagttggattaaattggtcatagagcccaggcatccttataggc #### Rps6ka4_ID1818_2 --> 2 - 1 Original Alignment ccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAg accaaccctcaagacctattttctgtgtgcacgtgtctctgtgtccacagcc------------CATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAggtgagagacaactttcactggcaggatgttgtgggcatcctcatggaaga Alignment from CESAR ccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAg attggggggcaaaccaaccctcaagtgtgcacgtgtctctgtgtccacagcc------------CATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAggtgagagacaactttcactggcaggatgttgtgggcatcctcatggaaga Alignment from Spaln_aa2Genome CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG accaaccctcaagacctattttctgtgtgcacgtgtctctgtgtccacagCC------------CATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtgagagacaactttcactggcaggatgttgtgggcatcctcatggaaga Alignment from Spaln_nt2Genome CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG accaaccctcaagacctattttctgtgtgcacgtgtctctgtgtccacagCC------------CATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtgagagacaactttcactggcaggatgttgtgggcatcctcatggaaga Alignment from Pairagon CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG accaaccctcaagacctattttctgtgtgcacgtgtctctgtgtccacagCC------------CATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtgagagacaactttcactggcaggatgttgtgggcatcctcatggaaga Alignment from Exonerate_protein2genome CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG accaaccctcaagacctattttctgtgtgcacgtgtctCTGTGTCCACAGCCCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtgagagacaactttcactggcaggatgttgtgggcatcctcatggaaga Alignment from Exonerate_coding2genome ACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG accaaccctcaagacctattttctgtgtgcacgtgtctctgtgtccACAGCCCATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtgagagacaactttcactggcaggatgttgtgggcatcctcatggaaga Alignment from GeneWise CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAG accaaccctcaagacctattttctgtgtgcacgtgtctctgtgtccacagCC------------CATGAGGAGAAGGTTAGTGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAGgtgagagacaactttcactggcaggatgttgtgggcatcctcatggaaga #### Rps6kb2_ID368_14 --> 0 - 2 Original Alignment GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC------ag cctagggattggcaataccagcattactttactgtttctgggcctgccagGGTTTTACATATGTGGCACCTTCCGTCCTGGATAGCATCAAGGAGGGTTTCTCATTCCAGCCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACTCCCATCGCTGACaggtaagtggcagggcagatagatgtttagtcaagcagtcccaaacatggat Alignment from CESAR GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC------ag cctagggattggcaataccagcattactttactgtttctgggcctgccagGGTTTTACATATGTGGCACCTTCCGTCCTGGATAGCATCAAGGAGGGTTTCTCATTCCAGCCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACTCCCATCGCTGACaggtaagtggcagggcagatagatgtttagtcaagcagtcccaaacatggat Alignment from Spaln_aa2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATCAGC----- cctagggattggcaataccagcattactttactgtttctgggcctgccagGGTTTTACATATGTGGCACCTTCCGTCCTGGATAGCATCAAGGAGGGTTTCTCATTCCAGCCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACTCCCATCGCTGACAGgtaagtggcagggcagatagatgtttagtcaagcagtcccaaacatggat Alignment from Spaln_nt2Genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC------AG cctagggattggcaataccagcattactttactgtttctgggcctgccagGGTTTTACATATGTGGCACCTTCCGTCCTGGATAGCATCAAGGAGGGTTTCTCATTCCAGCCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACTCCCATCGCTGACAGgtaagtggcagggcagatagatgtttagtcaagcagtcccaaacatggat Alignment from Pairagon GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCAT------CAG cctagggattggcaataccagcattactttactgtttctgggcctgccagGGTTTTACATATGTGGCACCTTCCGTCCTGGATAGCATCAAGGAGGGTTTCTCATTCCAGCCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACTCCCATCGCTGACAGgtaagtggcagggcagatagatgtttagtcaagcagtcccaaacatggat Alignment from Exonerate_protein2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC------AG cctagggattggcaataccagcattactttactgtttctgggcctgccagGGTTTTACATATGTGGCACCTTCCGTCCTGGATAGCATCAAGGAGGGTTTCTCATTCCAGCCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACTCCCATCGCTGACAGgtaagtggcagggcagatagatgtttagtcaagcagtcccaaacatggat Alignment from Exonerate_coding2genome GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC------AG cctagggattggcaataccagcattactttactgtttctgggcctgccagGGTTTTACATATGTGGCACCTTCCGTCCTGGATAGCATCAAGGAGGGTTTCTCATTCCAGCCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACTCCCATCGCTGACAGgtaagtggcagggcagatagatgtttagtcaagcagtcccaaacatggat Alignment from GeneWise GGCTTTACATATGTGGCACCTTCTGTCCTGGACAGCATCAAAGAGGGCTTCTCCTTCCAGCCCAAGCTGCGTTCTCCCAGACGCCTTAACAGCAGTCCCCGCACCCCCATC------AG cctagggattggcaataccagcattactttactgtttctgggcctgccagGGTTTTACATATGTGGCACCTTCCGTCCTGGATAGCATCAAGGAGGGTTTCTCATTCCAGCCTAAGCTGCGCTCTCCAAGATGCCTTAACAGCAGTCCCCGCACTCCCATCGCTGACAGgtaagtggcagggcagatagatgtttagtcaagcagtcccaaacatggat #### Rps6kb2_ID369_13 --> 0 - 0 Original Alignment ---CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG ctctttcagtaccctgaattctgtaatttgtgtgtgtctctatttctcagTTACAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAAACACCGGTGGATAGCCCAGATGACACAGCCCTAACTGAGAGTGCCAACCAAGCCTTCCTGgtgagtgcctggggttatggggaaaaggattgctcctagggattggcaat Alignment from CESAR ---CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG ctctttcagtaccctgaattctgtaatttgtgtgtgtctctatttctcagTTACAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAAACACCGGTGGATAGCCCAGATGACACAGCCCTAACTGAGAGTGCCAACCAAGCCTTCCTGgtgagtgcctggggttatggggaaaaggattgctcctagggattggcaat Alignment from Spaln_aa2Genome CTGCAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG ctctttcagtaccctgaattctgtaatttgtgtgtgtctctatttctcagTTACAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAAACACCGGTGGATAGCCCAGATGACACAGCCCTAACTGAGAGTGCCAACCAAGCCTTCCTGgtgagtgcctggggttatggggaaaaggattgctcctagggattggcaat Alignment from Spaln_nt2Genome CAATCAGAAGAGG---ATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG ctctttcagtaccctgaattctgtaatttgtgtgtgtctctatttctcagTTACAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAAACACCGGTGGATAGCCCAGATGACACAGCCCTAACTGAGAGTGCCAACCAAGCCTTCCTGgtgagtgcctggggttatggggaaaaggattgctcctagggattggcaat Alignment from Pairagon ---CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG ctctttcagtaccctgaattctgtaatttgtgtgtgtctctatttctcagTTACAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAAACACCGGTGGATAGCCCAGATGACACAGCCCTAACTGAGAGTGCCAACCAAGCCTTCCTGgtgagtgcctggggttatggggaaaaggattgctcctagggattggcaat Alignment from Exonerate_protein2genome CTGCAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG ctctttcagtaccctgaattctgtaatttgtgtgtgtctctatttctcagTTACAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAAACACCGGTGGATAGCCCAGATGACACAGCCCTAACTGAGAGTGCCAACCAAGCCTTCCTGgtgagtgcctggggttatggggaaaaggattgctcctagggattggcaat Alignment from Exonerate_coding2genome CTGCAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG ctctttcagtaccctgaattctgtaatttgtgtgtgtctctatttctcagTTACAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAAACACCGGTGGATAGCCCAGATGACACAGCCCTAACTGAGAGTGCCAACCAAGCCTTCCTGgtgagtgcctggggttatggggaaaaggattgctcctagggattggcaat Alignment from GeneWise ---CAATCAGAAGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAGACGCCGGTAGATAGTCCAGATGACACAGCCCTCAGTGAGAGTGCCAACCAAGCCTTCCTG ctctttcagtaccctgaattctgtaatttgtgtgtgtctctatttctcagTTACAATCTGAGGAGGATGTGAGCCAGTTTGATGCACGATTCACACGGCAAACACCGGTGGATAGCCCAGATGACACAGCCCTAACTGAGAGTGCCAACCAAGCCTTCCTGgtgagtgcctggggttatggggaaaaggattgctcctagggattggcaat #### Rps6kb2_ID370_12 --> 0 - 0 Original Alignment ------------AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcagatagacaggcagagttgacatagttctctctctctctttttcccagGACTGTGAAGTTAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTGGCCTGCCGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtaagtacatggaggtcattttgatcacatagcatggagagaacctctct Alignment from CESAR ------------AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcagatagacaggcagagttgacatagttctctctctctctttttcccagGACTGTGAAGTTAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTGGCCTGCCGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtaagtacatggaggtcattttgatcacatagcatggagagaacctctct Alignment from Spaln_aa2Genome AGGCACCCC------------TTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcagatagacaggcagagttgacatagttctctctctctctttttcccagGACTGTGAAGTTAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTGGCCTGCCGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtaagtacatggaggtcattttgatcacatagcatggagagaacctctct Alignment from Spaln_nt2Genome --AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcagatagacaggcagagttgacatagttctctctctctctttttcccaggactgtgaagTTAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTGGCCTGCCGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtaagtacatggaggtcattttgatcacatagcatggagagaacctctct Alignment from Pairagon ------------AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcagatagacaggcagagttgacatagttctctctctctctttttcccagGACTGTGAAGTTAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTGGCCTGCCGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtaagtacatggaggtcattttgatcacatagcatggagagaacctctct Alignment from Exonerate_protein2genome ------------AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcagatagacaggcagagttgacatagttctctctctctctttttcccagGACTGTGAAGTTAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTGGCCTGCCGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtaagtacatggaggtcattttgatcacatagcatggagagaacctctct Alignment from Exonerate_coding2genome ------------AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcagatagacaggcagagttgacatagttctctctctctctttttcccagGACTGTGAAGTTAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTGGCCTGCCGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtaagtacatggaggtcattttgatcacatagcatggagagaacctctct Alignment from GeneWise ------------AGGCACCCCTTTTTCCGGCACATCAATTGGGATGATCTCTTGGCCCGCCGCGTGGACCCTCCCTTCAGGCCAAGTCTG gcagatagacaggcagagttgacatagttctctctctctctttttcccagGACTGTGAAGTTAGGCACCCTTTCTTTCGACACATCAATTGGGATGACCTCTTGGCCTGCCGTGTGGACCCTCTCTTCAGGCCAAGTCTGgtaagtacatggaggtcattttgatcacatagcatggagagaacctctct #### Rps6kb2_ID371_11 --> 0 - 0 Original Alignment ---------TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccatttgttttctttcaagcgtttccttccactcccacagCGTTTGGAATTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTTTGGGAGATGCTGCTGATGTCCAGgtagagatggatatgtgataatgtacttaagctggaggagaacatggata Alignment from CESAR ---------TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccatttgttttctttcaagcgtttccttccactcccacagCGTTTGGAATTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTTTGGGAGATGCTGCTGATGTCCAGgtagagatggatatgtgataatgtacttaagctggaggagaacatggata Alignment from Spaln_aa2Genome -------TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccatttgttttctttcaagcgtttccttccactcccacagCGTTTGGAATTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTTTGGGAGATGCTGCTGATGTCCAGgtagagatggatatgtgataatgtacttaagctggaggagaacatggata Alignment from Spaln_nt2Genome ---------TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccatttgttttctttcaagcgtttccttccactcccacagCGTTTGGAATTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTTTGGGAGATGCTGCTGATGTCCAGgtagagatggatatgtgataatgtacttaagctggaggagaacatggata Alignment from Pairagon ---------TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccatttgttttctttcaagcgtttccttccactcccacagCGTTTGGAATTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTTTGGGAGATGCTGCTGATGTCCAGgtagagatggatatgtgataatgtacttaagctggaggagaacatggata Alignment from Exonerate_protein2genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccatttgttttctttcaagcgtttccttccactcccacagcgtttggaaTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTTTGGGAGATGCTGCTGATGTCCAGgtagagatggatatgtgataatgtacttaagctggaggagaacatggata Alignment from Exonerate_coding2genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccatttgttttctttcaagcgtttccttccactcccacagcgtttggaaTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTTTGGGAGATGCTGCTGATGTCCAGgtagagatggatatgtgataatgtacttaagctggaggagaacatggata Alignment from GeneWise ---------TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccatttgttttctttcaagcgtttccttccactcccacagCGTTTGGAATTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTTTGGGAGATGCTGCTGATGTCCAGgtagagatggatatgtgataatgtacttaagctggaggagaacatggata #### Rps6kb2_ID372_10 --> 0 - 0 Original Alignment CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttgcagggagctcttccaggtccaccatttgctctcttttgtgtttgcag------TTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATATCTCATGCCCGATGCTCGGGACCTTGCCAAAAAGgtaaaactccctctcattcagagacttattgcttcccccttaagaatgag Alignment from CESAR CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gagatgttgcagggagctcttccagcatttgctctcttttgtgtttgcag------TTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATATCTCATGCCCGATGCTCGGGACCTTGCCAAAAAGgtaaaactccctctcattcagagacttattgcttcccccttaagaatgag Alignment from Spaln_aa2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttgcagggagctcttccaggtccaccatttgctctcttttgtgtttgcag------TTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATATCTCATGCCCGATGCTCGGGACCTTGCCAAAAAGgtaaaactccctctcattcagagacttattgcttcccccttaagaatgag Alignment from Spaln_nt2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttgcagggagctcttccaggtccaccatttgctctcttttgtgtttgcag------TTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATATCTCATGCCCGATGCTCGGGACCTTGCCAAAAAGgtaaaactccctctcattcagagacttattgcttcccccttaagaatgag Alignment from Pairagon CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttgcagggagctcttccaggtccaccatttgctctcttttgtgtttgcag------TTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATATCTCATGCCCGATGCTCGGGACCTTGCCAAAAAGgtaaaactccctctcattcagagacttattgcttcccccttaagaatgag Alignment from Exonerate_protein2genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttgcagggagctcttccaggtccaccatttgctctcttttgtgtTTGCAGTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATATCTCATGCCCGATGCTCGGGACCTTGCCAAAAAGgtaaaactccctctcattcagagacttattgcttcccccttaagaatgag Alignment from Exonerate_coding2genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttgcagggagctcttccaggtccaccatttgctctcttttgtgtTTGCAGTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATATCTCATGCCCGATGCTCGGGACCTTGCCAAAAAGgtaaaactccctctcattcagagacttattgcttcccccttaagaatgag Alignment from GeneWise TTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG ttgcagggagctcttccaggtccaccatttgctctcttttgtgtttgcagTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATATCTCATGCCCGATGCTCGGGACCTTGCCAAAAAGgtaaaactccctctcattcagagacttattgcttcccccttaagaatgag #### Rps6kb2_ID374_8 --> 2 - 2 Original Alignment gcCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACat tggccacacgatttgaggacttttttattctttttatattactttgttaggc------AAACTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACatgttagctctggaaggagtaccacaaagggcctacacttacaggatttctc Alignment from CESAR gcCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACat taggcctggccacacgatttgaggatattctttttatattactttgttaggc------AAACTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACatgttagctctggaaggagtaccacaaagggcctacacttacagaatcatgt Alignment from Spaln_aa2Genome ---AAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACA tggccacacgatttgaggacttttttattctttttatattactttgttagGCAAACTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgttagctctggaaggagtaccacaaagggcctacacttacaggatttctc Alignment from Spaln_nt2Genome -CAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT tggccacacgatttgaggacttttttattctttttatattactttgttagGCAAACTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgttagctctggaaggagtaccacaaagggcctacacttacaggatttctc Alignment from Pairagon GCCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT tggccacacgatttgaggacttttttattctttttatattactttgttagG------CAAACTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgttagctctggaaggagtaccacaaagggcctacacttacaggatttctc Alignment from Exonerate_protein2genome CAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT tggccacacgatttgaggacttttttattctttttatattactttgttaggCAAACTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgttagctctggaaggagtaccacaaagggcctacacttacaggatttctc Alignment from Exonerate_coding2genome CAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT tggccacacgatttgaggacttttttattctttttatattactttgttaggCAAACTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgttagctctggaaggagtaccacaaagggcctacacttacaggatttctc Alignment from GeneWise --AAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT tggccacacgatttgaggacttttttattctttttatattactttgttagGCAAACTGACATACTTAGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgttagctctggaaggagtaccacaaagggcctacacttacaggatttctc #### Rrp12_ID8295_28 --> 1 - 1 Original Alignment cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg tgaagttagatggccctattatttgattttgttttgtgattttgttccagc---GAGGAAATTTCAGCTGATTCAGAGGATGAGTTTGAGGAGGAAGAAAGAGGCCGGGGCAAGGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGAGCATGG---AAGGACGGTGGCGGTGATGGGCCTCTCAACTTC------CCCAAGGTTGCACATCGTGTCCGTggtgaggaaggaaagctgaccagggaaaagttgccctcccctgttgctgga Alignment from CESAR cATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTg agctgaagttagatggccctattatattttgttttgtgattttgttccagc---GAGGAAATTTCAGCTGATTCAGAGGATGAGTTTGAGGAGGAAGAAAGAGGCCGGGGCAAGGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGAGCATGG---AAGGACGGTGGCGGTGATGGGCCTCTCAACTTC------CCCAAGGTTGCACATCGTGTCCGTggtgaggaaggaaagctgaccagggaaaagttgccctcccctgttgctgga Alignment from Spaln_aa2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG tgaagttagatggccctattatttgattttgttttgtgattttgttccagC---GAGGAAATTTCAGCTGATTCAGAGGATGAGTTTGAGGAGGAAGAAAGAGGCCGGGGCAAGGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGAGCATGG---AAGGACGGTGGCGGTGATGGGCCTCTCAACTTC------CCCAAGGTTGCACATCGTGTCCGTGgtgaggaaggaaagctgaccagggaaaagttgccctcccctgttgctgga Alignment from Spaln_nt2Genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG tgaagttagatggccctattatttgattttgttttgtgattttgttccagC---GAGGAAATTTCAGCTGATTCAGAGGATGAGTTTGAGGAGGAAGAAAGAGGCCGGGGCAAGGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGAGCATG---GAAGGACGGTGGCGGTGATGGGCCTCTCAACTTC------CCCAAGGTTGCACATCGTGTCCGTGgtgaggaaggaaagctgaccagggaaaagttgccctcccctgttgctgga Alignment from Pairagon CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG tgaagttagatggccctattatttgattttgttttgtgattttgttccagC---GAGGAAATTTCAGCTGATTCAGAGGATGAGTTTGAGGAGGAAGAAAGAGGCCGGGGCAAGGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGAGCATG---GAAGGACGGTGGCGGTGATGGGCCTCTCAACTTC------CCCAAGGTTGCACATCGTGTCCGTGgtgaggaaggaaagctgaccagggaaaagttgccctcccctgttgctgga Alignment from Exonerate_protein2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG tgaagttagatggccctattatttgattttgttttgtgattttgttccagC---GAGGAAATTTCAGCTGATTCAGAGGATGAGTTTGAGGAGGAAGAAAGAGGCCGGGGCAAGGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGAGCATGG---AAGGACGGTGGCGGTGATGGGCCTCTCAACTTC------CCCAAGGTTGCACATCGTGTCCGTGgtgaggaaggaaagctgaccagggaaaagttgccctcccctgttgctgga Alignment from Exonerate_coding2genome CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG tgaagttagatggccctattatttgattttgttttgtgattttgttccagC---GAGGAAATTTCAGCTGATTCAGAGGATGAGTTTGAGGAGGAAGAAAGAGGCCGGGGCAAGGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGAGCATGG---AAGGACGGTGGCGGTGATGGGCCTCTCAACTTC------CCCAAGGTTGCACATCGTGTCCGTGgtgaggaaggaaagctgaccagggaaaagttgccctcccctgttgctgga Alignment from GeneWise CATTGAGGAGATTTTGGCTGACTCTGAGGATGAGGATGAGGAAGAAGAAAGAGGCCGGGGCAAGGAGCAGCGGAAGCTGGCACGACAGAGGAGCCGGGCATGGCTGAAGGAAGGTGGTGGCGATGAGCCCCTCAACTTCCTGGATCCCAAGGTGGCCCATCGAGTCCTTG tgaagttagatggccctattatttgattttgttttgtgattttgttccagC---GAGGAAATTTCAGCTGATTCAGAGGATGAGTTTGAGGAGGAAGAAAGAGGCCGGGGCAAGGAGCAGCAGAAGTTGGCGCAACAGAGGAGCCGAGCATGG---AAGGACGGTGGCGGTGATGGGCCTCTCAACTTC------CCCAAGGTTGCACATCGTGTCCGTGgtgaggaaggaaagctgaccagggaaaagttgccctcccctgttgctgga #### Rrp12_ID8300_23 --> 0 - 1 Original Alignment GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAg ttgatactactattaaacggtagcatgttttccctctctctgcccttcag---------------------------GTGAGTGCAAGGAAGAGTGCATTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGTGCTTTGGCTCCAACCAGGAAggttggcggaggactgccttggccaagtgaggacttgtttttttctttttt Alignment from CESAR GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAg ccagccagcctgtacttcagtgccatgttttccctctctctgcccttcag---------------------------GTGAGTGCAAGGAAGAGTGCATTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGTGCTTTGGCTCCAACCAGGAAggttggcggaggactgccttggccaagtgaggacttgtttttttctttttt Alignment from Spaln_aa2Genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAG ttgatactactattaaacggtagCATGTTTTCCCTCTCTCTGCCCTTCAGGTGAGTGCAAGGAAGAGTGCATTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGTGCTTTGGCTCCAACCAGGAAGgttggcggaggactgccttggccaagtgaggacttgtttttttctttttt Alignment from Spaln_nt2Genome GTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAG ttgatactactattaaacggtagcatgttttccctctctctgcccttcagGTGAGTGCAAGGAAGAGTGCATTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGTGCTTTGGCTCCAACCAGGAAGgttggcggaggactgccttggccaagtgaggacttgtttttttctttttt Alignment from Pairagon TCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAG ttgatactactattaaacggtagcatgttttccctctctctgcccttcag-----------------------GTGAGTGCAAGGAAGAGTGCATTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGTGCTTTGGCTCCAACCAGGAAGgttggcggaggactgccttggccaagtgaggacttgtttttttctttttt Alignment from Exonerate_protein2genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAG ttgatactactattaaacggtagCATGTTTTCCCTCTCTCTGCCCTTCAGGTGAGTGCAAGGAAGAGTGCATTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGTGCTTTGGCTCCAACCAGGAAGgttggcggaggactgccttggccaagtgaggacttgtttttttctttttt Alignment from Exonerate_coding2genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAG ttgatactactattaaacggtagCATGTTTTCCCTCTCTCTGCCCTTCAGGTGAGTGCAAGGAAGAGTGCATTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGTGCTTTGGCTCCAACCAGGAAGgttggcggaggactgccttggccaagtgaggacttgtttttttctttttt Alignment from GeneWise GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAG ttgatactactattaaacggtagCATGTTTTCCCTCTCTCTGCCCTTCAGGTGAGTGCAAGGAAGAGTGCATTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGTGCTTTGGCTCCAACCAGGAAGgttggcggaggactgccttggccaagtgaggacttgtttttttctttttt #### Rrp12_ID8301_22 --> 0 - 0 Original Alignment CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG gtgcaaagtgacaggggggccttgtctgtaaccctcttccttccttttag---------AAATGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgtatgggggtgtggaaggctgtgggatcccaagcaacgcctgaggaggga Alignment from CESAR CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG gaatggttagtgcaaagtgacagggctgtaaccctcttccttccttttag---------AAATGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgtatgggggtgtggaaggctgtgggatcccaagcaacgcctgaggaggga Alignment from Spaln_aa2Genome CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG gtgcaaagtgacaggggggccttgtctgtaaccctcttccttccttttag---------AAATGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgtatgggggtgtggaaggctgtgggatcccaagcaacgcctgaggaggga Alignment from Spaln_nt2Genome AAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG gtgcaaagtgacaggggggccttgtctgtaaccctcttccttccttttagAAATGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgtatgggggtgtggaaggctgtgggatcccaagcaacgcctgaggaggga Alignment from Pairagon CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG gtgcaaagtgacaggggggccttgtctgtaaccctcttccttccttttag---------AAATGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgtatgggggtgtggaaggctgtgggatcccaagcaacgcctgaggaggga Alignment from Exonerate_protein2genome TTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG gtgcaaagtgacaggggggccttgtctgtaaccctcttccttccttTTAGAAATGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgtatgggggtgtggaaggctgtgggatcccaagcaacgcctgaggaggga Alignment from Exonerate_coding2genome TTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG gtgcaaagtgacaggggggccttgtctgtaaccctcttccttccttTTAGAAATGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgtatgggggtgtggaaggctgtgggatcccaagcaacgcctgaggaggga Alignment from GeneWise CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG gtgcaaagtgacaggggggccttgtctgtaaccctcttccttccttttagAAA---------TGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgtatgggggtgtggaaggctgtgggatcccaagcaacgcctgaggaggga #### Rrp12_ID8304_19 --> 0 - 2 Original Alignment ------------TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCag gtgcctgatgccatggtcactccatttaactaatgtgttctcccttgcagTCATGGCGACAACTGGTGAATAGCTTCCTGGACAAGGCAACCGAGAAGGTTCTCGACCCTGCCAGCTCGGATTTCACCaggtaagattgctgagcttcctcatgtgccgtgggagatgcagggtacctag Alignment from CESAR ------------TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCag gtgcctgatgccatggtcactccatttaactaatgtgttctcccttgcagTCATGGCGACAACTGGTGAATAGCTTCCTGGACAAGGCAACCGAGAAGGTTCTCGACCCTGCCAGCTCGGATTTCACCaggtaagattgctgagcttcctcatgtgccgtgggagatgcagggtacctag Alignment from Spaln_aa2Genome CAGTTGGTGAATAGCTTC---------CTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtgcctgatgccatggtcactccatttaactaatgtgttctcccttgcagTCATGGCGACAACTGGTGAATAGCTTCCTGGACAAGGCAACCGAGAAGGTTCTCGACCCTGCCAGCTCGGATTTCACCAGgtaagattgctgagcttcctcatgtgccgtgggagatgcagggtacctag Alignment from Spaln_nt2Genome TTGGTGAATA------------GCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtgcctgatgccatggtcactccatttaactaatgtgttctcccttgcagTCATGGCGACAACTGGTGAATAGCTTCCTGGACAAGGCAACCGAGAAGGTTCTCGACCCTGCCAGCTCGGATTTCACCAGgtaagattgctgagcttcctcatgtgccgtgggagatgcagggtacctag Alignment from Pairagon T------------TGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtgcctgatgccatggtcactccatttaactaatgtgttctcccttgcagTCATGGCGACAACTGGTGAATAGCTTCCTGGACAAGGCAACCGAGAAGGTTCTCGACCCTGCCAGCTCGGATTTCACCAGgtaagattgctgagcttcctcatgtgccgtgggagatgcagggtacctag Alignment from Exonerate_protein2genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtgcctgatgccatggtcactccatttaactaatgtgttctcccttgcagtcatggcgacaaCTGGTGAATAGCTTCCTGGACAAGGCAACCGAGAAGGTTCTCGACCCTGCCAGCTCGGATTTCACCAGgtaagattgctgagcttcctcatgtgccgtgggagatgcagggtacctag Alignment from Exonerate_coding2genome TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtgcctgatgccatggtcactccatttaactaatgtgttctcccttgcagtcatggcgacaaCTGGTGAATAGCTTCCTGGACAAGGCAACCGAGAAGGTTCTCGACCCTGCCAGCTCGGATTTCACCAGgtaagattgctgagcttcctcatgtgccgtgggagatgcagggtacctag Alignment from GeneWise ------------TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtgcctgatgccatggtcactccatttaactaatgtgttctcccttgcagTCATGGCGACAACTGGTGAATAGCTTCCTGGACAAGGCAACCGAGAAGGTTCTCGACCCTGCCAGCTCGGATTTCACCAGgtaagattgctgagcttcctcatgtgccgtgggagatgcagggtacctag #### Rrp12_ID8305_18 --> 2 - 0 Original Alignment agGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG tattatcggctttttccaatcaacgggggaaaccctatggctttgggcagag---GACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTTCTGCCAATCCTCTTTAACCTGTATGGGCAACCAGTTGCAGCTGGAGAGACAGCC---CCCCGCCGTGCTGTGCTGGAA---ATCAAAACTTATCTCACTGTAACTGAGGCCCAGgtaagtactgtgccttggaagggtcaacaatccctccaggtgctggaggt Alignment from CESAR agGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG atttattatcggctttttccaatcaggggaaaccctatggctttgggcagag---GACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTTCTGCCAATCCTCTTTAACCTGTATGGGCAACCAGTTGCAGCTGGAGAG---ACAGCCCCCCGCCGTGCTGTGCTGGAA---ATCAAAACTTATCTCACTGTAACTGAGGCCCAGgtaagtactgtgccttggaagggtcaacaatccctccaggtgctggaggt Alignment from Spaln_aa2Genome AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG tattatcggctttttccaatcaacgggggaaaccctatggctttgggcagAG---GACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTTCTGCCAATCCTCTTTAACCTGTATGGGCAACCAGTTGCAGCTGGAGAG---ACAGCCCCCCGCCGTGCTGTGCTGGAA---ATCAAAACTTATCTCACTGTAACTGAGGCCCAGgtaagtactgtgccttggaagggtcaacaatccctccaggtgctggaggt Alignment from Spaln_nt2Genome AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG tattatcggctttttccaatcaacgggggaaaccctatggctttgggcagAG---GACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTTCTGCCAATCCTCTTTAACCTGTATGGGCAACCAGTTGCAGCTGGAGA---GACAGCCCCCCGCCGTGCTGTGCTGGAA---ATCAAAACTTATCTCACTGTAACTGAGGCCCAGgtaagtactgtgccttggaagggtcaacaatccctccaggtgctggaggt Alignment from Pairagon AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG tattatcggctttttccaatcaacgggggaaaccctatggctttgggcagAG---GACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTTCTGCCAATCCTCTTTAACCTGTATGGGCAACCAGTTGCAGCTGGAGA---GACAGCCCCCCGCCGTGCTGTGCTGGAA---ATCAAAACTTATCTCACTGTAACTGAGGCCCAGgtaagtactgtgccttggaagggtcaacaatccctccaggtgctggaggt Alignment from Exonerate_protein2genome AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG tattatcggctttttccaatcaacgggggaaaccctatggctttgggcagAG---GACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTTCTGCCAATCCTCTTTAACCTGTATGGGCAACCAGTTGCAGCTGGAGAG---ACAGCCCCCCGCCGTGCTGTGCTGGAA---ATCAAAACTTATCTCACTGTAACTGAGGCCCAGgtaagtactgtgccttggaagggtcaacaatccctccaggtgctggaggt Alignment from Exonerate_coding2genome AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG tattatcggctttttccaatcaacgggggaaaccctatggctttgggcagAG---GACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTTCTGCCAATCCTCTTTAACCTGTATGGGCAACCAGTTGCAGCTGGAGAG---ACAGCCCCCCGCCGTGCTGTGCTGGAA---ATCAAAACTTATCTCACTGTAACTGAGGCCCAGgtaagtactgtgccttggaagggtcaacaatccctccaggtgctggaggt Alignment from GeneWise AGGCTGACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTCCTGCCAATCCTCTTCAACCTGTATGGGCAGCCTGTTGCAGCTGGAGAGGCGGCAGCCCCTCGCCGTGCTGTGCTGGAAACCATCAAAACTTACCTCACCATAACTGAGGCTCAG tattatcggctttttccaatcaacgggggaaaccctatggctttgggcagAG---GACCGAGCTGAAGTGAGCCGCTTTGCCAAAAACTTTCTGCCAATCCTCTTTAACCTGTATGGGCAACCAGTTGCAGCTGGAGAGACAGCC---CCCCGCCGTGCTGTGCTGGAA---ATCAAAACTTATCTCACTGTAACTGAGGCCCAGgtaagtactgtgccttggaagggtcaacaatccctccaggtgctggaggt #### Rrp12_ID8306_17 --> 0 - 1 Original Alignment ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAg gggatggagcatgtctatgaggcatgacaatctgcttttccttttcacag---TGGACCCTTCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTGCTTTGGGTACAGCTATCAATGAGTGTCCAGACCTGAGGGTCAGTGTTTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAggcaagagggaagccttttgggaagatgacctgggatgccaccatgctcta Alignment from CESAR ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAg caagggatggagcatgtctatgagggacaatctgcttttccttttcacag---TGGACCCTTCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTGCTTTGGGTACAGCTATCAATGAGTGTCCAGACCTGAGGGTCAGTGTTTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAggcaagagggaagccttttgggaagatgacctgggatgccaccatgctcta Alignment from Spaln_aa2Genome ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG gggatggagcatgtctatgaggcatgacaatctgcttttccttttcacag---TGGACCCTTCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTGCTTTGGGTACAGCTATCAATGAGTGTCCAGACCTGAGGGTCAGTGTTTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgcaagagggaagccttttgggaagatgacctgggatgccaccatgctcta Alignment from Spaln_nt2Genome ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG gggatggagcatgtctatgaggcatgacaatctgcttttccttttcacag---TGGACCCTTCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTGCTTTGGGTACAGCTATCAATGAGTGTCCAGACCTGAGGGTCAGTGTTTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgcaagagggaagccttttgggaagatgacctgggatgccaccatgctcta Alignment from Pairagon ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG gggatggagcatgtctatgaggcatgacaatctgcttttccttttcacag---TGGACCCTTCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTGCTTTGGGTACAGCTATCAATGAGTGTCCAGACCTGAGGGTCAGTGTTTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgcaagagggaagccttttgggaagatgacctgggatgccaccatgctcta Alignment from Exonerate_protein2genome TGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG gggatggagcatgtctatgaggcatgacaatctgcttttccttttcacagTGGACCCTTCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTGCTTTGGGTACAGCTATCAATGAGTGTCCAGACCTGAGGGTCAGTGTTTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgcaagagggaagccttttgggaagatgacctgggatgccaccatgctcta Alignment from Exonerate_coding2genome TGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG gggatggagcatgtctatgaggcatgacaatctgcttttccttttcacagTGGACCCTTCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTGCTTTGGGTACAGCTATCAATGAGTGTCCAGACCTGAGGGTCAGTGTTTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgcaagagggaagccttttgggaagatgacctgggatgccaccatgctcta Alignment from GeneWise TGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCT gggatggagcatgtctatgaggcatgacaatctgcttttccttttcacagTGGACCCTTCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTGCTTTGGGTACAGCTATCAATGAGTGTCCAGACCTGAGGGTCAGTGTTTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTgtgaggcaggcaagagggaagccttttgggaagatgacctgggatgccaccatgctcta #### Sart1_ID956_19 --> 0 - 2 Original Alignment CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc taggcctggtatcactgatactggggcttctctccatgttgaatatgtag---------AAAATGAGCTCTAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCTCATATTGTGCTCAGTGGCAGTGGCAAGAGTATGAATgcgtaagagtgggtaggagttggaagggtgggtggtaagctgaacgataggt Alignment from CESAR CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATgc gtaatatgttaggcctggtatcactgcttctctccatgttgaatatgtag---------AAAATGAGCTCTAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCTCATATTGTGCTCAGTGGCAGTGGCAAGAGTATGAATgcgtaagagtgggtaggagttggaagggtgggtggtaagctgaacgataggt Alignment from Spaln_aa2Genome AAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC taggcctggtatcactgatactggggcttctctccatgttgaatatgtagAAAATGAGCTCTAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCTCATATTGTGCTCAGTGGCAGTGGCAAGAGTATGAATGCgtaagagtgggtaggagttggaagggtgggtggtaagctgaacgataggt Alignment from Spaln_nt2Genome AAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC taggcctggtatcactgatactggggcttctctccatgttgaatatgtagAAAATGAGCTCTAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCTCATATTGTGCTCAGTGGCAGTGGCAAGAGTATGAATGCgtaagagtgggtaggagttggaagggtgggtggtaagctgaacgataggt Alignment from Pairagon -------------------------GCTCC---------------TGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGC TAGGCCTGGTATCACTGATACTGGGGCTTCTCTCCATGTTGAATATGTAGAAAATGAGCTCTAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCTCATATTGTGCTCAGTGGCAGTGGCAAGAGTATGAATGCgtaagagtgggtaggagttggaagggtgggtggtaagctgaacgataggt Alignment from Exonerate_protein2genome AAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG taggcctggtatcactgatactggggcttctctccatgttgaatatgtagAAAATGAGCTCTAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCTCATATTGTGCTCAGTGGCAGTGGCAAGAGTATGAATGCGtaagagtgggtaggagttggaagggtgggtggtaagctgaacgataggt Alignment from Exonerate_coding2genome AAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG taggcctggtatcactgatactggggcttctctccatgttgaatatgtagAAAATGAGCTCTAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCTCATATTGTGCTCAGTGGCAGTGGCAAGAGTATGAATGCGtaagagtgggtaggagttggaagggtgggtggtaagctgaacgataggt Alignment from GeneWise AAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG taggcctggtatcactgatactggggcttctctccatgttgaatatgtagAAAATGAGCTCTAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCTCATATTGTGCTCAGTGGCAGTGGCAAGAGTATGAATGCGtaagagtgggtaggagttggaagggtgggtggtaagctgaacgataggt #### Sart1_ID960_15 --> 0 - 1 Original Alignment TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAg tggatgggggatatggggctaccttctcatcttgtcttgtttcttaacagTTCTCTGCTTCTTCTACCACTATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTAGCTGCTGCCCTGCTCCTGTGTCAG------ggtatgctgtagcgctcaggaagggtgctctggcagagtgtgtatttcatc Alignment from CESAR TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAg tggatgggggatatggggctaccttctcatcttgtcttgtttcttaacagTTCTCTGCTTCTTCTACCACTATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTAGCTGCTGCCCTGCTCCTGTGTCAG------ggtatgctgtagcgctcaggaagggtgctctggcagagtgtgtatttcatc Alignment from Spaln_aa2Genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAG- tggatgggggatatggggctaccttctcatcttgtcttgtttcttaacagTTCTCTGCTTCTTCTACCACTATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTAGCTGCTGCCCTGCTCCTGTGTCAGGgtatgctgtagcgctcaggaagggtgctctggcagagtgtgtatttcatc Alignment from Spaln_nt2Genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggatgggggatatggggctaccttctcatcttgtcttgtttcttaacagTTCTCTGCTTCTTCTACCACTATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTAGCTGCTGCCCTGCTCCTGTGTCAG------Ggtatgctgtagcgctcaggaagggtgctctggcagagtgtgtatttcatc Alignment from Pairagon TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggatgggggatatggggctaccttctcatcttgtcttgtttcttaacagTTCTCTGCTTCTTCTACCACTATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTAGCTGCTGCCCTGCTCCTGTGTCAG------Ggtatgctgtagcgctcaggaagggtgctctggcagagtgtgtatttcatc Alignment from Exonerate_protein2genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggatgggggatatggggctaccttctcatcttgtcttgtttcttaacagTTCTCTGCTTCTTCTACCACTATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTAGCTGCTGCCCTGCTCCTGTGTCAG------Ggtatgctgtagcgctcaggaagggtgctctggcagagtgtgtatttcatc Alignment from Exonerate_coding2genome TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGAACAAAG tggatgggggatatggggctaccttctcatcttgtcttgtttcttaacagTTCTCTGCTTCTTCTACCACTATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTAGCTGCTGCCCTGCTCCTGTGTCAG------Ggtatgctgtagcgctcaggaagggtgctctggcagagtgtgtatttcatc Alignment from GeneWise TTCTCTGCTTCCTCTACCACCATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTGGCTGCTGCCCTGCTCCTGTGTCAGA tggatgggggatatggggctaccttctcatcttgtcttgtttcttaacagTTCTCTGCTTCTTCTACCACTATCCTGGATGAGGAGCCCATCGTGAACAGAGGGCTAGCTGCTGCCCTGCTCCTGTGTCAGGgtatgctgtagcgctcaggaagggtgctctggcagagtgtgtatttcatc #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG accccatgaacttggggtctgcccacagactaatcttgtgcatctttcagGTGCTGGAGATCGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAGAGAGGAAGGGGACGTCAGTGTTCAATGCCACTTCAGAATTCTGCTGTACACTGGGGGAGCTCCCCACCTATGGGTTGGCAGGCAACCGTGAGGGGCAGGAAGAG------gtaagttccgatcaagtgttgcctggcttttgtccttaggctgctgatgc Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG accccatgaacttggggtctgcccacagactaatcttgtgcatctttcagGTGCTGGAGATCGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAGAGAGGAAGGGGACGTCAGTGTTCAATGCCACTTCAGAATTCTGCTGTACACTGGGGGAGCTCCCCACCTATGGGTTGGCAGGCAACCGTGAGGGGCAGGAAGAG------gtaagttccgatcaagtgttgcctggcttttgtccttaggctgc Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAG accccatgaacttggggtctgcccacagactaatcttgtgcatctttcagGTGCTGGAGATCGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAGAGAGGAAGGGGACGTCAGTGTTCAATGCCACTTCAGAATTCTGCTGTACACTGGGGGAGCTCCCCACCTATGGGTTGGCAGGCAACCGTGAGGGGCAGGAAGAGgtaagttccgatcaagtgttgcctggcttttgtccttaggctgctgatgc Alignment from Spaln_nt2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAG accccatgaacttggggtctgcccacagactaatcttgtgcatctttcagGTGCTGGAGATCGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAGAGAGGAAGGGGACGTCAGTGTTCAATGCCACTTCAGAATTCTGCTGTACACTGGGGGAGCTCCCCACCTATGGGTTGGCAGGCAACCGTGAGGGGCAGGAAGAGgtaagttccgatcaagtgttgcctggcttttgtccttaggctgctgatgc Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAG accccatgaacttggggtctgcccacagactaatcttgtgcatctttcagGTGCTGGAGATCGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAGAGAGGAAGGGGACGTCAGTGTTCAATGCCACTTCAGAATTCTGCTGTACACTGGGGGAGCTCCCCACCTATGGGTTGGCAGGCAACCGTGAGGGGCAGGAAGAGgtaagttccgatcaagtgttgcctggcttttgtccttaggctgctgatgc Alignment from Exonerate_protein2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAG accccatgaacttggggtctgcccacagactaatcttgtgcatctttcagGTGCTGGAGATCGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAGAGAGGAAGGGGACGTCAGTGTTCAATGCCACTTCAGAATTCTGCTGTACACTGGGGGAGCTCCCCACCTATGGGTTGGCAGGCAACCGTGAGGGGCAGGAAGAGgtaagttccgatcaagtgttgcctggcttttgtccttaggctgctgatgc Alignment from Exonerate_coding2genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAG accccatgaacttggggtctgcccacagactaatcttgtgcatctttcagGTGCTGGAGATCGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAGAGAGGAAGGGGACGTCAGTGTTCAATGCCACTTCAGAATTCTGCTGTACACTGGGGGAGCTCCCCACCTATGGGTTGGCAGGCAACCGTGAGGGGCAGGAAGAGgtaagttccgatcaagtgttgcctggcttttgtccttaggctgctgatgc Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG--------- accccatgaacttggggtctgcccacagactaatcttgtgcatctttcagGTGCTGGAGATCGTGAAGAAACTAGAGTCCCGTCAGCGTGGCTGGGAGGAGGGGGAGGACCCAGAGAGGAAGGGGACGTCAGTGTTCAATGCCACTTCAGAATTCTGCTGTACACTGGGGGAGCTCCCCACCTATGGGTTGGCAGGCAACCGTGAGGGGCAGGAAGAGGTAAGTTCCGATCAAgtgttgcctggcttttgtccttaggctgctgatgc #### Sart1_ID967_8 --> 2 - 0 Original Alignment ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG--- gagatgtgacatgacaaatggtgactgtagacctcctctttcctttatagggGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCCGACTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGGGAgtaagtctgtggagtctgtgggatatccactggggctgatggtgttcgct Alignment from CESAR ggGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG--- gagatgtgacatgacaaatggtgactgtagacctcctctttcctttatagggGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCCGACTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGGGAgtaagtctgtggagtctgtgggatatccactggggctgatggtgttcgct Alignment from Spaln_aa2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG--- gagatgtgacatgacaaatggtgactgtagacctcctctttcctttatagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCCGACTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGGGAgtaagtctgtggagtctgtgggatatccactggggctgatggtgttcgct Alignment from Spaln_nt2Genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG--- gagatgtgacatgacaaatggtgactgtagacctcctctttcctttatagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCCGACTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGGGAgtaagtctgtggagtctgtgggatatccactggggctgatggtgttcgct Alignment from Pairagon GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG--- gagatgtgacatgacaaatggtgactgtagacctcctctttcctttatagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCCGACTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGGGAgtaagtctgtggagtctgtgggatatccactggggctgatggtgttcgct Alignment from Exonerate_protein2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG gagatgtgacatgacaaatggtgactgtagacctcctctttcctttatagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCCGACTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGggagtaagtctgtggagtctgtgggatatccactggggctgatggtgttcgct Alignment from Exonerate_coding2genome GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAG gagatgtgacatgacaaatggtgactgtagacctcctctttcctttatagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCCGACTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGggagtaagtctgtggagtctgtgggatatccactggggctgatggtgttcgct Alignment from GeneWise GGGTACTGCAGGACGGGGAGGACGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCGGACAAGAACGTGGAGCTTCGGAAAAAGAAGCCTGACTACCTGCCCTATGCGGAAGATGAGAGTGTGGACGATTTGGCACAGCAA gagatgtgacatgacaaatggtgactgtagacctcctctttcctttatagGGGTACTCCAGGACGGGGAAGATGTGCTGGTGAATGTGAACATGGTGGACAAGGAGCGGGCAGATAAAAATGTGGAGCTTCGGAAAGAGAAGCCCGACTACCTGACCTATGTGGAAGATGAGGGTGTGGATGACTTGGCACAGGGAgtaagtctgtggagtctgtgggatatccactggggctgatggtgttcgct #### Sart1_ID969_6 --> 0 - 0 Original Alignment GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG tgtgagttttgggacaccaacaatgatgtctctggcctgcaactttccagGCTAAGCTATTGGAGGAGATGGATCAAGAGTTTGGTGTGAGCACTTTAGTTGAGGAGGAGTTTGAGCAGAGGCGA---gtatgaggaaccaatttccgaagattatctggtagacatcatttcaattt Alignment from CESAR GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG tgtgagttttgggacaccaacaatgatgtctctggcctgcaactttccagGCTAAGCTATTGGAGGAGATGGATCAAGAGTTTGGTGTGAGCACTTTAGTTGAGGAGGAGTTTGAGCAGAGGCGA---gtatgaggaaccaatttccgaagattatctggtagacatcatttcaa Alignment from Spaln_aa2Genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGA tgtgagttttgggacaccaacaatgatgtctctggcctgcaactttccagGCTAAGCTATTGGAGGAGATGGATCAAGAGTTTGGTGTGAGCACTTTAGTTGAGGAGGAGTTTGAGCAGAGGCGAgtatgaggaaccaatttccgaagattatctggtagacatcatttcaattt Alignment from Spaln_nt2Genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACA tgtgagttttgggacaccaacaatgatgtctctggcctgcaactttccagGCTAAGCTATTGGAGGAGATGGATCAAGAGTTTGGTGTGAGCACTTTAGTTGAGGAGGAGTTTGAGCAGAGGCGAGTatgaggaaccaatttccgaagattatctggtagacatcatttcaattt Alignment from Pairagon GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGA-------------------------------------------------- tgtgagttttgggacaccaacaatgatgtctctggcctgcaactttccagGCTAAGCTATTGGAGGAGATGGATCAAGAGTTTGGTGTGAGCACTTTAGTTGAGGAGGAGTTTGAGCAGAGGCGAGTATGAGGAACCAATTTCCGAAGATTATCTGGTAGACATCATTTCAATTT Alignment from Exonerate_protein2genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGA tgtgagttttgggacaccaacaatgatgtctctggcctgcaactttccagGCTAAGCTATTGGAGGAGATGGATCAAGAGTTTGGTGTGAGCACTTTAGTTGAGGAGGAGTTTGAGCAGAGGCGAgtatgaggaaccaatttccgaagattatctggtagacatcatttcaattt Alignment from Exonerate_coding2genome GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGA tgtgagttttgggacaccaacaatgatgtctctggcctgcaactttccagGCTAAGCTATTGGAGGAGATGGATCAAGAGTTTGGTGTGAGCACTTTAGTTGAGGAGGAGTTTGAGCAGAGGCGAgtatgaggaaccaatttccgaagattatctggtagacatcatttcaattt Alignment from GeneWise GCTAAGCTACTAGAGGAGATGGACCAAGAGTTTGGTGTGAGCACTTTAGTGGAGGAGGAGTTTGAGCAGAGGCGACAG tgtgagttttgggacaccaacaatgatgtctctggcctgcaactttccagGCTAAGCTATTGGAGGAGATGGATCAAGAGTTTGGTGTGAGCACTTTAGTTGAGGAGGAGTTTGAGCAG---AGGCGAgtatgaggaaccaatttccgaagattatctggtagacatcatttcaattt #### Sart1_ID970_5 --> 1 - 0 Original Alignment gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gagcacatgtaggcttgatgtctcttctgcaccccattggctacccacagc---------ACCCTAGGAGAGGATGACCCCTGGCTGGATGACACTGCAGCCTGGATAGAGAGAAGC------CTCCAGAAAGAGAAGGATCTGGCAGAGAAGAGGgtaggtgcacctggcaatgtagggcagttgccagggtgctctgtgctcag Alignment from CESAR gAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gcagatcaagagcacatgtaggctttctgcaccccattggctacccacagc---------ACCCTAGGAGAGGATGACCCCTGGCTGGATGACACTGCAGCCTGGATAGAGAGAAGC------CTCCAGAAAGAGAAGGATCTGGCAGAGAAGAGGgtaggtgcacctggcaatgtagggcagttgccagggtgctctgtgctcag Alignment from Spaln_aa2Genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gagcacatgtaggcttgatgtctcttctgcaccccattggctacccacagC---------ACCCTAGGAGAGGATGACCCCTGGCTGGATGACACTGCAGCCTGGATAGAGAGAAGCCTCCAG------AAAGAGAAGGATCTGGCAGAGAAGAGGgtaggtgcacctggcaatgtagggcagttgccagggtgctctgtgctcag Alignment from Spaln_nt2Genome TA----AA GACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG GAGCACATgtaggcttgatgtctcttctgcaccccattggctacccacagCACCCTAGGAGAGGATGACCCCTGGCTGGATGACACTGCAGCCTGGATAGAGAGAAGC------CTCCAGAAAGAGAAGGATCTGGCAGAGAAGAGGgtaggtgcacctggcaatgtagggcagttgccagggtgctctgtgctcag Alignment from Pairagon GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gagcacatgtaggcttgatgtctcttctgcaccccattggctacccacagcaccctagGA-----------------GAGGATGACCCCTGGCTGGATGACACTGCAGCCTGGATAGAGAGAAGC------CTCCAGAAAGAGAAGGATCTGGCAGAGAAGAGGgtaggtgcacctggcaatgtagggcagttgccagggtgctctgtgctcag Alignment from Exonerate_protein2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gagcacatgtaggcttgatgtctcttctgcaccccattggcTACCCACAGCACCCTAGGAGAGGATGACCCCTGGCTGGATGACACTGCAGCCTGGATAGAGAGAAGC------CTCCAGAAAGAGAAGGATCTGGCAGAGAAGAGGgtaggtgcacctggcaatgtagggcagttgccagggtgctctgtgctcag Alignment from Exonerate_coding2genome GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gagcacatgtaggcttgatgtctcttctgcaccccattggcTACCCACAGCACCCTAGGAGAGGATGACCCCTGGCTGGATGACACTGCAGCCTGGATAGAGAGAAGC------CTCCAGAAAGAGAAGGATCTGGCAGAGAAGAGGgtaggtgcacctggcaatgtagggcagttgccagggtgctctgtgctcag Alignment from GeneWise GAAAATAAAGACACTGGGGGAGGATGACCCCTGGCTGGATGATACTGCAGCCTGGATAGAGAGGAGCCGGCAGCTACAGAAAGAGAAGGACCTGGCAGAGAAGCGG gagcacatgtaggcttgatgtctcttctgcaccccattggctacccacagC---------ACCCTAGGAGAGGATGACCCCTGGCTGGATGACACTGCAGCCTGGATAGAGAGAAGC------CTCCAGAAAGAGAAGGATCTGGCAGAGAAGAGGgtaggtgcacctggcaatgtagggcagttgccagggtgctctgtgctcag #### Sart1_ID972_3 --> 1 - 1 Original Alignment tAAACTCCGAGCAAAGTTGGGGCTGAAGCCCTTGGAGGTCAATGCTGTTAAGAAAg ggcctaactttttcccctgggtccgcacactgtcttctttctgttttcagt---------------------CTGAGGCCCCTGGAGGTCAATGCTGTTCAAAAAggtgagtgcaaggcagacattggggtttagtgggcagagatgtggtactta Alignment from CESAR tAAACTCCGAGCAAAGTTGGGGCTGAAGCCCTTGGAGGTCAATGCTGTTAAGAAAg attggaaggcccccttctcagggcccacactgtcttctttctgttttcagt---------------------CTGAGGCCCCTGGAGGTCAATGCTGTTCAAAAAggtgagtgcaaggcagacattggggtttagtgggcagagatgtggtactta Alignment from Spaln_aa2Genome GCTGAAGCCCTTGGAGGTCAATGCTGTTAAGAAAG ggcctaactttttcccctgggtccgcacactgtcttctttctgttttcagTCTGAGGCCCCTGGAGGTCAATGCTGTTCAAAAAGgtgagtgcaaggcagacattggggtttagtgggcagagatgtggtactta Alignment from Spaln_nt2Genome GCTGAAGCCCTTGGAGGTCAATGCTGTTAAGAAAG ggcctaactttttcccctgggtccgcacactgtcttctttctgttttcagTCTGAGGCCCCTGGAGGTCAATGCTGTTCAAAAAGgtgagtgcaaggcagacattggggtttagtgggcagagatgtggtactta Alignment from Pairagon TAAACTCCGAGCAAAGTTGGGGCTGAAGCCCTTGGAGGTCAATGCTGTTAAGAAAG ggcctaactttttcccctgggtccgcacactgtcttctttctgttttcagT---------------------CTGAGGCCCCTGGAGGTCAATGCTGTTCAAAAAGgtgagtgcaaggcagacattggggtttagtgggcagagatgtggtactta Alignment from Exonerate_protein2genome GCTGAAGCCCTTGGAGGTCAATGCTGTTAAGAAAG ggcctaactttttcccctgggtccgcacactgtcttctttctgttttcagTCTGAGGCCCCTGGAGGTCAATGCTGTTCAAAAAGgtgagtgcaaggcagacattggggtttagtgggcagagatgtggtactta Alignment from Exonerate_coding2genome ggcctaactttttcccctgggtccgcacactgtcttctttctgttttcagtctgaggcccctggaggtcaatgctgttcaaaaaggtgagtgcaaggcagacattggggtttagtgggcagagatgtggtactta Alignment from GeneWise ggcctaactttttcccctgggtccgcacactgtcttctttctgttttcagtctgaggcccctggaggtcaatgctgttcaaaaaggtgagtgcaaggcagacattggggtttagtgggcagagatgtggtactta #### Sec31b_ID9028_24 --> 0 - 0 Original Alignment AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA------------ ctagtgtcaggagtcattattaggatcattcattttcttacatataacagAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAAATGGGTGGCTCgtaagacctctgtgcagggtacctacactcctgcctagtttcaaagacat Alignment from CESAR AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA------------ ctagtgtcaggagtcattattaggatcattcattttcttacatataacagAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAAATGGGTGGCTCgtaagacctctgtgcagggtacctacactcctgcctagtttcaaagacat Alignment from Spaln_aa2Genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA------------ ctagtgtcaggagtcattattaggatcattcattttcttacatataacagAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAAATGGGTGGCTCgtaagacctctgtgcagggtacctacactcctgcctagtttcaaagacat Alignment from Spaln_nt2Genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA----- ctagtgtcaggagtcattattaggatcattcattttcttacatataacagAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAAATGGgtggctcgtaagacctctgtgcagggtacctacactcctgcctagtttcaaagacat Alignment from Pairagon AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA------------ ctagtgtcaggagtcattattaggatcattcattttcttacatataacagAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAAATGGGTGGCTCgtaagacctctgtgcagggtacctacactcctgcctagtttcaaagacat Alignment from Exonerate_protein2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagtcattattaggatcattcattttcttacatataacagAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAaatgggtggctcgtaagacctctgtgcagggtacctacactcctgcctagtttcaaagacat Alignment from Exonerate_coding2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagtgtcaggagtcattattaggatcattcattttcttacatataacagAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAaatgggtggctcgtaagacctctgtgcagggtacctacactcctgcctagtttcaaagacat Alignment from GeneWise AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA---------CTC ctagtgtcaggagtcattattaggatcattcattttcttacatataacagAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTTGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAAATGGGTGGCTCgtaagacctctgtgcagggtacctacactcctgcctagtttcaaagacat #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctagataacacttttgtgttttagGATGGGGGCCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCCCAGCCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtaccagactgtcagcccctcccctgatgccaccacaccaggacttgggc Alignment from CESAR ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctagataacacttttgtgttttagGATGGGGGCCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCCCAGCCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtaccagactgtcagcccctcccctgatgccaccacaccaggacttgggc Alignment from Spaln_aa2Genome ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCA acctgtggttgtctagatggttgcccctagataacacttttgtgttttagGATGGGGGCCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCCCAGCCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtaccagactgtcagcccctcccctgatgccaccacaccaggacttgggc Alignment from Spaln_nt2Genome GCTGCCTGAG--------ACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctagataacacttttgtgttttagGATGGGGGCCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCCCAGCCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtaccagactgtcagcccctcccctgatgccaccacaccaggacttgggc Alignment from Pairagon ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctagataacacttttgtgttttagGATGGGGGCCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCCCAGCCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtaccagactgtcagcccctcccctgatgccaccacaccaggacttgggc Alignment from Exonerate_protein2genome ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctagataacacttttgtgttttagGATGGGGGCCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCCCAGCCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtaccagactgtcagcccctcccctgatgccaccacaccaggacttgggc Alignment from Exonerate_coding2genome ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctagataacacttttgtgttttagGATGGGGGCCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCCCAGCCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtaccagactgtcagcccctcccctgatgccaccacaccaggacttgggc Alignment from GeneWise ---------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctagataacacttttgtgttttagGATGGGGGCCTGCCTGAGGCATTCATGACTCCAGCACCAACTACAGCTCCACTTAGAAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCCCAGCCCCTAGTTTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtaccagactgtcagcccctcccctgatgccaccacaccaggacttgggc #### Sec31b_ID9044_8 --> 0 - 0 Original Alignment GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggtgtcccctgacatctgttcctcatccctgacttcatcttaccttttag---GTCTACAAGCTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCACATGAGGCAGGCTGATAAGgtaaacagcaattgcttgagagtgttgggggggggagctgtttgtgtgag Alignment from CESAR GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG gctggtgtcccctgacatctgttcctccctgacttcatcttaccttttag---GTCTACAAGCTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCACATGAGGCAGGCTGATAAGgtaaacagcaattgcttgagagtgttgggggggggagctgtttgtgtgag Alignment from Spaln_aa2Genome GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggtgtcccctgacatctgttcctcatccctgacttcatcttaccttttag---GTCTACAAGCTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCACATGAGGCAGGCTGATAAGgtaaacagcaattgcttgagagtgttgggggggggagctgtttgtgtgag Alignment from Spaln_nt2Genome GTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggtgtcccctgacatctgttcctcatccctgacttcatcttaccttttagGTCTACAAGCTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCACATGAGGCAGGCTGATAAGgtaaacagcaattgcttgagagtgttgggggggggagctgtttgtgtgag Alignment from Pairagon GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggtgtcccctgacatctgttcctcatccctgacttcatcttaccttttag---GTCTACAAGCTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCACATGAGGCAGGCTGATAAGgtaaacagcaattgcttgagagtgttgggggggggagctgtttgtgtgag Alignment from Exonerate_protein2genome GTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggtgtcccctgacatctgttcctcatccctgacttcatcttaccttttagGTCTACAAGCTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCACATGAGGCAGGCTGATAAGgtaaacagcaattgcttgagagtgttgggggggggagctgtttgtgtgag Alignment from Exonerate_coding2genome GTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggtgtcccctgacatctgttcctcatccctgacttcatcttaccttttagGTCTACAAGCTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCACATGAGGCAGGCTGATAAGgtaaacagcaattgcttgagagtgttgggggggggagctgtttgtgtgag Alignment from GeneWise GTGGTCTACAAGCTGCCCACACAGAGCAGCTGGTGCTTTGATGTTCAGTGGTGCCCTCAGAGCCCTCCCGTGTTCTCTGCTGTCTCCTTCGATGGCTGGATCAGTTTGTGCTCTGTGATGGGTAGGAGCTGGGAAGCCCAGCACATGAGGCAGGCTGACAAG ggtgtcccctgacatctgttcctcatccctgacttcatcttaccttttagGTC---TACAAGCTGCCCACACAGAGTAGCTGGTGCTTTGATATTCAGTGGTGCCCTCCCAGCCCTCCAGTACTCTCTGCTGTCTCCTTTGATGGCTGGATCAGTTTGTGTTCTGTGATGGGAAGGAGTTGGGAAGCCCAGCACATGAGGCAGGCTGATAAGgtaaacagcaattgcttgagagtgttgggggggggagctgtttgtgtgag #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment ag---------CTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gcataatagaaagtattccccagctggcgagacctctgtcttggctccagagTATGGGAAGGTCTCACAGGTACGACACTTCAAGGGTCAGGCCCAAAACTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGTACCCTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACGCATAAAGAGgtgagtcactgatgtttggtctcgcaggatctctagcttgatggggccag Alignment from CESAR ag---------CTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gcataatagaaagtattccccagctggcgagacctctgtcttggctccagagTATGGGAAGGTCTCACAGGTACGACACTTCAAGGGTCAGGCCCAAAACTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGTACCCTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACGCATAAAGAGgtgagtcactgatgtttggtctcgcaggatctctagcttgatggggccag Alignment from Spaln_aa2Genome ATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gcataatagaaagtattccccagctggcgagacctctgtcttggctccagagtatgggaaggtctcacagGTACGACACTTCAAGGGTCAGGCCCAAAACTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGTACCCTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACGCATAAAGAGgtgagtcactgatgtttggtctcgcaggatctctagcttgatggggccag Alignment from Spaln_nt2Genome C-TATGAAGAGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gcataatagaaagtattccccagctggcgagacctctgtcttggctccagAGTATGGGAAGGTCTCACAGGTACGACACTTCAAGGGTCAGGCCCAAAACTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGTACCCTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACGCATAAAGAGgtgagtcactgatgtttggtctcgcaggatctctagcttgatggggccag Alignment from Pairagon ---------AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gcataatagaaagtattccccagctggcgagacctctgtcttggctccagAGTATGGGAAGGTCTCACAGGTACGACACTTCAAGGGTCAGGCCCAAAACTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGTACCCTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACGCATAAAGAGgtgagtcactgatgtttggtctcgcaggatctctagcttgatggggccag Alignment from Exonerate_protein2genome AG---------CTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gcataatagaaagtattccccagctggcgagacctctgtcttggctccagAGTATGGGAAGGTCTCACAGGTACGACACTTCAAGGGTCAGGCCCAAAACTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGTACCCTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACGCATAAAGAGgtgagtcactgatgtttggtctcgcaggatctctagcttgatggggccag Alignment from Exonerate_coding2genome AG---------CTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gcataatagaaagtattccccagctggcgagacctctgtcttggctccagAGTATGGGAAGGTCTCACAGGTACGACACTTCAAGGGTCAGGCCCAAAACTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGTACCCTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACGCATAAAGAGgtgagtcactgatgtttggtctcgcaggatctctagcttgatggggccag Alignment from GeneWise --------GAGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG gcataatagaaagtattccccagctggcgagacctctgtcttggctccagAGTATGGGAAGGTCTCACAGGTACGACACTTCAAGGGTCAGGCCCAAAACTATTCAACCCTGCTGTTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGTACCCTGTTCTCCCTCAGTGCACGTGAAATCAGAGAGAGGACGCATAAAGAGgtgagtcactgatgtttggtctcgcaggatctctagcttgatggggccag #### Sema4g_ID9247_5 --> 0 - 1 Original Alignment GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg acagccttgccggccctctgtaccattagttgttgtttgtccacctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATC---ggtaggtaagacagtgtaaccaggcccccagtcccacaattctgtgatctg Alignment from CESAR GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg acagccttgccggccctctgtaccattagttgttgtttgtccacctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATC---ggtaggtaagacagtgtaaccaggcccccagtcccacaattctgtgatctg Alignment from Spaln_aa2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATC- acagccttgccggccctctgtaccattagttgttgtttgtccacctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCGgtaggtaagacagtgtaaccaggcccccagtcccacaattctgtgatctg Alignment from Spaln_nt2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATT-G acagccttgccggccctctgtaccattagttgttgtttgtccacctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCGGTAGgtaagacagtgtaaccaggcccccagtcccacaattctgtgatctg Alignment from Pairagon GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG acagccttgccggccctctgtaccattagttgttgtttgtccacctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATC---Ggtaggtaagacagtgtaaccaggcccccagtcccacaattctgtgatctg Alignment from Exonerate_protein2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCA acagccttgccggccctctgtaccattagttgttgtttgtccacctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCGgtaggtaagacagtgtaaccaggcccccagtcccacaattctgtgatctg Alignment from Exonerate_coding2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCA acagccttgccggccctctgtaccattagttgttgtttgtccacctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCGgtaggtaagacagtgtaaccaggcccccagtcccacaattctgtgatctg Alignment from GeneWise GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG acagccttgccggccctctgtaccattagttgttgtttgtccacctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTT---ATCGgtaggtaagacagtgtaaccaggcccccagtcccacaattctgtgatctg #### Sema4g_ID9250_8 --> 0 - 2 Original Alignment GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg aaaagcaaaggccagacctctgaactgattaggtgttctttcttcttcagGGAGATCTGGGTGGGGAAAAGATCCTGCAGAAGAAGTGGAAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTGAATGCTGACACATCATCCCACACGCATTTCTATGCCGTCTTTATGCTG---------tggtatgtataagagcttagggagacatgagcacagatgttgggcaaaggga Alignment from CESAR GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg aaaagcaaaggccagacctctgaactgattaggtgttctttcttcttcagGGAGATCTGGGTGGGGAAAAGATCCTGCAGAAGAAGTGGAAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTGAATGCTGACACATCATCCCACACGCATTTCTATGCCGTCTTTATGCTG---------tggtatgtataagagcttagggagacatgagcacagatgttgggcaaaggga Alignment from Spaln_aa2Genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGAC aaaagcaaaggccagacctctgaactgattaggtgttctttcttcttcagGGAGATCTGGGTGGGGAAAAGATCCTGCAGAAGAAGTGGAAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTGAATGCTGACACATCATCCCACACGCATTTCTATGCCGTCTTTATGCTGTGgtatgtataagagcttagggagacatgagcacagatgttgggcaaaggga Alignment from Spaln_nt2Genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGAC aaaagcaaaggccagacctctgaactgattaggtgttctttcttcttcagGGAGATCTGGGTGGGGAAAAGATCCTGCAGAAGAAGTGGAAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTGAATGCTGACACATCATCCCACACGCATTTCTATGCCGTCTTTATGCTGTGgtatgtataagagcttagggagacatgagcacagatgttgggcaaaggga Alignment from Pairagon GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG aaaagcaaaggccagacctctgaactgattaggtgttctttcttcttcagGGAGATCTGGGTGGGGAAAAGATCCTGCAGAAGAAGTGGAAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTGAATGCTGACACATCATCCCACACGCATTTCTATGCCGTCTTTATGCT---------GTGgtatgtataagagcttagggagacatgagcacagatgttgggcaaaggga Alignment from Exonerate_protein2genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGAC aaaagcaaaggccagacctctgaactgattaggtgttctttcttcttcagGGAGATCTGGGTGGGGAAAAGATCCTGCAGAAGAAGTGGAAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTGAATGCTGACACATCATCCCACACGCATTTCTATGCCGTCTTTATGCTGTGgtatgtataagagcttagggagacatgagcacagatgttgggcaaaggga Alignment from Exonerate_coding2genome GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGAC aaaagcaaaggccagacctctgaactgattaggtgttctttcttcttcagGGAGATCTGGGTGGGGAAAAGATCCTGCAGAAGAAGTGGAAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTGAATGCTGACACATCATCCCACACGCATTTCTATGCCGTCTTTATGCTGTGgtatgtataagagcttagggagacatgagcacagatgttgggcaaaggga Alignment from GeneWise GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTGGAAG aaaagcaaaggccagacctctgaactgattaggtgttctttcttcttcagGGAGATCTGGGTGGGGAAAAGATCCTGCAGAAGAAGTGGAAATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTGAATGCTGACACATCATCCCACACGCATTTCTATGCCGTCTTTATGCTG---------TGGTATgtataagagcttagggagacatgagcacagatgttgggcaaaggga #### Sema4g_ID9251_9 --> 1 - 0 Original Alignment gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG------ acaggcctggagcaggcggcattcaatcttttctctttcttgaccctcaggAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAAGATGGTGCCCGGTGTTGGGGCCGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGGGCTCAgtagcaactcaggtctggaccttacattaattggacaaagggtaggtaag Alignment from CESAR gAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCT------GGCTCG acaggcctggagcaggcggcattcaatcttttctctttcttgaccctcaggAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAAGATGGTGCCCGGTGTTGGGGCCGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGGGCTCAgtagcaactcaggtctggaccttacattaattggacaaagggtaggtaag Alignment from Spaln_aa2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCT------GGCTCG acaggcctggagcaggcggcattcaatcttttctctttcttgaccctcagGAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAAGATGGTGCCCGGTGTTGGGGCCGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGGGCTCAgtagcaactcaggtctggaccttacattaattggacaaagggtaggtaag Alignment from Spaln_nt2Genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG- acaggcctggagcaggcggcattcaatcttttctctttcttgaccctcagGAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAAGATGGTGCCCGGTGTTGGGGCCGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGGgctcagtagcaactcaggtctggaccttacattaattggacaaagggtaggtaag Alignment from Pairagon GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG----------------------------------------------- acaggcctggagcaggcggcattcaatcttttctctttcttgaccctcagGAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAAGATGGTGCCCGGTGTTGGGGCCGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGGGCTCAGTAGCAACTCAGGTCTGGACCTTACATTAATTGGACAAAGGgtaggtaag Alignment from Exonerate_protein2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggcctggagcaggcggcattcaatcttttctctttcttgaccctcagGAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAAGATGGTGCCCGGTGTTGGGGCCGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGggctcagtagcaactcaggtctggaccttacattaattggacaaagggtaggtaag Alignment from Exonerate_coding2genome GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCTGGCTCG acaggcctggagcaggcggcattcaatcttttctctttcttgaccctcagGAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAAGATGGTGCCCGGTGTTGGGGCCGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGggctcagtagcaactcaggtctggaccttacattaattggacaaagggtaggtaag Alignment from GeneWise GAAGACGCTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAGGATGGTGCCCGGCGCTGGGGCCGCTATGAGGGTGGGGTGCCTGAACCCCGGCCT------GGCTCG acaggcctggagcaggcggcattcaatcttttctctttcttgaccctcagGAAGACATTGGAGGCTTCAGCCATCTGCCGCTATGACCTGGCTGAGATTCAGGCTGTCTTCACAGGCCCTTTTATGGAGTACCAAGATGGTGCCCGGTGTTGGGGCCGCTATGAGGGTGGAGTGCATCAACCCCGACCTGGCTTGGGCTCAgtagcaactcaggtctggaccttacattaattggacaaagggtaggtaag #### Sema4g_ID9252_10 --> 0 - 1 Original Alignment TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACA---------g gtcaggtggaagtccggctgcagagtctacctactttatgtaatctccagTGTATCACTGATTCTTTGCGCAGCCAAGGGTACAACTCATCCCAAGACTTGCCATCCCTTGTCCTTGACTTTGTGAAGCTGCATCCACTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCAGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGTACACATGTGAGTACACCTGCTGGACCTACCTATGAGCTGCTCTTTCTAGGCACATCTCCATCTggtaggccagactccctcctgatacactggcctccacatcagctagaatac Alignment from CESAR TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACA---------g gtcaggtggaagtccggctgcagagtctacctactttatgtaatctccagTGTATCACTGATTCTTTGCGCAGCCAAGGGTACAACTCATCCCAAGACTTGCCATCCCTTGTCCTTGACTTTGTGAAGCTGCATCCACTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCAGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGTACACATGTGAGTACACCTGCTGGACCTACCTATGAGCTGCTCTTTCTAGGCACATCTCCATCTggtaggccagactccctcctgatacactggcctccacatcagctagaatac Alignment from Spaln_aa2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACA---------G gtcaggtggaagtccggctgcagagtctacctactttatgtaatctccagTGTATCACTGATTCTTTGCGCAGCCAAGGGTACAACTCATCCCAAGACTTGCCATCCCTTGTCCTTGACTTTGTGAAGCTGCATCCACTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCAGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGTACACATGTGAGTACACCTGCTGGACCTACCTATGAGCTGCTCTTTCTAGGCACATCTCCATCTGgtaggccagactccctcctgatacactggcctccacatcagctagaatac Alignment from Spaln_nt2Genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACA---------G gtcaggtggaagtccggctgcagagtctacctactttatgtaatctccagTGTATCACTGATTCTTTGCGCAGCCAAGGGTACAACTCATCCCAAGACTTGCCATCCCTTGTCCTTGACTTTGTGAAGCTGCATCCACTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCAGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGTACACATGTGAGTACACCTGCTGGACCTACCTATGAGCTGCTCTTTCTAGGCACATCTCCATCTGgtaggccagactccctcctgatacactggcctccacatcagctagaatac Alignment from Pairagon TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACA---------G gtcaggtggaagtccggctgcagagtctacctactttatgtaatctccagTGTATCACTGATTCTTTGCGCAGCCAAGGGTACAACTCATCCCAAGACTTGCCATCCCTTGTCCTTGACTTTGTGAAGCTGCATCCACTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCAGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGTACACATGTGAGTACACCTGCTGGACCTACCTATGAGCTGCTCTTTCTAGGCACATCTCCATCTGgtaggccagactccctcctgatacactggcctccacatcagctagaatac Alignment from Exonerate_protein2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcaggtggaagtccggctgcagagtctacctactttatgtaatctccagTGTATCACTGATTCTTTGCGCAGCCAAGGGTACAACTCATCCCAAGACTTGCCATCCCTTGTCCTTGACTTTGTGAAGCTGCATCCACTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCAGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGTACACATGTGAGTACACCTGCTGGACCTACCTATGAGCTGCTCTTTCTAGGCACATctccatctggtaggccagactccctcctgatacactggcctccacatcagctagaatac Alignment from Exonerate_coding2genome TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACAG gtcaggtggaagtccggctgcagagtctacctactttatgtaatctccagTGTATCACTGATTCTTTGCGCAGCCAAGGGTACAACTCATCCCAAGACTTGCCATCCCTTGTCCTTGACTTTGTGAAGCTGCATCCACTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCAGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGTACACATGTGAGTACACCTGCTGGACCTACCTATGAGCTGCTCTTTCTAGGCACATctccatctggtaggccagactccctcctgatacactggcctccacatcagctagaatac Alignment from GeneWise TGCATCACAGATTCATTGCGCAGCCGAGGCTACAACTCATCCCAAGACTTGCCATCCCTGGTTCTGGACTTTGTGAAGTTGCATCCCCTGATGGCTCGGCCTGTGGTGCCCACACGTGGGCGGCCCTTGCTGCTGAAGCGCAATGTACGCTACACACATCTCACAGGAACACACGTCAGCACACCTGCTGGACCCACCTATGACCTGCTCTTTCTGGGCACA---------G gtcaggtggaagtccggctgcagagtctacctactttatgtaatctccagTGTATCACTGATTCTTTGCGCAGCCAAGGGTACAACTCATCCCAAGACTTGCCATCCCTTGTCCTTGACTTTGTGAAGCTGCATCCACTGATGGCTCAGCCTGTGGTGCCCACACGTGGGCAGCCCTTGCTGCTGAAGCGCAATGTACGTTACACACATGTCACAGGTACACATGTGAGTACACCTGCTGGACCTACCTATGAGCTGCTCTTTCTAGGCACATCTCCATCTGgtaggccagactccctcctgatacactggcctccacatcagctagaatac #### Sf1_ID1667_8 --> 1 - 2 Original Alignment gATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGag tgttgaagtgggatggggtctctgcaagtcttatgccctcttgcccccagaATCTTAAGGCCCTGGCAGAGCTCAGAGACACGTAGTATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAAA------aggtatgttgccgacctacccagaaaagctgattgctgcacaggtacataag Alignment from CESAR gATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGag tgttgaagtgggatggggtctctgcaagtcttatgccctcttgcccccagaATCTTAAGGCCCTGGCAGAGCTCAGAGACACGTAGTATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAAA------aggtatgttgccgacctacccagaaaagctgattgctgcacaggtacataag Alignment from Spaln_aa2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATT tgttgaagtgggatggggtctctgcaagtcttatgccctcttgcccccagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGTAGTATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAAAAGgtatgttgccgacctacccagaaaagctgattgctgcacaggtacataag Alignment from Spaln_nt2Genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAA-- tgttgaagtgggatggggtctctgcaagtcttatgccctcttgcccccagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGTAGTATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAAAAGgtatgttgccgacctacccagaaaagctgattgctgcacaggtacataag Alignment from Pairagon GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATTTCAGAG tgttgaagtgggatggggtctctgcaagtcttatgccctcttgcccccagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGTAGTATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAAA------AGgtatgttgccgacctacccagaaaagctgattgctgcacaggtacataag Alignment from Exonerate_protein2genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATT tgttgaagtgggatggggtctctgcaagtcttatgccctcttgcccccagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGTAGTATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAAAAGgtatgttgccgacctacccagaaaagctgattgctgcacaggtacataag Alignment from Exonerate_coding2genome GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATT tgttgaagtgggatggggtctctgcaagtcttatgccctcttgcccccagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGTAGTATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAAAAGgtatgttgccgacctacccagaaaagctgattgctgcacaggtacataag Alignment from GeneWise GATCTTAAGGCCCTGGCAGAGCTCAGAGACGCGCAGCATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCACATTGCTTCTGATTGCAAATT tgttgaagtgggatggggtctctgcaagtcttatgccctcttgcccccagAATCTTAAGGCCCTGGCAGAGCTCAGAGACACGTAGTATTACCAATACTACTGTGTGTACCAAGTGTGGAGGGGCTGGTCATATTGCCTCTGATTGCAAAAGgtatgttgccgacctacccagaaaagctgattgctgcacaggtacataag #### Sf1_ID1670_11 --> 2 - 1 Original Alignment at---------CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg aggccagttcaaatgtcctactaatttctctaccttgtgtgctcttttagatAAGAGACCTCAGTATCTGGGAAGTACACCAGTGGCCTCTGGGGTCTATCGCCTGCATCAAGGAAAAggtaggtccacttactttcttgggatgtctgtctggactgggatcaaatgg Alignment from CESAR at---------CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg aggccagttcaaatgtcctactaatttctctaccttgtgtgctcttttagatAAGAGACCTCAGTATCTGGGAAGTACACCAGTGGCCTCTGGGGTCTATCGCCTGCATCAAGGAAAAggtaggtccacttactttcttgggatgtctgtctggactgggatcaaatgg Alignment from Spaln_aa2Genome AT---------CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG aggccagttcaaatgtcctactaatttctctaccttgtgtgctcttttagATAAGAGACCTCAGTATCTGGGAAGTACACCAGTGGCCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaggtccacttactttcttgggatgtctgtctggactgggatcaaatgg Alignment from Spaln_nt2Genome ATCAGTACCTGG---------GAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG aggccagttcaaatgtcctactaatttctctaccttgtgtgctcttttagATAAGAGACCTCAGTATCTGGGAAGTACACCAGTGGCCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaggtccacttactttcttgggatgtctgtctggactgggatcaaatgg Alignment from Pairagon A---------TCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG aggccagttcaaatgtcctactaatttctctaccttgtgtgctcttttagATAAGAGACCTCAGTATCTGGGAAGTACACCAGTGGCCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaggtccacttactttcttgggatgtctgtctggactgggatcaaatgg Alignment from Exonerate_protein2genome ATGGATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG aggccagttcaaatgtcctactaatttctctaccttgtgtgctcttttagataagAGACCTCAGTATCTGGGAAGTACACCAGTGGCCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaggtccacttactttcttgggatgtctgtctggactgggatcaaatgg Alignment from Exonerate_coding2genome ATGGATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG aggccagttcaaatgtcctactaatttctctaccttgtgtgctcttttagataagAGACCTCAGTATCTGGGAAGTACACCAGTGGCCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaggtccacttactttcttgggatgtctgtctggactgggatcaaatgg Alignment from GeneWise --------GATCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG aggccagttcaaatgtcctactaatttctctaccttgtgtgctcttttagATAAGAGACCTCAGTATCTGGGAAGTACACCAGTGGCCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaggtccacttactttcttgggatgtctgtctggactgggatcaaatgg #### Sf3b2_ID901_17 --> 0 - 2 Original Alignment ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag agattcagtaagtccctgtgaaaaccttcctgggtctgcttctctctcag------ACGGAAGAAGAGGAAATCGACCAAACCCCGTGGGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAGGAGGAGGAGAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACaggtaagtacagaggctgttcccctagagttgcttgcctgcccatggctatt Alignment from CESAR ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACag actgccagattcagtaagtccctgtcttcctgggtctgcttctctctcag------ACGGAAGAAGAGGAAATCGACCAAACCCCGTGGGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAGGAGGAGGAGAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACaggtaagtacagaggctgttcccctagagttgcttgcctgcccatggctatt Alignment from Spaln_aa2Genome AAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG agattcagtaagtccctgtgaaaaccttcctgggtctgcttctctctcagACGGAAGAAGAGGAA---ATCGACCAAACCCCGTGGGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAGGAGGAGGAGAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgttcccctagagttgcttgcctgcccatggctatt Alignment from Spaln_nt2Genome ACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG agattcagtaagtccctgtgaaaaccttcctgggtctgcttctctctcagACGGAAGAAGAGGAAATCGACCAAACCCCGTGGGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAGGAGGAGGAGAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgttcccctagagttgcttgcctgcccatggctatt Alignment from Pairagon ACCAAAACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG agattcagtaagtccctgtgaaaaccttcctgggtctgcttctctctcag------ACGGAAGAAGAGGAAATCGACCAAACCCCGTGGGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAGGAGGAGGAGAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgttcccctagagttgcttgcctgcccatggctatt Alignment from Exonerate_protein2genome ACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG agattcagtaagtccctgtgaaaaccttcctgggtctgcttctctctcagACGGAAGAAGAGGAAATCGACCAAACCCCGTGGGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAGGAGGAGGAGAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgttcccctagagttgcttgcctgcccatggctatt Alignment from Exonerate_coding2genome ACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG agattcagtaagtccctgtgaaaaccttcctgggtctgcttctctctcagACGGAAGAAGAGGAAATCGACCAAACCCCGTGGGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAGGAGGAGGAGAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgttcccctagagttgcttgcctgcccatggctatt Alignment from GeneWise ACGGAAGAAGAAGAAATTGACCGGACCCCGTGGGGGGAACTGGAACCATCTGATGAAGAATCCTCAGAAGAGGAGGAGGAGGAGGAAAGCGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAG agattcagtaagtccctgtgaaaaccttcctgggtctgcttctctctcagACGGAAGAAGAGGAAATCGACCAAACCCCGTGGGGGGAACTGGAACCTTCTGATGAAGAATCCTCAGAGGAGGAGGAGGAGGAGGAGAGTGATGAAGACAAGCCAGATGAGACTGGCTTCATCACACCTGCAGACAGgtaagtacagaggctgttcccctagagttgcttgcctgcccatggctatt #### Sf3b2_ID907_11 --> 0 - 0 Original Alignment GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG------------------ tcgggccgcatcacctgatgacacctaagtctgtgttttctttttttcagAAAAAGAAGCCAGAAGCCCCCAAACTGTCAAGGAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTCAAGCAGATCAATGGCACTAAGACTgtgtgatctgggatggtcaagtcagttcttcagtattgctgggcatccac Alignment from CESAR GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG------------------ tcgggccgcatcacctgatgacacctaagtctgtgttttctttttttcagAAAAAGAAGCCAGAAGCCCCCAAACTGTCAAGGAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTCAAGCAGATCAATGGCACTAAGACTgtgtgatctgggatggtcaagtcagttcttcagtattgctgggcatccac Alignment from Spaln_aa2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcgggccgcatcacctgatgacacctaagtctgtgttttctttttttcagAAAAAGAAGCCAGAAGCCCCCAAACTGTCAAGGAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTCAAGCAGatcaatggcactaagactgtgtgatctgggatggtcaagtcagttcttcagtattgctgggcatccac Alignment from Spaln_nt2Genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG------- tcgggccgcatcacctgatgacacctaagtctgtgttttctttttttcagAAAAAGAAGCCAGAAGCCCCCAAACTGTCAAGGAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTCAAGCAGATCAATGgcactaagactgtgtgatctgggatggtcaagtcagttcttcagtattgctgggcatccac Alignment from Pairagon GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG------------------ tcgggccgcatcacctgatgacacctaagtctgtgttttctttttttcagAAAAAGAAGCCAGAAGCCCCCAAACTGTCAAGGAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTCAAGCAGATCAATGGCACTAAGACTgtgtgatctgggatggtcaagtcagttcttcagtattgctgggcatccac Alignment from Exonerate_protein2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcgggccgcatcacctgatgacacctaagtctgtgttttctttttttcagAAAAAGAAGCCAGAAGCCCCCAAACTGTCAAGGAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTCAAGCAGatcaatggcactaagactgtgtgatctgggatggtcaagtcagttcttcagtattgctgggcatccac Alignment from Exonerate_coding2genome GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAG tcgggccgcatcacctgatgacacctaagtctgtgttttctttttttcagAAAAAGAAGCCAGAAGCCCCCAAACTGTCAAGGAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTCAAGCAGatcaatggcactaagactgtgtgatctgggatggtcaagtcagttcttcagtattgctgggcatccac Alignment from GeneWise GAAAAGAAGCCGGAAGCCCCTAAACTGTCGAAGAAGAAGTTGCGCCGAATGAATCGTTTTACTGTGGCAGAACTCAAGCAGCTG--------------- tcgggccgcatcacctgatgacacctaagtctgtgttttctttttttcagAAAAAGAAGCCAGAAGCCCCCAAACTGTCAAGGAAGAAGTTGCGCCGAATGAATCGGTTTACTGTGGCAGAGCTCAAGCAGATCAATGGCACTAAGACTgtgtgatctgggatggtcaagtcagttcttcagtattgctgggcatccac #### Sf3b2_ID908_10 --> 0 - 0 Original Alignment CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcatggggacatattcccagagccccatttgcccatctcttgtgctgtag------GATGATGTGAGGAAGGAAAAAGAAAAAGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCCAAGAAAAAGGGCTATGAAGAGGAGCATAAAGACAGTGATGATGATAGCAGTGATGATGAACAGgtaagaacccctatgtgggagtgagctgcagggggggcctggggaaatgg Alignment from CESAR CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG aagggggcatggggacatattcccacatttgcccatctcttgtgctgtag------GATGATGTGAGGAAGGAAAAAGAAAAAGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCCAAGAAAAAGGGCTATGAAGAGGAGCATAAAGACAGTGATGATGATAGCAGTGATGATGAACAGgtaagaacccctatgtgggagtgagctgcagggggggcctggggaaatgg Alignment from Spaln_aa2Genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcatggggacatattcccagagccccatttgcccatctcttgtgctgtag------GATGATGTGAGGAAGGAAAAAGAAAAAGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCCAAGAAAAAGGGCTATGAAGAGGAGCATAAAGACAGTGATGATGATAGCAGTGATGATGAACAGgtaagaacccctatgtgggagtgagctgcagggggggcctggggaaatgg Alignment from Spaln_nt2Genome CTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcatggggacatattcccagagccccatttgcccatctcttgtgctgtag--GATGATGTGAGGAAGGAAAAAGAAAAAGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCCAAGAAAAAGGGCTATGAAGAGGAGCATAAAGACAGTGATGATGATAGCAGTGATGATGAACAGgtaagaacccctatgtgggagtgagctgcagggggggcctggggaaatgg Alignment from Pairagon CTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcatggggacatattcccagagccccatttgcccatctcttgtgctgtag--GATGATGTGAGGAAGGAAAAAGAAAAAGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCCAAGAAAAAGGGCTATGAAGAGGAGCATAAAGACAGTGATGATGATAGCAGTGATGATGAACAGgtaagaacccctatgtgggagtgagctgcagggggggcctggggaaatgg Alignment from Exonerate_protein2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcatggggacatattcccagagccccatttgcccatctcttgtgCTGTAGGATGATGTGAGGAAGGAAAAAGAAAAAGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCCAAGAAAAAGGGCTATGAAGAGGAGCATAAAGACAGTGATGATGATAGCAGTGATGATGAACAGgtaagaacccctatgtgggagtgagctgcagggggggcctggggaaatgg Alignment from Exonerate_coding2genome CTAACTGATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcatggggacatattcccagagccccatttgcccatctcttgtgCTGTAGGATGATGTGAGGAAGGAAAAAGAAAAAGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCCAAGAAAAAGGGCTATGAAGAGGAGCATAAAGACAGTGATGATGATAGCAGTGATGATGAACAGgtaagaacccctatgtgggagtgagctgcagggggggcctggggaaatgg Alignment from GeneWise GATGATGTGAAGAAGGAAAAAGAAAAGGAGCCAGAGAAGCTTGACAAGATGGAGAGCTCTGCAGTCCCCAAGAAGAAGGGCTTTGAGGAGGAGCACAAGGACAGTGACGATGACAGCAGTGATGATGAGCAG gcatggggacatattcccagagccccatttgcccatctcttgtgctgtagGATGATGTGAGGAAGGAAAAAGAAAAAGAGCCAGAGAAGCTTGACAAGATGGAAAGCTCTGCAGTTCCCAAGAAAAAGGGCTATGAAGAGGAGCATAAAGACAGTGATGATGATAGCAGTGATGATGAACAGgtaagaacccctatgtgggagtgagctgcagggggggcctggggaaatgg #### Sf3b2_ID909_9 --> 0 - 0 Original Alignment AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG ggttgggggatgaggatcctctgacctatctttctcgtttctctccctagAAAAACCGAAAGCGTCAGAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAGAGAGTTCTGGGGACCGAGAAAAGGACTCTGGTCGGTCCCAAGGCTCAGGCCCCCCCACAGGT---GTAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATATTTGAGGCC------gtgagtgtatgtaggctcatgtgctctgaggacctaccttgcttaagggg Alignment from CESAR AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG ggttgggggatgaggatcctctgacctatctttctcgtttctctccctagAAAAACCGAAAGCGTCAGAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAGAGAGTTCTGGGGACCGAGAAAAGGACTCTGGTCGGTCCCAAGGCTCAGGCCCCCCCACAGGT---GTAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATATTTGAGGCCGTGAGTgtatgtaggctcatgtgctctgaggacctaccttgcttaagggg Alignment from Spaln_aa2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG ggttgggggatgaggatcctctgacctatctttctcgtttctctccctagAAAAACCGAAAGCGTCAGAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAGAGAGTTCTGGGGACCGAGAAAAGGACTCTGGTCGGTCCCAAGGCTCAGGCCCCCCCACAGGT---GTAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATATTTGAGGCCGTGAGTgtatgtaggctcatgtgctctgaggacctaccttgcttaagggg Alignment from Spaln_nt2Genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG ggttgggggatgaggatcctctgacctatctttctcgtttctctccctagAAAAACCGAAAGCGTCAGAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAGAGAGTTCTGGGGACCGAGAAAAGGACTCTGGTCGGTCCCAAGGCTCAGGCCCCCCCACAGGT---GTAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATATTTGAGGCCGTGAGTgtatgtaggctcatgtgctctgaggacctaccttgcttaagggg Alignment from Pairagon AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCT ggttgggggatgaggatcctctgacctatctttctcgtttctctccctagAAAAACCGAAAGCGTCAGAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAGAGAGTTCTGGGGACCGAGAAAAGGACTCTGGTCGGTCCCAAGGCTCAGGCCCCCCCACAGGT---GTAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATATTTGAGGCCgtgagtgtatgtaggctcatgtgctctgaggacctaccttgcttaagggg Alignment from Exonerate_protein2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG ggttgggggatgaggatcctctgacctatctttctcgtttctctccctagAAAAACCGAAAGCGTCAGAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAGAGAGTTCTGGGGACCGAGAAAAGGACTCTGGTCGGTCCCAAGGCTCAGGCCCCCCCACAGGT---GTAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATATTTGAGGCCGTGAGTgtatgtaggctcatgtgctctgaggacctaccttgcttaagggg Alignment from Exonerate_coding2genome AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG ggttgggggatgaggatcctctgacctatctttctcgtttctctccctagAAAAACCGAAAGCGTCAGAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAGAGAGTTCTGGGGACCGAGAAAAGGACTCTGGTCGGTCCCAAGGCTCAGGCCCCCCCACAGGT---GTAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATATTTGAGGCCGTGAGTgtatgtaggctcatgtgctctgaggacctaccttgcttaagggg Alignment from GeneWise AAAAACCGAAAGCGTCGGAACCGAAAGAAGAAGAAAAAGCCACAGCGGGTGCGGGCAGCCTCATCAGAGAGCTCTGGGGACCGAGAGAAGGACTCCGGTCGGTCCCGCGGCTCGGACCCCCCTGCTGCTGACGTGGAGATTGAGTATGTGACCGAGGAGCCTGAGATCTACGAGCCCAATTTCATCTTCTTCAAGAGGATTTTTGAGGCTTTCAAG ggttgggggatgaggatcctctgacctatctttctcgtttctctccctagAAAAACCGAAAGCGTCAGAACCGGAAGAAGAAAAAAAAACCAAAGCAGGTGCGGGCAGCCTCATCAGAGAGTTCTGGGGACCGAGAAAAGGACTCTGGTCGGTCCCAAGGCTCAGGCCCCCCCACAGGT---GTAGAGATTGAGTATGTGAGTGAGGAGCCTGAGATGTATGAGCCCAATTTCATCTTCTTCAAGAGGATATTTGAGGCCGTGAGTgtatgtaggctcatgtgctctgaggacctaccttgcttaagggg #### Sf3b2_ID910_8 --> 2 - 0 Original Alignment agGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG aagcttttacagttaggagagttcaacctagtggtaccccctgtttgcagag---GAAGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCTGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAAAAGAGgtgagagtttagtaggagtatgccacttttctgtgagtttcttggctgtc Alignment from CESAR agGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG aggaagcttttacagttaggagagtacctagtggtaccccctgtttgcagag---GAAGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCTGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAAAAGAGgtgagagtttagtaggagtatgccacttttctgtgagtttcttggctgtc Alignment from Spaln_aa2Genome AGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG aagcttttacagttaggagagttcaacctagtggtaccccctgtttgcagAGGAAGAAATG---GAGACAGTTACTCGCTCATCTCTAGGACAGTCTGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAAAAGAGgtgagagtttagtaggagtatgccacttttctgtgagtttcttggctgtc Alignment from Spaln_nt2Genome AGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG aagcttttacagttaggagagttcaacctagtggtaccccctgtttgcagAGGAAGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCTGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAAAAGAGgtgagagtttagtaggagtatgccacttttctgtgagtttcttggctgtc Alignment from Pairagon AGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG aagcttttacagttaggagagttcaacctagtggtaccccctgtttgcagAGGAAGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCTGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAAAAGAGgtgagagtttagtaggagtatgccacttttctgtgagtttcttggctgtc Alignment from Exonerate_protein2genome AGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG aagcttttacagttaggagagttcaacctagtggtaccccctgtttgcagAGGAAGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCTGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAAAAGAGgtgagagtttagtaggagtatgccacttttctgtgagtttcttggctgtc Alignment from Exonerate_coding2genome AGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG aagcttttacagttaggagagttcaacctagtggtaccccctgtttgcagAGGAAGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCTGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAAAAGAGgtgagagtttagtaggagtatgccacttttctgtgagtttcttggctgtc Alignment from GeneWise AGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG aagcttttacagttaggagagttcaacctagtggtaccccctgtttgcagAGGAAGAA------ATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCTGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAAAAGAGgtgagagtttagtaggagtatgccacttttctgtgagtttcttggctgtc #### Sf3b2_ID911_7 --> 0 - 1 Original Alignment ------ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg gaggatggcatttttcggtttcagcccccatatgtgttcgtttcccctagGCTCACATT---GACCCTTCTGTGGGCCCTAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCTCAG---ggtaaatgagattgaaccttgccttgatgctgcaacagcacataagctggg Alignment from CESAR ATGGAT---GATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGg gaggatggcatttttcggtttcagcccccatatgtgttcgtttcccctagGCTCACATTGACCCTTCTGTGGGCCCTAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCTCAG---ggtaaatgagattgaaccttgccttgatgctgcaacagcacataagctggg Alignment from Spaln_aa2Genome ATGGAT---GATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAG- gaggatggcatttttcggtttcagcccccatatgtgttcgtttcccctagGCTCACATTGACCCTTCTGTGGGCCCTAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCTCAGGgtaaatgagattgaaccttgccttgatgctgcaacagcacataagctggg Alignment from Spaln_nt2Genome ATGGA---TGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gaggatggcatttttcggtttcagcccccatatgtgttcgtttcccctagGCTCACATTGACCCTTCTGTGGGCCCTAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaaatgagattgaaccttgccttgatgctgcaacagcacataagctggg Alignment from Pairagon ------ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gaggatggcatttttcggtttcagcccccatatgtgttcgtttcccctagGCTCACAT---TGACCCTTCTGTGGGCCCTAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaaatgagattgaaccttgccttgatgctgcaacagcacataagctggg Alignment from Exonerate_protein2genome ATGGAT---GATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gaggatggcatttttcggtttcagcccccatatgtgttcgtttcccctagGCTCACATTGACCCTTCTGTGGGCCCTAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaaatgagattgaaccttgccttgatgctgcaacagcacataagctggg Alignment from Exonerate_coding2genome ATGGAT---GATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gaggatggcatttttcggtttcagcccccatatgtgttcgtttcccctagGCTCACATTGACCCTTCTGTGGGCCCTAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaaatgagattgaaccttgccttgatgctgcaacagcacataagctggg Alignment from GeneWise ---ATGGATGATCCTTCTGTGGGCCCCAAGATCCCCCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCGGCAGGAAGAGATGAACTCTCAGCAGG gaggatggcatttttcggtttcagcccccatatgtgttcgtttcccctagGCTCACATTGACCCTTCTGTGGGCCCTAAGATCCCTCAGGCTTTGGAAAAGATTCTTCAGCTGAAGGAGAGCCAGCAGCAAGAGATGAACTCT---CAGGgtaaatgagattgaaccttgccttgatgctgcaacagcacataagctggg #### Sf3b2_ID916_2 --> 2 - 0 Original Alignment ggAGTCGCGAGGAGTTAGTAGAGCGGCTGCAGACCTACACCCGTCAG------ agcttgtctacccaggaaaccagcatagcctaactgggtgccacctgcagggAGTCGTGAGGAATTAGTAGAGCGGCTGCAGACCTATACCCGTCAGAGTAAAgtgtgcatttcctgcaggctatgtttcacgtttcctgaagtcatctaaga Alignment from CESAR ggAGTCGCGAGGAGTTAGTAGAGCGGCTGCAGACCTACACCCGTCAG------ agcttgtctacccaggaaaccagcatagcctaactgggtgccacctgcagggAGTCGTGAGGAATTAGTAGAGCGGCTGCAGACCTATACCCGTCAGAGTAAAgtgtgcatttcctgcaggctatgtttcacgtttcctgaagtcatctaaga Alignment from Spaln_aa2Genome GGAGTCGCGAGGAGTTAGTAGAGCGGCTGCAGACCTACACCCGTCAG------ agcttgtctacccaggaaaccagcatagcctaactgggtgccacctgcagGGAGTCGTGAGGAATTAGTAGAGCGGCTGCAGACCTATACCCGTCAGAGTAAAgtgtgcatttcctgcaggctatgtttcacgtttcctgaagtcatctaaga Alignment from Spaln_nt2Genome GGAGTCGCGAGGAGTTAGTAGAGCGGCTGCAGACCTACACCCGTCAG- agcttgtctacccaggaaaccagcatagcctaactgggtgccacctgcagGGAGTCGTGAGGAATTAGTAGAGCGGCTGCAGACCTATACCCGTCAGAgtaaagtgtgcatttcctgcaggctatgtttcacgtttcctgaagtcatctaaga Alignment from Pairagon GGAGTCGCGAGGAGTTAGTAGAGCGGCTGCAGACCTACACCCGTCAG- agcttgtctacccaggaaaccagcatagcctaactgggtgccacctgcagGGAGTCGTGAGGAATTAGTAGAGCGGCTGCAGACCTATACCCGTCAGAgtaaagtgtgcatttcctgcaggctatgtttcacgtttcctgaagtcatctaaga Alignment from Exonerate_protein2genome GGAGTCGCGAGGAGTTAGTAGAGCGGCTGCAGACCTACACCCGTCAG agcttgtctacccaggaaaccagcatagcctaactgggtgccacctgcagGGAGTCGTGAGGAATTAGTAGAGCGGCTGCAGACCTATACCCGTCAGagtaaagtgtgcatttcctgcaggctatgtttcacgtttcctgaagtcatctaaga Alignment from Exonerate_coding2genome GGAGTCGCGAGGAGTTAGTAGAGCGGCTGCAGACCTACACCCGTCAG agcttgtctacccaggaaaccagcatagcctaactgggtgccacctgcagGGAGTCGTGAGGAATTAGTAGAGCGGCTGCAGACCTATACCCGTCAGagtaaagtgtgcatttcctgcaggctatgtttcacgtttcctgaagtcatctaaga Alignment from GeneWise GGAGTCGCGAGGAGTTAGTAGAGCGGCTGCAGACCTACACCCGTCAG------ agcttgtctacccaggaaaccagcatagcctaactgggtgccacctgcagGGAGTCGTGAGGAATTAGTAGAGCGGCTGCAGACCTATACCCGTCAGAGTAAAgtgtgcatttcctgcaggctatgtttcacgtttcctgaagtcatctaaga #### Sfxn2_ID9969_7 --> 0 - 1 Original Alignment AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCT---GGCATG------a cctggacagctgaaacatgatccctggcgaatgacttttctgtgttgcagAGAGCGGCAACCGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGCTGGCATGATCAACagtaaggttgatggagaacacctcatacagatccttgaatacctagttgca Alignment from CESAR AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCT---GGCATG------a cctggacagctgaaacatgatccctggcgaatgacttttctgtgttgcagAGAGCGGCAACCGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGCTGGCATGATCAACagtaaggttgatggagaacacctcatacagatccttgaatacctagttgca Alignment from Spaln_aa2Genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCT---GGCATGATC---- cctggacagctgaaacatgatccctggcgaatgacttttctgtgttgcagAGAGCGGCAACCGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGCTGGCATGATCAACAgtaaggttgatggagaacacctcatacagatccttgaatacctagttgca Alignment from Spaln_nt2Genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTG---GCATGATC---- cctggacagctgaaacatgatccctggcgaatgacttttctgtgttgcagAGAGCGGCAACCGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGCTGGCATGATCAACAgtaaggttgatggagaacacctcatacagatccttgaatacctagttgca Alignment from Pairagon AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCC---CTGGCATGA------ cctggacagctgaaacatgatccctggcgaatgacttttctgtgttgcagAGAGCGGCAACCGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGCTGGCATGATCAACAgtaaggttgatggagaacacctcatacagatccttgaatacctagttgca Alignment from Exonerate_protein2genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGA cctggacagctgaaacatgatccctggcgaatgacttttctgtgttgcagAGAGCGGCAACCGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGCT---Ggcatgatcaacagtaaggttgatggagaacacctcatacagatccttgaatacctagttgca Alignment from Exonerate_coding2genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGA cctggacagctgaaacatgatccctggcgaatgacttttctgtgttgcagAGAGCGGCAACCGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGCT---Ggcatgatcaacagtaaggttgatggagaacacctcatacagatccttgaatacctagttgca Alignment from GeneWise AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCT---GGCATGATCCTG- cctggacagctgaaacatgatccctggcgaatgacttttctgtgttgcagAGAGCGGCAACCGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGCTGGCATGATCAACAgtaaggttgatggagaacacctcatacagatccttgaatacctagttgca #### Sfxn3_ID9291_9 --> 1 - 2 Original Alignment cTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGA---ag acttcatcctgatcagtgtcacagtcatttcatttaatctcttctgcaagcTTGGTCTTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGACTGaggtaagagataccaatctacttgatttgcattgataagcagtgtgtttcca Alignment from CESAR cTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGA---ag acttcatcctgatcagtgtcacagtcatttcatttaatctcttctgcaagcTTGGTCTTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGACTGaggtaagagataccaatctacttgatttgcattgataagcagtgtgtttcca Alignment from Spaln_aa2Genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAGC-- acttcatcctgatcagtgtcacagtcatttcatttaatctcttctgcaagCTTGGTCTTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGACTGAGgtaagagataccaatctacttgatttgcattgataagcagtgtgtttcca Alignment from Spaln_nt2Genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGA---AG acttcatcctgatcagtgtcacagtcatttcatttaatctcttctgcaagCTTGGTCTTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGACTGAGgtaagagataccaatctacttgatttgcattgataagcagtgtgtttcca Alignment from Pairagon CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGA---AG acttcatcctgatcagtgtcacagtcatttcatttaatctcttctgcaagCTTGGTCTTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGACTGAGgtaagagataccaatctacttgatttgcattgataagcagtgtgtttcca Alignment from Exonerate_protein2genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGA---AG acttcatcctgatcagtgtcacagtcatttcatttaatctcttctgcaagCTTGGTCTTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGACTGAGgtaagagataccaatctacttgatttgcattgataagcagtgtgtttcca Alignment from Exonerate_coding2genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGA---AG acttcatcctgatcagtgtcacagtcatttcatttaatctcttctgcaagCTTGGTCTTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGACTGAGgtaagagataccaatctacttgatttgcattgataagcagtgtgtttcca Alignment from GeneWise CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAAGC-- acttcatcctgatcagtgtcacagtcatttcatttaatctcttctgcaagCTTGGTCTTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGACTGAGgtaagagataccaatctacttgatttgcattgataagcagtgtgtttcca #### Sipa1_ID1139_13 --> 2 - 2 Original Alignment gaCAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTga gccagttggatgtttactccctcagaccagagctctgtgtctcctcccagggCAACCCATCTCAGAGAGTGGA------------------------------gagtaagtttttttgccctcatatacccacccgaggacgggggcagttgtca Alignment from CESAR ctgccagttggatgttaactccctcagaccgacctcccttcctcttatagggcaacccatctcagagagtggagatcccaaggaagctttaaagtgtgattctgagtttttttttttgccctctt Alignment from Spaln_aa2Genome ctgccagttggatgttaactccctcagaccgacctcccttcctcttatagggcaacccatctcagagagtggagatcccaaggaagctttaaagtgtgattctgagtttttttttttgccctctt Alignment from Spaln_nt2Genome ctgccagttggatgttaactccctcagaccgacctcccttcctcttatagggcaacccatctcagagagtggagatcccaaggaagctttaaagtgtgattctgagtttttttttttgccctctt Alignment from Pairagon GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ctgccagttggatgttaactccctcagaccgacctcccttcctcttatagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGAgtttttttttttgccctctt Alignment from Exonerate_protein2genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ctgccagttggatgttaactccctcagaccgacctcccttcctcttatagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGAgtttttttttttgccctctt Alignment from Exonerate_coding2genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ctgccagttggatgttaactccctcagaccgacctcccttcctcttatagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGAgtttttttttttgccctctt Alignment from GeneWise GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA ctgccagttggatgttaactccctcagaccgacctcccttcctcttatagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGAgtttttttttttgccctctt #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment c---TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ctgtggaaaagcagctccactgtgagctcatattatattatctttcacagcCGCTCCCTGTCTGATGAGGTCCCAGTCCTACCCAACACCACACCAGACCTCCTCCTTGTCACCACAGCCAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaggctgccaagttaacattggatgccatattatttgtctcaaacaaac Alignment from CESAR c---TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ctgtggaaaagcagctccactgtgagctcatattatattatctttcacagcCGCTCCCTGTCTGATGAGGTCCCAGTCCTACCCAACACCACACCAGACCTCCTCCTTGTCACCACAGCCAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaggctgccaagttaacattggatgccatattatgtgttctcactttac Alignment from Spaln_aa2Genome C----TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ctgtggaaaagcagctccactgtgagctcatattatattatctttcacagCCGCTCCCTGTCTGATGAGGTCCCAGTCCTACCCAACACCACACCAGACCTCCTCCTTGTCACCACAGCCAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaggctgccaagttaacattggatgccatattatttgtctcaaacaaac Alignment from Spaln_nt2Genome C---TCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ctgtggaaaagcagctccactgtgagctcatattatattatctttcacagCCGCTCCCTGTCTGATGAGGTCCCAGTCCTACCCAACACCACACCAGACCTCCTCCTTGTCACCACAGCCAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaggctgccaagttaacattggatgccatattatttgtctcaaacaaac Alignment from Pairagon ---CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCC---------------------------------------------------- ctgtggaaaagcagctccactgtgagctcatattatattatctttcacagCCGCTCCCTGTCTGATGAGGTCCCAGTCCTACCCAACACCACACCAGACCTCCTCCTTGTCACCACAGCCAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGGTAGGCTGCCAAGTTAACATTGGATGCCATATTATTTGTCTCAAACAAAC Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ctgtggaaaagcagctccactgtgagctcatattatattatctttcacagccgCTCCCTGTCTGATGAGGTCCCAGTCCTACCCAACACCACACCAGACCTCCTCCTTGTCACCACAGCCAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaggctgccaagttaacattggatgccatattatttgtctcaaacaaac Alignment from Exonerate_coding2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ctgtggaaaagcagctccactgtgagctcatattatattatctttcacagccgCTCCCTGTCTGATGAGGTCCCAGTCCTACCCAACACCACACCAGACCTCCTCCTTGTCACCACAGCCAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtaggctgccaagttaacattggatgccatattatttgtctcaaacaaac Alignment from GeneWise -AGCTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG-------------------------------------------------- ctgtggaaaagcagctccactgtgagctcatattatattatctttcacagCCGCTCCCTGTCTGATGAGGTCCCAGTCCTACCCAACACCACACCAGACCTCCTCCTTGTCACCACAGCCAACACTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGGTAGGCTGCCAAGTTAACATTGGATGCCATATTATTTGTCTCAAACAAAC #### Sipa1_ID1145_7 --> 1 - 0 Original Alignment gGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG ggtgcctccagcccctctttccctccttcattttactttgtaccttcaagg---GCAGTGAGTCGAACCCAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGGGCCTTTCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTCGCTGGACTTGGCCTCACGGTTCGGCTTGCCATCTCTAGGGGGTAGACGCCATTCAAACCCGCGGAGCTCAGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCGGGGGCACGGGTTGCAGCAGGAGCCGAAACAAGAGGTCCAGAGGACACTGAGGTGCCTTGCTTATTGGGCATCTCAGCCGAAACGCTGGTGCTGGTGGCACCTTGTGATGGCCATGTGGTCTTTAACTGTGCCTGTCGTGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGATCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTCGTGGCACGTCTGCAGgtgaggtactatcaaacattgtgatccttggtttggtgtgcaacaggggc Alignment from CESAR gGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG gttggtgcctccagcccctctttcccttcattttactttgtaccttcaagg---GCAGTGAGTCGAACCCAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGGGCCTTTCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTCGCTGGACTTGGCCTCACGGTTCGGCTTGCCATCTCTAGGGGGTAGACGCCATTCAAACCCGCGGAGCTCAGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCGGGGGCACGGGTTGCAGCAGGAGCCGAAACAAGAGGTCCAGAGGACACTGAGGTGCCTTGCTTATTGGGCATCTCAGCCGAAACGCTGGTGCTGGTGGCACCTTGTGATGGCCATGTGGTCTTTAACTGTGCCTGTCGTGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGATCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTCGTGGCACGTCTGCAGgtgaggtactatcaaacattgtgatccttggtttggtgtgcaacaggggc Alignment from Spaln_aa2Genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG ggtgcctccagcccctctttccctccttcattttactttgtaccttcaagG---GCAGTGAGTCGAACCCAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGGGCCTTTCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTCGCTGGACTTGGCCTCACGGTTCGGCTTGCCATCTCTAGGGGGTAGACGCCATTCAAACCCGCGGAGCTCAGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCGGGGGCACGGGTTGCAGCAGGAGCCGAAACAAGAGGTCCAGAGGACACTGAGGTGCCTTGCTTATTGGGCATCTCAGCCGAAACGCTGGTGCTGGTGGCACCTTGTGATGGCCATGTGGTCTTTAACTGTGCCTGTCGTGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGATCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTCGTGGCACGTCTGCAGgtgaggtactatcaaacattgtgatccttggtttggtgtgcaacaggggc Alignment from Spaln_nt2Genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG ggtgcctccagcccctctttccctccttcattttactttgtaccttcaag---GGCAGTGAGTCGAACCCAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGGGCCTTTCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTCGCTGGACTTGGCCTCACGGTTCGGCTTGCCATCTCTAGGGGGTAGACGCCATTCAAACCCGCGGAGCTCAGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCGGGGGCACGGGTTGCAGCAGGAGCCGAAACAAGAGGTCCAGAGGACACTGAGGTGCCTTGCTTATTGGGCATCTCAGCCGAAACGCTGGTGCTGGTGGCACCTTGTGATGGCCATGTGGTCTTTAACTGTGCCTGTCGTGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGATCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTCGTGGCACGTCTGCAGgtgaggtactatcaaacattgtgatccttggtttggtgtgcaacaggggc Alignment from Pairagon GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG ggtgcctccagcccctctttccctccttcattttactttgtaccttcaag---GGCAGTGAGTCGAACCCAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGGGCCTTTCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTCGCTGGACTTGGCCTCACGGTTCGGCTTGCCATCTCTAGGGGGTAGACGCCATTCAAACCCGCGGAGCTCAGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCGGGGGCACGGGTTGCAGCAGGAGCCGAAACAAGAGGTCCAGAGGACACTGAGGTGCCTTGCTTATTGGGCATCTCAGCCGAAACGCTGGTGCTGGTGGCACCTTGTGATGGCCATGTGGTCTTTAACTGTGCCTGTCGTGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGATCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTCGTGGCACGTCTGCAGgtgaggtactatcaaacattgtgatccttggtttggtgtgcaacaggggc Alignment from Exonerate_protein2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG ggtgcctccagcccctctttccctccttcattttactttgtaccttcaagG---GCAGTGAGTCGAACCCAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGGGCCTTTCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTCGCTGGACTTGGCCTCACGGTTCGGCTTGCCATCTCTAGGGGGTAGACGCCATTCAAACCCGCGGAGCTCAGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCGGGGGCACGGGTTGCAGCAGGAGCCGAAACAAGAGGTCCAGAGGACACTGAGGTGCCTTGCTTATTGGGCATCTCAGCCGAAACGCTGGTGCTGGTGGCACCTTGTGATGGCCATGTGGTCTTTAACTGTGCCTGTCGTGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGATCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTCGTGGCACGTCTGCAGgtgaggtactatcaaacattgtgatccttggtttggtgtgcaacaggggc Alignment from Exonerate_coding2genome GGTGGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG ggtgcctccagcccctctttccctccttcattttactttgtaccttcaagG---GCAGTGAGTCGAACCCAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGGGCCTTTCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTCGCTGGACTTGGCCTCACGGTTCGGCTTGCCATCTCTAGGGGGTAGACGCCATTCAAACCCGCGGAGCTCAGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCGGGGGCACGGGTTGCAGCAGGAGCCGAAACAAGAGGTCCAGAGGACACTGAGGTGCCTTGCTTATTGGGCATCTCAGCCGAAACGCTGGTGCTGGTGGCACCTTGTGATGGCCATGTGGTCTTTAACTGTGCCTGTCGTGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGATCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTCGTGGCACGTCTGCAGgtgaggtactatcaaacattgtgatccttggtttggtgtgcaacaggggc Alignment from GeneWise GGCAGTGAGCCGCACCCAGGACACTCCTGCCTTCGGTCCTGCGCTGCCAGAAGGCGGAGGCCCCTTTGCAGCCAATGCCGATTTCCGGGCCTTTCTGTTGGCTAAGGCACTCAATGGTGAGCAAGCGGCTGGTCATGCACGCCAGTTCCACGCCATGGCTACACGCACACGCCAACAGTACCTGCAGGACCTGGCTACTAATGAAGTGACCACTACTTCGCTGGACTCGGCTTCGCGGTTTGGCCTGCCATCTCTGGGGGGTAGGCGCCGGGCAACCCCTCGGAGCCCAGGCGCGGAGCTACAGGCGGCGGGTGCGCTGATGTGGGGCGTACGCGCGGCTCCAGGGGCGCGGGTCGCAGCGGGAGCTGAAACGAGCGGTCCGGAGGACGCCGAGGTGCCCTGCTTGTTGGGCATCTCAGCAGAGACACTGGTGCTGGTGGCACCTCGCGACGGCCGCGTGGTCTTCAATTGTGCCTGTCGCGACGTATTGGCCTGGACCTTCTCAGAGCACCAACTCGATCTGTACCACGGGCGCGGGGAGGCGATCACGCTGCGGCTCGACGGGGCCCCAGGGCAAGCCGTGGGCGAAGTCGTGGCACGTCTGCAG ggtgcctccagcccctctttccctccttcattttactttgtaccttcaagGGCAGTGAGTCGAACCCAAGACACTCCTGCTTTCAGACCTGCACTACCAGAAGGCGGAGGTCCCTTTGCAGCCAATGCTGACTTCCGGGCCTTTCCATGGGCTAAGGCACTCAATGGTGAGCAAGCAGCTGGGCACACAAGGCAGTTCCATGCCATGGCTACATGTACACGGCAACAGTACCTGCAGGACCTGGCTACTAATGAGGTGAGCACTACTTCGCTGGACTTGGCCTCACGGTTCGGCTTGCCATCTCTAGGGGGTAGACGCCATTCAAACCCGCGGAGCTCAGGTGCAAAGCTACAGGCAGCTGATGCACTGATGTGGGGTGTGCGTGCAGCTCCGGGGGCACGGGTTGCAGCAGGAGCCGAAACAAGAGGTCCAGAGGACACTGAGGTGCCTTGCTTATTGGGCATCTCAGCCGAAACGCTGGTGCTGGTGGCACCTTGTGATGGCCATGTGGTCTTTAACTGTGCCTGTCGTGATGTATTGGCCTGGACCTTTTCAGAGCACCAACTTGATCTGTACCATGGGCGTGGGGAAGCAATCACACTGCGACTGGATGGGCCTCCAGGACAAGCTGTGGGTGATGTCGTGGCACGTCTGCAGgtgaggtactatcaaacattgtgatccttggtttggtgtgcaacaggggc #### Sipa1_ID1150_2 --> 2 - 0 Original Alignment aaCACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG------ aaagccactctccaaccaaccaacaacacttgctgattttttttttccagaaCATCAGAACTTCTTTGGGCTAGATGAGGCACTGGGCCCAGTGGCTTTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGGGTAATTGTGCGAACCATGCAGGGTGAGgtgagtaaagatcacagggtaccatagcctatactttgagtgctgttttt Alignment from CESAR aaCACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG------ aaagccactctccaaccaaccaacaacacttgctgattttttttttccagaaCATCAGAACTTCTTTGGGCTAGATGAGGCACTGGGCCCAGTGGCTTTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGGGTAATTGTGCGAACCATGCAGGGTGAGgtgagtaaagatcacagggtaccatagcctatactattttgcttgtttct Alignment from Spaln_aa2Genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG------ aaagccactctccaaccaaccaacaacacttgctgattttttttttccagAACATCAGAACTTCTTTGGGCTAGATGAGGCACTGGGCCCAGTGGCTTTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGGGTAATTGTGCGAACCATGCAGGGTGAGgtgagtaaagatcacagggtaccatagcctatactttgagtgctgttttt Alignment from Spaln_nt2Genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG- aaagccactctccaaccaaccaacaacacttgctgattttttttttccagAACATCAGAACTTCTTTGGGCTAGATGAGGCACTGGGCCCAGTGGCTTTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGGGTAATTGTGCGAACCATGCAGGgtgaggtgagtaaagatcacagggtaccatagcctatactttgagtgctgttttt Alignment from Pairagon AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG------ aaagccactctccaaccaaccaacaacacttgctgattttttttttccagAACATCAGAACTTCTTTGGGCTAGATGAGGCACTGGGCCCAGTGGCTTTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGGGTAATTGTGCGAACCATGCAGGGTGAGgtgagtaaagatcacagggtaccatagcctatactttgagtgctgttttt Alignment from Exonerate_protein2genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG aaagccactctccaaccaaccaacaacacttgctgattttttttttccagAACATCAGAACTTCTTTGGGCTAGATGAGGCACTGGGCCCAGTGGCTTTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGGGTAATTGTGCGAACCATGCAGggtgaggtgagtaaagatcacagggtaccatagcctatactttgagtgctgttttt Alignment from Exonerate_coding2genome AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG aaagccactctccaaccaaccaacaacacttgctgattttttttttccagAACATCAGAACTTCTTTGGGCTAGATGAGGCACTGGGCCCAGTGGCTTTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGGGTAATTGTGCGAACCATGCAGggtgaggtgagtaaagatcacagggtaccatagcctatactttgagtgctgttttt Alignment from GeneWise AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG------ aaagccactctccaaccaaccaacaacacttgctgattttttttttccagAACATCAGAACTTCTTTGGGCTAGATGAGGCACTGGGCCCAGTGGCTTTGAGTCTTCAACGGGAGGAAAAAGAGGGCAGCGGAGGGGCCCCCCTACACAGCTTCCGGGTAATTGTGCGAACCATGCAGGGTGAGgtgagtaaagatcacagggtaccatagcctatactttgagtgctgttttt #### Slc18a2_ID12936_4 --> 2 - 1 Original Alignment tg------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg gatatcttggtcctgtagacaagggcaacatccttctcctatgtccaaagtgCTAATCTTTGCCTTTTCTAGTAGTTATGCCTTTCTGTTGATTGCCAAGTCACTGCAGGGAATTGGCTCATCCTGCTCATCTGTGGCTggtaagtttaaaattatcagtgcatggatagatgagctcaggacttatgtg Alignment from CESAR tg------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTg gatatcttggtcctgtagacaagggcaacatccttctcctatgtccaaagtgCTAATCTTTGCCTTTTCTAGTAGTTATGCCTTTCTGTTGATTGCCAAGTCACTGCAGGGAATTGGCTCATCCTGCTCATCTGTGGCTggtaagtttaaaattatcagtgcatggatagatgagctcaggacttatgtg Alignment from Spaln_aa2Genome TG------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gatatcttggtcctgtagacaagggcaacatccttctcctatgtccaaagTGCTAATCTTTGCCTTTTCTAGTAGTTATGCCTTTCTGTTGATTGCCAAGTCACTGCAGGGAATTGGCTCATCCTGCTCATCTGTGGCTGgtaagtttaaaattatcagtgcatggatagatgagctcaggacttatgtg Alignment from Spaln_nt2Genome TG------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gatatcttggtcctgtagacaagggcaacatccttctcctatgtccaaagTGCTAATCTTTGCCTTTTCTAGTAGTTATGCCTTTCTGTTGATTGCCAAGTCACTGCAGGGAATTGGCTCATCCTGCTCATCTGTGGCTGgtaagtttaaaattatcagtgcatggatagatgagctcaggacttatgtg Alignment from Pairagon TG------TTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gatatcttggtcctgtagacaagggcaacatccttctcctatgtccaaagTGCTAATCTTTGCCTTTTCTAGTAGTTATGCCTTTCTGTTGATTGCCAAGTCACTGCAGGGAATTGGCTCATCCTGCTCATCTGTGGCTGgtaagtttaaaattatcagtgcatggatagatgagctcaggacttatgtg Alignment from Exonerate_protein2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gatatcttggtcctgtagacaagggcaacatccttctcctatgtccaaagtgctaaTCTTTGCCTTTTCTAGTAGTTATGCCTTTCTGTTGATTGCCAAGTCACTGCAGGGAATTGGCTCATCCTGCTCATCTGTGGCTGgtaagtttaaaattatcagtgcatggatagatgagctcaggacttatgtg Alignment from Exonerate_coding2genome TGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gatatcttggtcctgtagacaagggcaacatccttctcctatgtccaaagtgctaaTCTTTGCCTTTTCTAGTAGTTATGCCTTTCTGTTGATTGCCAAGTCACTGCAGGGAATTGGCTCATCCTGCTCATCTGTGGCTGgtaagtttaaaattatcagtgcatggatagatgagctcaggacttatgtg Alignment from GeneWise -----ATGTTTGCCTTCTCCAGCAGCTATGCCTTCCTGCTGATCGCCAGGTCCCTGCAGGGAATCGGCTCCTCTTGCTCATCTGTGGCTG gatatcttggtcctgtagacaagggcaacatccttctcctatgtccaaagTGCTAATCTTTGCCTTTTCTAGTAGTTATGCCTTTCTGTTGATTGCCAAGTCACTGCAGGGAATTGGCTCATCCTGCTCATCTGTGGCTGgtaagtttaaaattatcagtgcatggatagatgagctcaggacttatgtg #### Slc18a2_ID12939_7 --> 2 - 0 Original Alignment ct---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ccagtcttgtgtactgccagacgtgggacatctctagccctctcttacagctGACATTCAGCTCTTTGTAATCCAG---TCCTGTGTACTGCCAGACgtaagaagctgggagtgggaggtaagggccaacaacggacctaggcaagt Alignment from CESAR ct---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ccagtcttgtgtactgccagacgtgggacatctctagccctctcttacagctGACATTCAGCTCTTTGTAATCCAG---TCCTGTGTACTGCCAGACgtaagaagctgggagtgggaggtaagggccaacaacggacctaggcaagt Alignment from Spaln_aa2Genome GCCATCCCGAGTGCAGCCAGAA G---TCTTGTGTACTGCCAGACgtgggacatctctagccctctcttacagctgacattcagctctttgtaatccagtcctgtgtactgccagacgtaagaagctgggagtgggaggtaagggccaacaacggacctaggcaagt Alignment from Spaln_nt2Genome CT---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ccagtcttgtgtactgccagacgtgggacatctctagccctctcttacagCTGACATTCAGCTCTTTGTAATCCAG---TCCTGTGTACTGCCAGACgtaagaagctgggagtgggaggtaagggccaacaacggacctaggcaagt Alignment from Pairagon CT---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ccagtcttgtgtactgccagacgtgggacatctctagccctctcttacagCTGACATTCAGCTCTTTGTAATCCAG---TCCTGTGTACTGCCAGACgtaagaagctgggagtgggaggtaagggccaacaacggacctaggcaagt Alignment from Exonerate_protein2genome CTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ccagtcttgtgtactgccagacgtgggacatctctagccctctcttacagctgACATTCAGCTCTTTGTAATCCAG---TCCTGTGTACTGCCAGACgtaagaagctgggagtgggaggtaagggccaacaacggacctaggcaagt Alignment from Exonerate_coding2genome TCAGCT ccagtcttgtgtactgccagacgtgggacatctctagccctctcttacagctgacattcagctctttgtaatccagtcctgtgtactgccagacgtaagaagctgggagtgggaggtaagggccaacaacggacctagGCAAGT Alignment from GeneWise ccagtcttgtgtactgccagacgtgggacatctctagccctctcttacagctgacattcagctctttgtaatccagtcctgtgtactgccagacgtaagaagctgggagtgggaggtaagggccaacaacggacctaggcaagt #### Slc18a2_ID12940_8 --> 0 - 1 Original Alignment AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAg ccaacaacggacctaggcaagtttttccatgtgcacatctctctcatcagAGTCAGAAGGGGACACCTCTTACAACCTTACTGGAGGACCCATACATTCTG---------ggtaagtagccattgtaacctttaatttattgatggtatgaaaagttctag Alignment from CESAR AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAg ccaacaacggacctaggcaagtttttccatgtgcacatctctctcatcagAGTCAGAAGGGGACACCTCTTACAACCTTACTGGAGGACCCATACATTCTG---------ggtaagtagccattgtaacctttaatttattgatggtatgaaaagttctag Alignment from Spaln_aa2Genome AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTC- ccaacaacggacctaggcaagtttttccatgtgcacatctctctcatcagAGTCAGAAGGGGACACCTCTTACAACCTTACTGGAGGACCCATACATTCTGGgtaagtagccattgtaacctttaatttattgatggtatgaaaagttctag Alignment from Spaln_nt2Genome AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCA ccaacaacggacctaggcaagtttttccatgtgcacatctctctcatcagAGTCAGAAGGGGACACCTCTTACAACCTTACTGGAGGACCCATACATTCTGGgtaagtagccattgtaacctttaatttattgatggtatgaaaagttctag Alignment from Pairagon AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCATCGCTGCAG ccaacaacggacctaggcaagtttttccatgtgcacatctctctcatcagAGTCAGAAGGGGACACCTCTTACAACCTTACTGGAGGACCCATACATTCT---------GGgtaagtagccattgtaacctttaatttattgatggtatgaaaagttctag Alignment from Exonerate_protein2genome AGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCA ccaacaacggacctaggcaagtttttccatgtgcacatctctctcatcagAGTCAGAAGGGGACACCTCTTACAACCTTACTGGAGGACCCATACATTCTGGgtaagtagccattgtaacctttaatttattgatggtatgaaaagttctag Alignment from Exonerate_coding2genome ATCCCGAGTGCAGCCAGAAAGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCA ccaacaacggacctaggcaagtttttccatgTGCACATCTCTCTCATCAGAGTCAGAAGGGGACACCTCTTACAACCTTACTGGAGGACCCATACATTCTGGgtaagtagccattgtaacctttaatttattgatggtatgaaaagttctag Alignment from GeneWise ----GTGCTCCAGCCATCCCGAGTGCAGCCAGAAAGTCAGAAGGGGACACCTCTTACGACCTTGCTGAAGGACCCATACATTCTCA ccaacaacggacctagGCAAGTTTTTCCATGTGCACATCTCTCTCATCAGAGTCAGAAGGGGACACCTCTTACAACCTTACTGGAGGACCCATACATTCTGGgtaagtagccattgtaacctttaatttattgatggtatgaaaagttctag #### Slc22a12_ID1789_8 --> 2 - 2 Original Alignment ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag tatgaagagaatatcgtacccctcactgcttctcttttgtcatattttagggATGGGGGTCCTTCGCTCAGCCCTGGCTGTGCTGGGGTTGGGCTGCCTAGGGGGCGCCTTCACCTGCATCACC---------------------------------aggtgagtgtcattagcccaaggagcacaccttcagttaggcgaagtcatgt Alignment from CESAR ggATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCag tatgaagagaatatcgtacccctcactgcttctcttttgtcatattttagggATGGGGGTCCTTCGCTCAGCCCTGGCTGTGCTGGGGTTGGGCTGCCTAGGGGGCGCCTTCACCTGCATCACC---------------------------------aggtgagtgtcattagcccaaggagcacaccttcagttaggcgaagtcatgt Alignment from Spaln_aa2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCAT tatgaagagaatatcgtacccctcactgcttctcttttgtcatattttagGGATGGGGGTCCTTCGCTCAGCCCTGGCTGTGCTGGGGTTGGGCTGCCTAGGGGGCGCCTTCACCTGCATCACCAGgtgagtgtcattagcccaaggagcacaccttcagttaggcgaagtcatgt Alignment from Spaln_nt2Genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCAT tatgaagagaatatcgtacccctcactgcttctcttttgtcatattttagGGATGGGGGTCCTTCGCTCAGCCCTGGCTGTGCTGGGGTTGGGCTGCCTAGGGGGCGCCTTCACCTGCATCACCAGgtgagtgtcattagcccaaggagcacaccttcagttaggcgaagtcatgt Alignment from Pairagon GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCATCTTCTCCAGTGAGCTCTTCCCCACTGTGATCAG tatgaagagaatatcgtacccctcactgcttctcttttgtcatattttagGGATGGGGGTCCTTCGCTCAGCCCTGGCTGTGCTGGGGTTGGGCTGCCTAGGGGGCGCCTTCACCTGCATCAC---------------------------------CAGgtgagtgtcattagcccaaggagcacaccttcagttaggcgaagtcatgt Alignment from Exonerate_protein2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCAT tatgaagagaatatcgtacccctcactgcttctcttttgtcatattttagGGATGGGGGTCCTTCGCTCAGCCCTGGCTGTGCTGGGGTTGGGCTGCCTAGGGGGCGCCTTCACCTGCATCACCAGgtgagtgtcattagcccaaggagcacaccttcagttaggcgaagtcatgt Alignment from Exonerate_coding2genome GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCAT tatgaagagaatatcgtacccctcactgcttctcttttgtcatattttagGGATGGGGGTCCTTCGCTCAGCCCTGGCTGTGCTGGGGTTGGGCTGCCTAGGGGGCGCCTTCACCTGCATCACCAGgtgagtgtcattagcccaaggagcacaccttcagttaggcgaagtcatgt Alignment from GeneWise GGATGGGGGTCCTTCGCTCGGCCCTGGCTGTGCTGGGGCTGGGCTGCCTGGGGGGCGCCTTCACCTGCATCACCAT tatgaagagaatatcgtacccctcactgcttctcttttgtcatattttagGGATGGGGGTCCTTCGCTCAGCCCTGGCTGTGCTGGGGTTGGGCTGCCTAGGGGGCGCCTTCACCTGCATCACCAGgtgagtgtcattagcccaaggagcacaccttcagttaggcgaagtcatgt #### Slc22a12_ID1791_6 --> 0 - 2 Original Alignment GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg tgggggtggacctagagacttggtgccgctttattttatttctattccag---CTGCGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCTGGTGCCAGTCTTGGCACTTTACTCCACACACCTGGGTTGCGCCACCGAACCATCATCTCTATGCTGTGCctgtgagcgcctctacctaaaactgtcagtccagtggatgtcaccctttccc Alignment from CESAR GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCtg acctgggggtggacctagagacttgccgctttattttatttctattccag---CTGCGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCTGGTGCCAGTCTTGGCACTTTACTCCACACACCTGGGTTGCGCCACCGAACCATCATCTCTATGCTGTGCctgtgagcgcctctacctaaaactgtcagtccagtggatgtcaccctttccc Alignment from Spaln_aa2Genome GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggtggacctagagacttggtgccgctttattttatttctattccagCTGCGGTCAGCTATG---GACAAGGAACCAAGCAGGGACCAGGCTGGTGCCAGTCTTGGCACTTTACTCCACACACCTGGGTTGCGCCACCGAACCATCATCTCTATGCTGTGCCTgtgagcgcctctacctaaaactgtcagtccagtggatgtcaccctttccc Alignment from Spaln_nt2Genome CTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggtggacctagagacttggtgccgctttattttatttctattccagCTGCGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCTGGTGCCAGTCTTGGCACTTTACTCCACACACCTGGGTTGCGCCACCGAACCATCATCTCTATGCTGTGCCTgtgagcgcctctacctaaaactgtcagtccagtggatgtcaccctttccc Alignment from Pairagon GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggtggacctagagacttggtgccgctttattttatttctattccag---CTGCGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCTGGTGCCAGTCTTGGCACTTTACTCCACACACCTGGGTTGCGCCACCGAACCATCATCTCTATGCTGTGCCTgtgagcgcctctacctaaaactgtcagtccagtggatgtcaccctttccc Alignment from Exonerate_protein2genome CTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggtggacctagagacttggtgccgctttattttatttctattccagCTGCGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCTGGTGCCAGTCTTGGCACTTTACTCCACACACCTGGGTTGCGCCACCGAACCATCATCTCTATGCTGTGCCTgtgagcgcctctacctaaaactgtcagtccagtggatgtcaccctttccc Alignment from Exonerate_coding2genome CTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggtggacctagagacttggtgccgctttattttatttctattccagCTGCGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCTGGTGCCAGTCTTGGCACTTTACTCCACACACCTGGGTTGCGCCACCGAACCATCATCTCTATGCTGTGCCTgtgagcgcctctacctaaaactgtcagtccagtggatgtcaccctttccc Alignment from GeneWise GTGCTGCGGTCAGCTATGGAGGAGGAACCAAGCAGGGACAAAGCTGGTGCCAGTCTGGGCACTCTACTCCACACACCTGGGCTGCGCCACCGAACCATCATCTCCATGCTGTGCTG tgggggtggacctagagacttggtgccgctttattttatttctattccagCTG---CGGTCAGCTATGGACAAGGAACCAAGCAGGGACCAGGCTGGTGCCAGTCTTGGCACTTTACTCCACACACCTGGGTTGCGCCACCGAACCATCATCTCTATGCTGTGCCTgtgagcgcctctacctaaaactgtcagtccagtggatgtcaccctttccc #### Slc22a12_ID1794_3 --> 1 - 1 Original Alignment g---------TTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt gtcacccagagcttttgttgctacccagctttatccttctgcattttcaggCTGGGGCAGTTTGGGCGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCCGTGTCTGGCACAGCTGCTGCCTTCATGCCCACCTTCCCGCTGCACTGTCTGTTTTCCTTCCTGCTGGCATCTTCAGTGGCAGGCATCATGATGAACACAGCCGGTCTCcgtagaacccattattagtgtgaggttgtaaaggctactgctagacctgga Alignment from CESAR g---------TTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCt gtcacccagagcttttgttgctacccagctttatccttctgcattttcaggCTGGGGCAGTTTGGGCGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCCGTGTCTGGCACAGCTGCTGCCTTCATGCCCACCTTCCCGCTGCACTGTCTGTTTTCCTTCCTGCTGGCATCTTCAGTGGCAGGCATCATGATGAACACAGCCGGTCTCcgtagaacccattattagtgtgaggttgtaaaggctactgctagacctgga Alignment from Spaln_aa2Genome GTTTGGGCGC---------AGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gtcacccagagcttttgttgctacccagctttatccttctgcattttcagGCTGGGGCAGTTTGGGCGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCCGTGTCTGGCACAGCTGCTGCCTTCATGCCCACCTTCCCGCTGCACTGTCTGTTTTCCTTCCTGCTGGCATCTTCAGTGGCAGGCATCATGATGAACACAGCCGGTCTCCgtagaacccattattagtgtgaggttgtaaaggctactgctagacctgga Alignment from Spaln_nt2Genome GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gtcacccagagcttttgttgctacccagctttatccttctgcattttcaggctggggcagTTTGGGCGCA-GAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCCGTGTCTGGCACAGCTGCTGCCTTCATGCCCACCTTCCCGCTGCACTGTCTGTTTTCCTTCCTGCTGGCATCTTCAGTGGCAGGCATCATGATGAACACAGCCGGTCTCCgtagaacccattattagtgtgaggttgtaaaggctactgctagacctgga Alignment from Pairagon ---------GTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gtcacccagagcttttgttgctacccagctttatccttctgcattttcagGCTGGGGCAGTTTGGGCGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCCGTGTCTGGCACAGCTGCTGCCTTCATGCCCACCTTCCCGCTGCACTGTCTGTTTTCCTTCCTGCTGGCATCTTCAGTGGCAGGCATCATGATGAACACAGCCGGTCTCCgtagaacccattattagtgtgaggttgtaaaggctactgctagacctgga Alignment from Exonerate_protein2genome G---------TTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gtcacccagagcttttgttgctacccagctttatccttctgcattttcagGCTGGGGCAGTTTGGGCGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCCGTGTCTGGCACAGCTGCTGCCTTCATGCCCACCTTCCCGCTGCACTGTCTGTTTTCCTTCCTGCTGGCATCTTCAGTGGCAGGCATCATGATGAACACAGCCGGTCTCCgtagaacccattattagtgtgaggttgtaaaggctactgctagacctgga Alignment from Exonerate_coding2genome G---------TTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gtcacccagagcttttgttgctacccagctttatccttctgcattttcagGCTGGGGCAGTTTGGGCGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCCGTGTCTGGCACAGCTGCTGCCTTCATGCCCACCTTCCCGCTGCACTGTCTGTTTTCCTTCCTGCTGGCATCTTCAGTGGCAGGCATCATGATGAACACAGCCGGTCTCCgtagaacccattattagtgtgaggttgtaaaggctactgctagacctgga Alignment from GeneWise -------AGGTTTGGGCGCAGAAGGGTGCTGACCTGGAGCTATCTTCTGGTGTCCGTGTCCGGCACAGCAGCTGCCTTCATGCCCACCTTCCCCCTCTACTGCCTGTTTCGTTTCCTGCTGGCCTCTGCAGTGGCAGGTGTCATGATGAACACAGCCAGTCTCT gtcacccagagcttttgttgctacccagctttatccttctgcattttcagGCTGGGGCAGTTTGGGCGCAGAAGGGTACTGACCTGGAGCTATCTCTTGGTGTCCGTGTCTGGCACAGCTGCTGCCTTCATGCCCACCTTCCCGCTGCACTGTCTGTTTTCCTTCCTGCTGGCATCTTCAGTGGCAGGCATCATGATGAACACAGCCGGTCTCCgtagaacccattattagtgtgaggttgtaaaggctactgctagacctgga #### Slc22a6_ID2284_5 --> 1 - 0 Original Alignment gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaaaagagaccataccaacatcagtgttgctctgttggcttctgttacagg------ATTGAATCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGCATCAATGGGAAACAAGAAGAGGGGCCTAAGCTGTGTATAGAGgtgagttctatttattcctagacactgcctgaaatccgacccaggtcctc Alignment from CESAR gTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG atattgaaaaagagaccataccaacgttgctctgttggcttctgttacagg------ATTGAATCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGCATCAATGGGAAACAAGAAGAGGGGCCTAAGCTGTGTATAGAGgtgagttctatttattcctagacactgcctgaaatccgacccaggtcctc Alignment from Spaln_aa2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaaaagagaccataccaacatcagtgttgctctgttggcttctgttacagG------ATTGAATCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGCATCAATGGGAAACAAGAAGAGGGGCCTAAGCTGTGTATAGAGgtgagttctatttattcctagacactgcctgaaatccgacccaggtcctc Alignment from Spaln_nt2Genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaaaagagaccataccaacatcagtgttgctctgttggcttctgttacagG------ATTGAATCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGCATCAATGGGAAACAAGAAGAGGGGCCTAAGCTGTGTATAGAGgtgagttctatttattcctagacactgcctgaaatccgacccaggtcctc Alignment from Pairagon GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaaaagagaccataccaacatcagtgttgctctgttggcttctgttacagG------ATTGAATCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGCATCAATGGGAAACAAGAAGAGGGGCCTAAGCTGTGTATAGAGgtgagttctatttattcctagacactgcctgaaatccgacccaggtcctc Alignment from Exonerate_protein2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaaaagagaccataccaacatcagtgttgctctgttggcttctgttacagG------ATTGAATCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGCATCAATGGGAAACAAGAAGAGGGGCCTAAGCTGTGTATAGAGgtgagttctatttattcctagacactgcctgaaatccgacccaggtcctc Alignment from Exonerate_coding2genome GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaaaagagaccataccaacatcagtgttgctctgttggcttctgttacagG------ATTGAATCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGCATCAATGGGAAACAAGAAGAGGGGCCTAAGCTGTGTATAGAGgtgagttctatttattcctagacactgcctgaaatccgacccaggtcctc Alignment from GeneWise GTTCTTCATTGAGTCAGCCCGCTGGTACTCCTCCTCTGGAAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCCGCATCAACGGGAAACAAGAAGAGGGGGCTAAGCTGAGTATAGAG aaaaagagaccataccaacatcagtgttgctctgttggcttctgttacagG------ATTGAATCAGCCCGCTGGTACTCCTCCTCTGGTAGGCTGGACCTCACCCTCCGAGCCCTGCAGAGAGTGGCCTGCATCAATGGGAAACAAGAAGAGGGGCCTAAGCTGTGTATAGAGgtgagttctatttattcctagacactgcctgaaatccgacccaggtcctc #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag tggacgagtgaaaatcctgtcccatgttcaatcttttctgctctcctaagag---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCaggtccgtggtgcacctgggtcaggggtccatgcacagaactgaattttcaa Alignment from CESAR aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag ctctggacgagtgaaaatcctgtccgttcaatcttttctgctctcctaagag---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCaggtccgtggtgcacctgggtcaggggtccatgcacagaactgaattttcaa Alignment from Spaln_aa2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tggacgagtgaaaatcctgtcccatgttcaatcttttctgctctcctaagAG---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtccgtggtgcacctgggtcaggggtccatgcacagaactgaattttcaa Alignment from Spaln_nt2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tggacgagtgaaaatcctgtcccatgttcaatcttttctgctctcctaagA---GGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtccgtggtgcacctgggtcaggggtccatgcacagaactgaattttcaa Alignment from Pairagon T----------------------------------------------------------TGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG TGGACGAGTGAAAATCCTGTCCCATGTTCAATCTTTTCTGCTCTCCTAAGAGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtccgtggtgcacctgggtcaggggtccatgcacagaactgaattttcaa Alignment from Exonerate_protein2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tggacgagtgaaaatcctgtcccatgttcaatcttttctgctctcctAAGAGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtccgtggtgcacctgggtcaggggtccatgcacagaactgaattttcaa Alignment from Exonerate_coding2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tggacgagtgaaaatcctgtcccatgttcaatcttttctgctctcctAAGAGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtccgtggtgcacctgggtcaggggtccatgcacagaactgaattttcaa Alignment from GeneWise AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG tggacgagtgaaaatcctgtcccatgttcaatcttttctgctctcctaagAG---GAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtccgtggtgcacctgggtcaggggtccatgcacagaactgaattttcaa #### Slc22a8_ID2276_9 --> 1 - 2 Original Alignment gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg tttaagagttgttcgcactggcccgcaaaggattccgtctttctttctaggCAAACAGGTATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCTTGGTTAAAGTCACAGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATG---CTACTAGGAGGCAGTGCTGCTTTTTTTCTGCTTGAGACCCTCAATCGTTCCCTA---------------------------tggttttttcttcacctctgtcacacatgggatatcgtacagtgaaggggac Alignment from CESAR gCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACtg tttaagagttgttcgcactggcccgcaaaggattccgtctttctttctaggCAAACAGGTATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCTTGGTTAAAGTCACAGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATG---CTACTAGGAGGCAGTGCTGCTTTTTTTCTGCTTGAGACCCTCAATCGTTCCCTA---------------------------tggttttttcttcacctctgtcacacatgggatatcgtacagtgaaggggac Alignment from Spaln_aa2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACC AGAAACTATC tttaagagttgttcgcactggcccgcaaaggattccgtctttctttctagGCAAACAGGTATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCTTGGTTAAAGTCACAGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGCTA---CTAGGAGGCAGTGCTGCTTTTTTTCTGCTTGAGACCCTCAATCGTTCCCTATGgttttttcttcacctctgtcacacatgggatatcgtacagTGAAGGGGAC Alignment from Spaln_nt2Genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTAC--------CAGAAACTATCGAGGACATACAAGACTG tttaagagttgttcgcactggcccgcaaaggattccgtctttctttctagGCAAACAGGTATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCTTGGTTAAAGTCACAGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATG---CTACTAGGAGGCAGTGCTGCTTTTTTTCTGCTTGAGACCCTCAATCGTTCCCTATGGTTTTTTCTTCACCTCTGTCACACATGGGATA-TCgtacagtgaagggga Alignment from Pairagon GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tttaagagttgttcgcactggcccgcaaaggattccgtctttctttctagGCAAACAGGTATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCTTGGTTAAAGTCACAGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATG---CTACTAGGAGGCAGTGCTGCTTTTTTTCTGCTTGAGACCCTCAATCGTTCCCTA---------------------------TGgttttttcttcacctctgtcacacatgggatatcgtacagtgaaggggac Alignment from Exonerate_protein2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tttaagagttgttcgcactggcccgcaaaggattccgtctttctttctagGCAAACAGGTATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCTTGGTTAAAGTCACAGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATG---CTACTAGGAGGCAGTGCTGCTTTTTTTCTGCTTGAGACCCTCAATCGTTCCCTATGGTTTTTTCTTCACCTCTGTCACACATGggatatcgtacagtgaaggggac Alignment from Exonerate_coding2genome GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACCAGAAACTATCGAGGACATACAAGACTG tttaagagttgttcgcactggcccgcaaaggattccgtctttctttctagGCAAACAGGTATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCTTGGTTAAAGTCACAGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATG---CTACTAGGAGGCAGTGCTGCTTTTTTTCTGCTTGAGACCCTCAATCGTTCCCTATGGTTTTTTCTTCACCTCTGTCACACATGggatatcgtacagtgaaggggac Alignment from GeneWise GCAAACAGGTATGGGTATCAGTAACATATGGGCTCGAGTGGGAAGTATGATAGCCCCACTGGTGAAAATCACGGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATGACTCTACTGGGAGGCAGTGCTGCCTTCTTTCTGCTTGAGACCCTCAATCGGCCCTTACC AGAAACTATC tttaagagttgttcgcactggcccgcaaaggattccgtctttctttctagGCAAACAGGTATGGGCATCAGTAACATATGGGCTCGGGTTGGAAGTATGATAGCCCCCTTGGTTAAAGTCACAGGAGAACTGCAGCCCTTCATCCCTAATGTCATCTTTGGGACCATG---CTACTAGGAGGCAGTGCTGCTTTTTTTCTGCTTGAGACCCTCAATCGTTCCCTATGgttttttcttcacctctgtcacacatgggatatcgtacagTGAAGGGGAC #### Slc25a45_ID1291_2 --> 2 - 0 Original Alignment gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG tggacttgtttcttggacttggcatcttatacaaacttctcatattgtaggaGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTA---gtaactaatgaagtaaatgcgctgggaggagagatagtcttgcaaaacct Alignment from CESAR gaGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG tggacttgtttcttggacttggcatcttatacaaacttctcatattgtaggaGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTA---gtaactaatgaagtaaatgcgctgggaggagagatagtcttgcaaaa Alignment from Spaln_aa2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTA tggacttgtttcttggacttggcatcttatacaaacttctcatattgtagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAgtaactaatgaagtaaatgcgctgggaggagagatagtcttgcaaaacct Alignment from Spaln_nt2Genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAA---------AG tggacttgtttcttggacttggcatcttatacaaacttctcatattgtagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAGTAACTAATGAAgtaaatgcgctgggaggagagatagtcttgcaaaacct Alignment from Pairagon GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTA tggacttgtttcttggacttggcatcttatacaaacttctcatattgtagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTAgtaactaatgaagtaaatgcgctgggaggagagatagtcttgcaaaacct Alignment from Exonerate_protein2genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG tggacttgtttcttggacttggcatcttatacaaacttctcatattgtagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTA---gtaactaatgaagtaaatgcgctgggaggagagatagtcttgcaaaa Alignment from Exonerate_coding2genome GAGCTGTGGGCCTGGTCCTGGGGCACCCATTCGACACTGTAAAG tggacttgtttcttggacttggcatcttatacaaacttctcatattgtagGAGCTGTGGGCCTGGTCCTGGGGCACCCATTTGACACTGTA---gtaactaatgaagtaaatgcgctgggaggagagatagtcttgcaaaa Alignment from GeneWise tggacttgtttcttggacttggcatcttatacaaacttctcatattgtaggagctgtgggcctggtcctggggcacccatttgacactgtagtaactaatgaagtaaatgcgctgggaggagagatagtcttgcaaaacct #### Slc25a45_ID1292_3 --> 0 - 0 Original Alignment ------GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacctggttgccattattggagcagctgtctgtctttcattcaccgcagCTATCAGTACGGTTACAGACCCAAAGCACGTATCGGGGCATTGTGGACTGTGTAGCTAAGACATATCGCCATGAGTCAgtaggttgcccacttattagtggtagagagagtcatcagagcaggtgggg Alignment from CESAR ------GTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacctggttgccattattggagcagctgtctgtctttcattcaccgcagCTATCAGTACGGTTACAGACCCAAAGCACGTATCGGGGCATTGTGGACTGTGTAGCTAAGACATATCGCCATGAGTCAgtaggttgcccacttattagtggtagagagagtcatcagagcaggtgggg Alignment from Spaln_aa2Genome GTAAAGGTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacctggttgccattattggagcagctgtctgtctttcattcaccgcagCTATCAGTACGGTTACAGACCCAAAGCACGTATCGGGGCATTGTGGACTGTGTAGCTAAGACATATCGCCATGAGTCAgtaggttgcccacttattagtggtagagagagtcatcagagcaggtgggg Alignment from Spaln_nt2Genome GTGCGGTTACAGA------CCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacctggttgccattattggagcagctgtctgtctttcattcaccgcagCTATCAGTACGGTTACAGACCCAAAGCACGTATCGGGGCATTGTGGACTGTGTAGCTAAGACATATCGCCATGAGTCAgtaggttgcccacttattagtggtagagagagtcatcagagcaggtgggg Alignment from Pairagon TGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacctggttgccattattggagcagctgtctgtctttcattcaccgcagctatcagTACGGTTACAGACCCAAAGCACGTATCGGGGCATTGTGGACTGTGTAGCTAAGACATATCGCCATGAGTCAgtaggttgcccacttattagtggtagagagagtcatcagagcaggtgggg Alignment from Exonerate_protein2genome GTAAAGGTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacctggttgccattattggagcagctgtctgtctttcattcaccgcagCTATCAGTACGGTTACAGACCCAAAGCACGTATCGGGGCATTGTGGACTGTGTAGCTAAGACATATCGCCATGAGTCAgtaggttgcccacttattagtggtagagagagtcatcagagcaggtgggg Alignment from Exonerate_coding2genome GTAAAGGTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacctggttgccattattggagcagctgtctgtctttcattcaccgcagCTATCAGTACGGTTACAGACCCAAAGCACGTATCGGGGCATTGTGGACTGTGTAGCTAAGACATATCGCCATGAGTCAgtaggttgcccacttattagtggtagagagagtcatcagagcaggtgggg Alignment from GeneWise GTAAAGGTGCGGTTACAGACCCAAAGCACGTACCAGGGCATTGTGGACTGCGTAGTCAAGACTTACCGCCATGAGTCA tgacctggttgccattattggagcagctgtctgtctttcattcaccgcagCTATCAGTACGGTTACAGACCCAAAGCACGTATCGGGGCATTGTGGACTGTGTAGCTAAGACATATCGCCATGAGTCAgtaggttgcccacttattagtggtagagagagtcatcagagcaggtgggg #### Slc25a45_ID1293_4 --> 0 - 0 Original Alignment ---GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttgggacacaaaattaacaattgcttgttcacagCCTGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTGAACTCTGTCCTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACGTCTCATCAGGAGCGCCAGGCCCAGCCACCCAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCTGCAGgtaaaagtatcattgttgctggatagctgaaatacttttagctcattgaa Alignment from CESAR ---GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttgggacacaaaattaacaattgcttgttcacagCCTGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTGAACTCTGTCCTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACGTCTCATCAGGAGCGCCAGGCCCAGCCACCCAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCTGCAGgtaaaagtatcattgttgctggatagctgaaatacttttagctcattgaa Alignment from Spaln_aa2Genome GTCCTGGGTTTCTTC---AAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttgggacacaaaattaacaattgcttgttcacagCCTGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTGAACTCTGTCCTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACGTCTCATCAGGAGCGCCAGGCCCAGCCACCCAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCTGCAGgtaaaagtatcattgttgctggatagctgaaatacttttagctcattgaa Alignment from Spaln_nt2Genome GTCCTGGGTTTCT---TCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttgggacacaaaattaacaattgcttgttcacagCCTGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTGAACTCTGTCCTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACGTCTCATCAGGAGCGCCAGGCCCAGCCACCCAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCTGCAGgtaaaagtatcattgttgctggatagctgaaatacttttagctcattgaa Alignment from Pairagon ---GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttgggacacaaaattaacaattgcttgttcacagCCTGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTGAACTCTGTCCTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACGTCTCATCAGGAGCGCCAGGCCCAGCCACCCAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCTGCAGgtaaaagtatcattgttgctggatagctgaaatacttttagctcattgaa Alignment from Exonerate_protein2genome ---GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttgggacacaaaattaacaattgcttgttcacagCCTGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTGAACTCTGTCCTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACGTCTCATCAGGAGCGCCAGGCCCAGCCACCCAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCTGCAGgtaaaagtatcattgttgctggatagctgaaatacttttagctcattgaa Alignment from Exonerate_coding2genome ---GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttgggacacaaaattaacaattgcttgttcacagCCTGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTGAACTCTGTCCTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACGTCTCATCAGGAGCGCCAGGCCCAGCCACCCAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCTGCAGgtaaaagtatcattgttgctggatagctgaaatacttttagctcattgaa Alignment from GeneWise ---GTCCTGGGTTTCTTCAAGGGAATGAGTTTCCCCATCGCCAGTGTAGCCCTGGTCAACTCCGTCCTGTTCGGAGTGTACAGCAACACGCTCCTGGCGCTAACAGCCACCTCCCATCAGGAGCGACGGGCCCAGCCACCCAGCTACACAAACATCTTTATAGCAGGTTGTACTGGGGGCCTCCTGCAG ctcactagagctagatttgggacacaaaattaacaattgcttgttcacagCCTGTTCTGGGTTTCTTCAAGGGAATGAGTTTCCCAATTGCTACTGTAGCCCTGGTGAACTCTGTCCTGTTTGGAGTGTACAGCAACACACTCCTGGCACTAACAGCCACGTCTCATCAGGAGCGCCAGGCCCAGCCACCCAGCCACACAAACATCTTTATAGCAGGTTGTACCGGGGGCCTCCTGCAGgtaaaagtatcattgttgctggatagctgaaatacttttagctcattgaa #### Slc29a2_ID795_9 --> 0 - 1 Original Alignment ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgcaattgggacttccctgactactcagatgccatgtctttctttcctagATCTGGCTGACAGCACTGTGCCTTGTGTTGGTCTTCACAGTAACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCT---------ggtgcgtgcctggcggtcttgggataatgcacagcatggaacaggggggcc Alignment from CESAR ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAGTGGg tgcaattgggacttccctgactactcagatgccatgtctttctttcctagATCTGGCTGACAGCACTGTGCCTTGTGTTGGTCTTCACAGTAACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCT---------ggtgcgtgcctggcggtcttgggataatgcacagcatggaacaggggggcc Alignment from Spaln_aa2Genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCGGGAAG- tgcaattgggacttccctgactactcagatgccatgtctttctttcctagATCTGGCTGACAGCACTGTGCCTTGTGTTGGTCTTCACAGTAACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGGTGCGTgcctggcggtcttgggataatgcacagcatggaacaggggggcc Alignment from Spaln_nt2Genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCG tgcaattgggacttccctgactactcagatgccatgtctttctttcctagATCTGGCTGACAGCACTGTGCCTTGTGTTGGTCTTCACAGTAACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGgtgcgtgcctggcggtcttgggataatgcacagcatggaacaggggggcc Alignment from Pairagon ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCG tgcaattgggacttccctgactactcagatgccatgtctttctttcctagATCTGGCTGACAGCACTGTGCCTTGTGTTGGTCTTCACAGTAACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGgtgcgtgcctggcggtcttgggataatgcacagcatggaacaggggggcc Alignment from Exonerate_protein2genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCG tgcaattgggacttccctgactactcagatgccatgtctttctttcctagATCTGGCTGACAGCACTGTGCCTTGTGTTGGTCTTCACAGTAACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGgtgcgtgcctggcggtcttgggataatgcacagcatggaacaggggggcc Alignment from Exonerate_coding2genome ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCG tgcaattgggacttccctgactactcagatgccatgtctttctttcctagATCTGGCTGACAGCACTGTGCCTTGTGTTGGTCTTCACAGTAACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGgtgcgtgcctggcggtcttgggataatgcacagcatggaacaggggggcc Alignment from GeneWise ATCTGGCTGACGGCGCTGTGCCTTGTGTTGGTCTTCACAGTCACCCTGTCGGTCTTTCCTGCCATCACAGCCATGGTGACCACCAGCTCCAATAGCCCCG tgcaattgggacttccctgactactcagatgccatgtctttctttcctagATCTGGCTGACAGCACTGTGCCTTGTGTTGGTCTTCACAGTAACCCTATCTGTTTTTCCTGCTATCACAGCCATGGTGACCACCAGCTCCAATAGCCCTGgtgcgtgcctggcggtcttgggataatgcacagcatggaacaggggggcc #### Slc3a2_ID2300_9 --> 0 - 0 Original Alignment CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG gggaatgtaactttctttgtttttttaagacgagtccctcgtccttgcagCCTGTGAAGGCCCCACTGATGCCTTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGTCTTAAC------------gtaagtggatgctttcacggcctaagactgctcctcagagtagtcaagtg Alignment from CESAR CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG gggaatgtaactttctttgtttttttaagacgagtccctcgtccttgcagCCTGTGAAGGCCCCACTGATGCCTTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGTCTTAAC------------gtaagtggatgctttcacggcctaagactgctcctcag Alignment from Spaln_aa2Genome CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAAC gggaatgtaactttctttgtttttttaagacgagtccctcgtccttgcagCCTGTGAAGGCCCCACTGATGCCTTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGTCTTAACgtaagtggatgctttcacggcctaagactgctcctcagagtagtcaagtg Alignment from Spaln_nt2Genome CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACAGTGAAG gggaatgtaactttctttgtttttttaagacgagtccctcgtccttgcagCCTGTGAAGGCCCCACTGATGCCTTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGTCTTAAC--GTAAGTGGATgctttcacggcctaagactgctcctcagagtagtcaag Alignment from Pairagon CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAAC gggaatgtaactttctttgtttttttaagacgagtccctcgtccttgcagCCTGTGAAGGCCCCACTGATGCCTTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGTCTTAACgtaagtggatgctttcacggcctaagactgctcctcagagtagtcaagtg Alignment from Exonerate_protein2genome CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAAC gggaatgtaactttctttgtttttttaagacgagtccctcgtccttgcagCCTGTGAAGGCCCCACTGATGCCTTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGTCTTAACgtaagtggatgctttcacggcctaagactgctcctcagagtagtcaagtg Alignment from Exonerate_coding2genome CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAAC gggaatgtaactttctttgtttttttaagacgagtccctcgtccttgcagCCTGTGAAGGCCCCACTGATGCCTTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGTCTTAACgtaagtggatgctttcacggcctaagactgctcctcagagtagtcaagtg Alignment from GeneWise CCTGCGAAGGCCCCACTCATGCCGTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGCCTCAACATGACA---------------------------GTGAAG gggaatgtaactttctttgtttttttaagacgagtccctcgtccttgcagCCTGTGAAGGCCCCACTGATGCCTTGGAATGAGTCCAGCATCTTTCACATCCCAAGACCTGTAAGTCTTAACGTAAGTGGATGCTTTCACGGCCTAAGACTGCTCCTCAGAgtagtcaagtg #### Slc3a2_ID2303_6 --> 0 - 2 Original Alignment AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACag cataggtaggtttgtgttctgtgtgcaagtgtgcttttgtgtctccacagAATGCACCTTTGTACTTAGCGGAATGGCAGAACATCACCAAGAACCTT---------aggtaacgacttattaggaccagcagtccatcctggctcaaccccttgtgag Alignment from CESAR AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAGTGAGGACag cataggtaggtttgtgttctgtgtgcaagtgtgcttttgtgtctccacagAATGCACCTTTGTACTTAGCGGAATGGCAGAACATCACCAAGAACCTT---------aggtaacgacttattaggaccagcagtccatcctggctcaaccccttgtgag Alignment from Spaln_aa2Genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAG cataggtaggtttgtgttctgtgtgcaagtgtgcttttgtgtctccacagAATGCACCTTTGTACTTAGCGGAATGGCAGAACATCACCAAGAACCTTAGgtaacgacttattaggaccagcagtccatcctggctcaaccccttgtgag Alignment from Spaln_nt2Genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAG cataggtaggtttgtgttctgtgtgcaagtgtgcttttgtgtctccacagAATGCACCTTTGTACTTAGCGGAATGGCAGAACATCACCAAGAACCTTAGgtaacgacttattaggaccagcagtccatcctggctcaaccccttgtgag Alignment from Pairagon AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAG cataggtaggtttgtgttctgtgtgcaagtgtgcttttgtgtctccacagAATGCACCTTTGTACTTAGCGGAATGGCAGAACATCACCAAGAACCTTAGgtaacgacttattaggaccagcagtccatcctggctcaaccccttgtgag Alignment from Exonerate_protein2genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAG cataggtaggtttgtgttctgtgtgcaagtgtgcttttgtgtctccacagAATGCACCTTTGTACTTAGCGGAATGGCAGAACATCACCAAGAACCTTAGgtaacgacttattaggaccagcagtccatcctggctcaaccccttgtgag Alignment from Exonerate_coding2genome AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAG cataggtaggtttgtgttctgtgtgcaagtgtgcttttgtgtctccacagAATGCACCTTTGTACTTAGCGGAATGGCAGAACATCACCAAGAACCTTAGgtaacgacttattaggaccagcagtccatcctggctcaaccccttgtgag Alignment from GeneWise AATGCACCCTTGTACTTGGCTGAGTGGCAGAATATCACCAAGAACTTAAG cataggtaggtttgtgttctgtgtgcaagtgtgcttttgtgtctccacagAATGCACCTTTGTACTTAGCGGAATGGCAGAACATCACCAAGAACCTTAGgtaacgacttattaggaccagcagtccatcctggctcaaccccttgtgag #### Slit1_ID8223_16 --> 2 - 2 Original Alignment ggACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAG------ct ggggagaacttggggaccacaactgcttaggcttgttcaccaccttccagggACAGAAGATTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCACAACTGAGACGGGCctgtgagttcagtgggcccacccaactcccacctccattcctgtgccttgta Alignment from CESAR ggACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAG------ct ggggagaacttggggaccacaactgcttaggcttgttcaccaccttccagggACAGAAGATTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCACAACTGAGACGGGCctgtgagttcagtgggcccacccaactcccacctccattcctgtgccttgta Alignment from Spaln_aa2Genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCTA----- ggggagaacttggggaccacaactgcttaggcttgttcaccaccttccagGGACAGAAGATTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCACAACTGAGACGGGCCTgtgagttcagtgggcccacccaactcccacctccattcctgtgccttgta Alignment from Spaln_nt2Genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAG------CT ggggagaacttggggaccacaactgcttaggcttgttcaccaccttccagGGACAGAAGATTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCACAACTGAGACGGGCCTgtgagttcagtgggcccacccaactcccacctccattcctgtgccttgta Alignment from Pairagon GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAG------CT ggggagaacttggggaccacaactgcttaggcttgttcaccaccttccagGGACAGAAGATTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCACAACTGAGACGGGCCTgtgagttcagtgggcccacccaactcccacctccattcctgtgccttgta Alignment from Exonerate_protein2genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT ggggagaacttggggaccacaactgcttaggcttgttcaccaccttccagGGACAGAAGATTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCACAACTGAGACgggcctgtgagttcagtgggcccacccaactcccacctccattcctgtgccttgta Alignment from Exonerate_coding2genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT ggggagaacttggggaccacaactgcttaggcttgttcaccaccttccagGGACAGAAGATTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCACAACTGAGACgggcctgtgagttcagtgggcccacccaactcccacctccattcctgtgccttgta Alignment from GeneWise AGAGCAGTACTTCATTCCAGGGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAG------CT ggggagaacttggggaccacaactgcttagGCTTGTTCACCACCTTCCAGGGACAGAAGATTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCACAACTGAGACGGGCCTgtgagttcagtgggcccacccaactcccacctccattcctgtgccttgta #### Slit1_ID8232_7 --> 1 - 2 Original Alignment gACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt tgggtgtgggctaccaggcaggtgtacactctgacatgctctttccccagg---CTGAACAACAATAACATCAGCACCATTCCTGTGTCGAGTTTCAATCATATTCCTAAGCTTCGTACTttgtatttcaccttggccataagaaaagagtcttgttgcaagttggtttgtc Alignment from CESAR gACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCtt ttttgggtgtgggctaccaggcaggacactctgacatgctctttccccagg---CTGAACAACAATAACATCAGCACCATTCCTGTGTCGAGTTTCAATCATATTCCTAAGCTTCGTACTttgtatttcaccttggccataagaaaagagtcttgttgcaagttggtttgtc Alignment from Spaln_aa2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tgggtgtgggctaccaggcaggtgtacactctgacatgctctttccccagG---CTGAACAACAATAACATCAGCACCATTCCTGTGTCGAGTTTCAATCATATTCCTAAGCTTCGTACTTTgtatttcaccttggccataagaaaagagtcttgttgcaagttggtttgtc Alignment from Spaln_nt2Genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tgggtgtgggctaccaggcaggtgtacactctgacatgctctttccccagG---CTGAACAACAATAACATCAGCACCATTCCTGTGTCGAGTTTCAATCATATTCCTAAGCTTCGTACTTTgtatttcaccttggccataagaaaagagtcttgttgcaagttggtttgtc Alignment from Pairagon GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tgggtgtgggctaccaggcaggtgtacactctgacatgctctttccccagG---CTGAACAACAATAACATCAGCACCATTCCTGTGTCGAGTTTCAATCATATTCCTAAGCTTCGTACTTTgtatttcaccttggccataagaaaagagtcttgttgcaagttggtttgtc Alignment from Exonerate_protein2genome GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tgggtgtgggctaccaggcaggtgtacactctgacatgctctttccccagG---CTGAACAACAATAACATCAGCACCATTCCTGTGTCGAGTTTCAATCATATTCCTAAGCTTCGTACTTTgtatttcaccttggccataagaaaagagtcttgttgcaagttggtttgtc Alignment from Exonerate_coding2genome tgggtgtgggctaccaggcaggtgtacactctgacatgctctttccccaggctgaacaacaataacatcagcaccattcctgtgtcgagtttcaatcatattcctaagcttcgtactttgtatttcaccttggccataagaaaagagtcttgttgcaagttggtttgtc Alignment from GeneWise GACCCTGAACAACAACAACATCACCACCATCCCTGTGTCCAGTTTCAACCATATGCCCAAGCTTCGGACCTT tgggtgtgggctaccaggcaggtgtacactctgacatgctctttccccagG---CTGAACAACAATAACATCAGCACCATTCCTGTGTCGAGTTTCAATCATATTCCTAAGCTTCGTACTTTgtatttcaccttggccataagaaaagagtcttgttgcaagttggtttgtc #### Slk_ID10264_16 --> 0 - 0 Original Alignment ---GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG taataagtaatctataaggaaagttagtctgtctcatttcatttcaacagCGCGAAACAGAGCAAATGCAGCGCTACAATCAACGACTTATTGAAGAGCTGAAAAATAGACAGACTCAAGAGCGAGCAAGACTGGCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCAGACCAGGATCATGAAAAAATTAAACAAgtatgaaacagttcaatttctcttccaggatttaagactttagtatgacc Alignment from CESAR ---GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG taataagtaatctataaggaaagttagtctgtctcatttcatttcaacagCGCGAAACAGAGCAAATGCAGCGCTACAATCAACGACTTATTGAAGAGCTGAAAAATAGACAGACTCAAGAGCGAGCAAGACTGGCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCAGACCAGGATCATGAAAAAATTAAACAAgtatgaaacagttcaatttctcttccaggatttaagactttagtatgacc Alignment from Spaln_aa2Genome GAAACAGAACAA---ATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG taataagtaatctataaggaaagttagtctgtctcatttcatttcaacagCGCGAAACAGAGCAAATGCAGCGCTACAATCAACGACTTATTGAAGAGCTGAAAAATAGACAGACTCAAGAGCGAGCAAGACTGGCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCAGACCAGGATCATGAAAAAATTAAACAAgtatgaaacagttcaatttctcttccaggatttaagactttagtatgacc Alignment from Spaln_nt2Genome GAAACAGAACAA---ATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG taataagtaatctataaggaaagttagtctgtctcatttcatttcaacagCGCGAAACAGAGCAAATGCAGCGCTACAATCAACGACTTATTGAAGAGCTGAAAAATAGACAGACTCAAGAGCGAGCAAGACTGGCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCAGACCAGGATCATGAAAAAATTAAACAAgtatgaaacagttcaatttctcttccaggatttaagactttagtatgacc Alignment from Pairagon ---GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG taataagtaatctataaggaaagttagtctgtctcatttcatttcaacagCGCGAAACAGAGCAAATGCAGCGCTACAATCAACGACTTATTGAAGAGCTGAAAAATAGACAGACTCAAGAGCGAGCAAGACTGGCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCAGACCAGGATCATGAAAAAATTAAACAAgtatgaaacagttcaatttctcttccaggatttaagactttagtatgacc Alignment from Exonerate_protein2genome ---GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG taataagtaatctataaggaaagttagtctgtctcatttcatttcaacagCGCGAAACAGAGCAAATGCAGCGCTACAATCAACGACTTATTGAAGAGCTGAAAAATAGACAGACTCAAGAGCGAGCAAGACTGGCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCAGACCAGGATCATGAAAAAATTAAACAAgtatgaaacagttcaatttctcttccaggatttaagactttagtatgacc Alignment from Exonerate_coding2genome ---GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG taataagtaatctataaggaaagttagtctgtctcatttcatttcaacagCGCGAAACAGAGCAAATGCAGCGCTACAATCAACGACTTATTGAAGAGCTGAAAAATAGACAGACTCAAGAGCGAGCAAGACTGGCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCAGACCAGGATCATGAAAAAATTAAACAAgtatgaaacagttcaatttctcttccaggatttaagactttagtatgacc Alignment from GeneWise ---GAAACAGAACAAATGCAGCGCTACAATCAACGACTTATTGAAGAACTGAAAAACAGACAGACTCAGGAACGAGCGAGACTGCCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAAAAAAGTTTGAGGATCAACTCAACAGCCACACCAGACCAGGACCGTGAAAAAATTAAACAG taataagtaatctataaggaaagttagtctgtctcatttcatttcaacagCGCGAAACAGAGCAAATGCAGCGCTACAATCAACGACTTATTGAAGAGCTGAAAAATAGACAGACTCAAGAGCGAGCAAGACTGGCCAAGATTCAAAGAAGTGAAGCCAAGACACGAATGGCCATGTTTAAGAAAAGTTTGCGGATCAATTCAACAGCCACACCAGACCAGGATCATGAAAAAATTAAACAAgtatgaaacagttcaatttctcttccaggatttaagactttagtatgacc #### Smc3_ID11323_11 --> 0 - 0 Original Alignment ---GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG aaacctgcaaaccctatgttgacttgcctcttctccctcttcttctgcagCTCGATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGAAAGACAAGAGCGGATTAAGCAAAGGACAAAGTTGGAGCTTAAGGCCAAAGATTTACAAGTTGAGCTGGCTGGCAACAGCGAACAGCGGgtgagtcactactgcaaatgaaagctgtggtggatttcagtctagtaaag Alignment from CESAR ---GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG aaacctgcaaaccctatgttgacttgcctcttctccctcttcttctgcagCTCGATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGAAAGACAAGAGCGGATTAAGCAAAGGACAAAGTTGGAGCTTAAGGCCAAAGATTTACAAGTTGAGCTGGCTGGCAACAGCGAACAGCGGgtgagtcactactgcaaatgaaagctgtggtggatttcagtctagtaaag Alignment from Spaln_aa2Genome GATATTGAG---CGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG aaacctgcaaaccctatgttgacttgcctcttctccctcttcttctgcagCTCGATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGAAAGACAAGAGCGGATTAAGCAAAGGACAAAGTTGGAGCTTAAGGCCAAAGATTTACAAGTTGAGCTGGCTGGCAACAGCGAACAGCGGgtgagtcactactgcaaatgaaagctgtggtggatttcagtctagtaaag Alignment from Spaln_nt2Genome GATATTGAGC---GCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG aaacctgcaaaccctatgttgacttgcctcttctccctcttcttctgcagCTCGATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGAAAGACAAGAGCGGATTAAGCAAAGGACAAAGTTGGAGCTTAAGGCCAAAGATTTACAAGTTGAGCTGGCTGGCAACAGCGAACAGCGGgtgagtcactactgcaaatgaaagctgtggtggatttcagtctagtaaag Alignment from Pairagon ---GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG aaacctgcaaaccctatgttgacttgcctcttctccctcttcttctgcagCTCGATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGAAAGACAAGAGCGGATTAAGCAAAGGACAAAGTTGGAGCTTAAGGCCAAAGATTTACAAGTTGAGCTGGCTGGCAACAGCGAACAGCGGgtgagtcactactgcaaatgaaagctgtggtggatttcagtctagtaaag Alignment from Exonerate_protein2genome ---GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG aaacctgcaaaccctatgttgacttgcctcttctccctcttcttctgcagCTCGATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGAAAGACAAGAGCGGATTAAGCAAAGGACAAAGTTGGAGCTTAAGGCCAAAGATTTACAAGTTGAGCTGGCTGGCAACAGCGAACAGCGGgtgagtcactactgcaaatgaaagctgtggtggatttcagtctagtaaag Alignment from Exonerate_coding2genome ---GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG aaacctgcaaaccctatgttgacttgcctcttctccctcttcttctgcagCTCGATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGAAAGACAAGAGCGGATTAAGCAAAGGACAAAGTTGGAGCTTAAGGCCAAAGATTTACAAGTTGAGCTGGCTGGCAACAGCGAACAGCGGgtgagtcactactgcaaatgaaagctgtggtggatttcagtctagtaaag Alignment from GeneWise ---GATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTTAGTGCTGAAAGACAAGAGCAGATTAAGCAAAGGACCAAGTTGGAGCTTAAAGCCAAGGATTTACAAGATGAGCTGGCGGGCAACAGTGAACAGCGG aaacctgcaaaccctatgttgacttgcctcttctccctcttcttctgcagCTCGATATTGAGCGCCAGGTTAGAGAACTGAAAACAAAAATTTCAGCCATGAAAGAAGAAAAAGAACAGCTCAGTGCTGAAAGACAAGAGCGGATTAAGCAAAGGACAAAGTTGGAGCTTAAGGCCAAAGATTTACAAGTTGAGCTGGCTGGCAACAGCGAACAGCGGgtgagtcactactgcaaatgaaagctgtggtggatttcagtctagtaaag #### Smc3_ID11337_25 --> 0 - 0 Original Alignment TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG tcacttgctgtggccagtaattcctgtgtcaacttggtttaccctcacag------CGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCGTGTGAACAAAAAGGCACTTGATCAGCTTGTGAACTTTTCTGAGCAGAAGGAAAAGTTGATAAAGCGGCAAGAGGAATTGGATAGC---TATAAATCAGTCATGGAACTGATGAATGTACTGGAACTTAGAAAACATGAAGCTATTCATTTAACTTTCAAGCAAgtgtgtaataattatcctagtgtgcagagggagtgaatgtgtgtaacaac Alignment from CESAR TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaactcacttgctgtggccagtagtgtcaacttggtttaccctcacag------CGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCGTGTGAACAAAAAGGCACTTGATCAGCTTGTGAACTTTTCTGAGCAGAAGGAAAAGTTGATAAAGCGGCAAGAGGAATTGGAT---AGCTATAAATCAGTCATGGAACTGATGAATGTACTGGAACTTAGAAAACATGAAGCTATTCATTTAACTTTCAAGCAAgtgtgtaataattatcctagtgtgcagagggagtgaatgtgtgtaacaac Alignment from Spaln_aa2Genome CGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG tcacttgctgtggccagtaattcctgtgtcaacttggtttaccctcacagCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCGTGTGAACAAAAAGGCACTTGATCAGCTTGTGAACTTTTCTGAGCAGAAGGAAAAGTTGATAAAGCGGCAAGAGGAATTGGAT---AGCTATAAATCAGTCATGGAACTGATGAATGTACTGGAACTTAGAAAACATGAAGCTATTCATTTAACTTTCAAGCAAgtgtgtaataattatcctagtgtgcagagggagtgaatgtgtgtaacaac Alignment from Spaln_nt2Genome TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG tcacttgctgtggccagtaattcctgtgtcaacttggtttaccctcacag------CGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCGTGTGAACAAAAAGGCACTTGATCAGCTTGTGAACTTTTCTGAGCAGAAGGAAAAGTTGATAAAGCGGCAAGAGGAATTGGATA---GCTATAAATCAGTCATGGAACTGATGAATGTACTGGAACTTAGAAAACATGAAGCTATTCATTTAACTTTCAAGCAAgtgtgtaataattatcctagtgtgcagagggagtgaatgtgtgtaacaac Alignment from Pairagon TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG tcacttgctgtggccagtaattcctgtgtcaacttggtttaccctcacag------CGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCGTGTGAACAAAAAGGCACTTGATCAGCTTGTGAACTTTTCTGAGCAGAAGGAAAAGTTGATAAAGCGGCAAGAGGAATTGGATA---GCTATAAATCAGTCATGGAACTGATGAATGTACTGGAACTTAGAAAACATGAAGCTATTCATTTAACTTTCAAGCAAgtgtgtaataattatcctagtgtgcagagggagtgaatgtgtgtaacaac Alignment from Exonerate_protein2genome TTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG tcacttgctgtggccagtaattcctgtgtcaacttggtttaccctcacAGCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCGTGTGAACAAAAAGGCACTTGATCAGCTTGTGAACTTTTCTGAGCAGAAGGAAAAGTTGATAAAGCGGCAAGAGGAATTGGAT---AGCTATAAATCAGTCATGGAACTGATGAATGTACTGGAACTTAGAAAACATGAAGCTATTCATTTAACTTTCAAGCAAgtgtgtaataattatcctagtgtgcagagggagtgaatgtgtgtaacaac Alignment from Exonerate_coding2genome TTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG tcacttgctgtggccagtaattcctgtgtcaacttggtttaccctcacAGCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCGTGTGAACAAAAAGGCACTTGATCAGCTTGTGAACTTTTCTGAGCAGAAGGAAAAGTTGATAAAGCGGCAAGAGGAATTGGAT---AGCTATAAATCAGTCATGGAACTGATGAATGTACTGGAACTTAGAAAACATGAAGCTATTCATTTAACTTTCAAGCAAgtgtgtaataattatcctagtgtgcagagggagtgaatgtgtgtaacaac Alignment from GeneWise CGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG tcacttgctgtggccagtaattcctgtgtcaacttggtttaccctcacagCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCGTGTGAACAAAAAGGCACTTGATCAGCTTGTGAACTTTTCTGAGCAGAAGGAAAAGTTGATAAAGCGGCAAGAGGAATTGGAT---AGCTATAAATCAGTCATGGAACTGATGAATGTACTGGAACTTAGAAAACATGAAGCTATTCATTTAACTTTCAAGCAAgtgtgtaataattatcctagtgtgcagagggagtgaatgtgtgtaacaac #### Smc3_ID11338_26 --> 0 - 0 Original Alignment GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG------ tttcaggcatagaagcatgcctcctaagtctgctctcttttcttttctagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGTAGTCAGTCTCAGGACAAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGAAGATCgtaggagactttttatactcagtttctgctacagctttatcattgaagac Alignment from CESAR GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG------ tttcaggcatagaagcatgcctcctaagtctgctctcttttcttttctagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGTAGTCAGTCTCAGGACAAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGAAGATCgtaggagactttttatactcagtttctgctacagctttatcattgaagac Alignment from Spaln_aa2Genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG------ tttcaggcatagaagcatgcctcctaagtctgctctcttttcttttctagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGTAGTCAGTCTCAGGACAAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGAAGATCgtaggagactttttatactcagtttctgctacagctttatcattgaagac Alignment from Spaln_nt2Genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG------ tttcaggcatagaagcatgcctcctaagtctgctctcttttcttttctagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGTAGTCAGTCTCAGGACAAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGAAGATCgtaggagactttttatactcagtttctgctacagctttatcattgaagac Alignment from Pairagon GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG------ tttcaggcatagaagcatgcctcctaagtctgctctcttttcttttctagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGTAGTCAGTCTCAGGACAAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGAAGATCgtaggagactttttatactcagtttctgctacagctttatcattgaagac Alignment from Exonerate_protein2genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tttcaggcatagaagcatgcctcctaagtctgctctcttttcttttctagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGTAGTCAGTCTCAGGACAAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGaagatcgtaggagactttttatactcagtttctgctacagctttatcattgaagac Alignment from Exonerate_coding2genome GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG tttcaggcatagaagcatgcctcctaagtctgctctcttttcttttctagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGTAGTCAGTCTCAGGACAAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGaagatcgtaggagactttttatactcagtttctgctacagctttatcattgaagac Alignment from GeneWise GTATCTAAGAACTTCAGTGAAGTTTTCCAGAAGTTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGAGATGTGGAGGGCAGCCAGTCTCAGGACGAAGGAGAAGGGAGTGGCGAGAGTGAGCGGGGCTCTGGGTCACAGAGCAGTGTTCCATCAGTTGACCAGTTCACAGGAGTTGGGATCAGG------ tttcaggcatagaagcatgcctcctaagtctgctctcttttcttttctagGTATCTAAGAACTTCAGTGAAGTTTTCCAGAAATTGGTACCTGGTGGCAAAGCGACTTTGGTGATGAAGAAAGGTGATGTGGAGGGTAGTCAGTCTCAGGACAAAGGAGAAGGGAGTGGAGAGAGTGAGCGGGGCTCTGGGTCACAGTGCAGTGTTCCATCAGTTGACCAATTCACAGGAGTTGGGATCAGGAAGATCgtaggagactttttatactcagtttctgctacagctttatcattgaagac #### Smc5_ID5113_20 --> 0 - 0 Original Alignment GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG gtactcacttcacctttcatgactactcacccccccgtttctactggcag------CAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCAgtaaatcaccatatcttcggtatccatcccactgtttccatactgctgtt Alignment from CESAR GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG atagtagtactcacttcacctttcactcacccccccgtttctactggcag------CAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCAgtaaatcaccatatcttcggtatccatcccactgtttccatactgctgtt Alignment from Spaln_aa2Genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG gtactcacttcacctttcatgactactcacccccccgtttctactggcag------CAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCAgtaaatcaccatatcttcggtatccatcccactgtttccatactgctgtt Alignment from Spaln_nt2Genome CAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG gtactcacttcacctttcatgactactcacccccccgtttctactggcagCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCAgtaaatcaccatatcttcggtatccatcccactgtttccatactgctgtt Alignment from Pairagon GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG gtactcacttcacctttcatgactactcacccccccgtttctactggcag------CAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCAgtaaatcaccatatcttcggtatccatcccactgtttccatactgctgtt Alignment from Exonerate_protein2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG gtactcacttcacctttcatgactactcacccccccgtttctacTGGCAGCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCAgtaaatcaccatatcttcggtatccatcccactgtttccatactgctgtt Alignment from Exonerate_coding2genome GCTTTTCAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG gtactcacttcacctttcatgactactcacccccccgtttctacTGGCAGCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCAgtaaatcaccatatcttcggtatccatcccactgtttccatactgctgtt Alignment from GeneWise CC------------------------TCACCCCCCATGGCTTTT------CAAGATCTCCCAAACACATTGGATGAAATCGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGACTGAATCCTTCG GTACTCACTTCACCTTTCATGACTACTCACCCCCCCGTTTCTACTGGCAGCAAGATCTCCCAAACACATTGGATGAAATTGATGCATTATTAACTGAAGAAAGGTCAAGAGCTTCGTGCTTCACAGGATTGAATCCTTCAgtaaatcaccatatcttcggtatccatcccactgtttccatactgctgtt #### Snx15_ID1466_6 --> 2 - 1 Original Alignment tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------g atgttttcccccctggggtgaatctcaatcttttttttctgtgatgttagtgGACCCCCTACCATCCAGTCCTGCCCAGGAGGCCTTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGAACTTGCACTTTTTGACCCTTACTCCAAAGAGTGGCTGggtaagcaacaggtgggagtagcagtactaagggctttgaaggacacccac Alignment from CESAR tgGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------g atgttttcccccctggggtgaatctcaatcttttttttctgtgatgttagtgGACCCCCTACCATCCAGTCCTGCCCAGGAGGCCTTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGAACTTGCACTTTTTGACCCTTACTCCAAAGAGTGGCTGggtaagcaacaggtgggagtagcagtactaagggctttgaaggacacccac Alignment from Spaln_aa2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------G atgttttcccccctggggtgaatctcaatcttttttttctgtgatgttagTGGACCCCCTACCATCCAGTCCTGCCCAGGAGGCCTTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGAACTTGCACTTTTTGACCCTTACTCCAAAGAGTGGCTGGgtaagcaacaggtgggagtagcagtactaagggctttgaaggacacccac Alignment from Spaln_nt2Genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------G atgttttcccccctggggtgaatctcaatcttttttttctgtgatgttagTGGACCCCCTACCATCCAGTCCTGCCCAGGAGGCCTTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGAACTTGCACTTTTTGACCCTTACTCCAAAGAGTGGCTGGgtaagcaacaggtgggagtagcagtactaagggctttgaaggacacccac Alignment from Pairagon TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGA------GG atgttttcccccctggggtgaatctcaatcttttttttctgtgatgttagTGGACCCCCTACCATCCAGTCCTGCCCAGGAGGCCTTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGAACTTGCACTTTTTGACCCTTACTCCAAAGAGTGGCTGGgtaagcaacaggtgggagtagcagtactaagggctttgaaggacacccac Alignment from Exonerate_protein2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGA atgttttcccccctggggtgaatctcaatcttttttttctgtgatgttagTGGACCCCCTACCATCCAGTCCTGCCCAGGAGGCCTTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGAACTTGCACTTTTTGACCCTTACTCCAAAGAgtggctgggtaagcaacaggtgggagtagcagtactaagggctttgaaggacacccac Alignment from Exonerate_coding2genome TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGA atgttttcccccctggggtgaatctcaatcttttttttctgtgatgttagTGGACCCCCTACCATCCAGTCCTGCCCAGGAGGCCTTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGAACTTGCACTTTTTGACCCTTACTCCAAAGAgtggctgggtaagcaacaggtgggagtagcagtactaagggctttgaaggacacccac Alignment from GeneWise TGGATCCCCTCCCGTCCAGCCCTGCCCAGGAGGCCTTGGACCTTCTCTTCAGCTGTGACAGTACGGAGGAAGCTTCCAGCTCCCTGGCTCGAGGTCCCCTCTCTGAGGCTGAACTTGCCCTTTTCGACCCTTACTCCAAAGAG------G atgttttcccccctggggtgaatctcaatcttttttttctgtgatgttagTGGACCCCCTACCATCCAGTCCTGCCCAGGAGGCCTTGGATCCTCTCTTCAGCTGTGACAGCACAGAGGAAGCTTCCGGTACCCTGGCTCGAGGTCCTCTCTCTGAGGCTGAACTTGCACTTTTTGACCCTTACTCCAAAGAGTGGCTGGgtaagcaacaggtgggagtagcagtactaagggctttgaaggacacccac #### Snx15_ID1467_5 --> 0 - 1 Original Alignment GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCA---g ctccccagccagccagattcctaccctgtgcgctctctacaccctcacagGGTGGGGAGGTAACACGCCCCTCTGAGGTCTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCGACAATGCCTCCAGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAATGggcaagtctaggtcaggcaaggagttgagacttccaattgtaacccttgca Alignment from CESAR GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCA---g ctccccagccagccagattcctaccctgtgcgctctctacaccctcacagGGTGGGGAGGTAACACGCCCCTCTGAGGTCTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCGACAATGCCTCCAGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAATGggcaagtctaggtcaggcaaggagttgagacttccaattgtaacccttgca Alignment from Spaln_aa2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCA---G ctccccagccagccagattcctaccctgtgcgctctctacaccctcacagGGTGGGGAGGTAACACGCCCCTCTGAGGTCTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCGACAATGCCTCCAGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAATGGgcaagtctaggtcaggcaaggagttgagacttccaattgtaacccttgca Alignment from Spaln_nt2Genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCA---G ctccccagccagccagattcctaccctgtgcgctctctacaccctcacagGGTGGGGAGGTAACACGCCCCTCTGAGGTCTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCGACAATGCCTCCAGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAATGGgcaagtctaggtcaggcaaggagttgagacttccaattgtaacccttgca Alignment from Pairagon GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCA---G ctccccagccagccagattcctaccctgtgcgctctctacaccctcacagGGTGGGGAGGTAACACGCCCCTCTGAGGTCTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCGACAATGCCTCCAGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAATGGgcaagtctaggtcaggcaaggagttgagacttccaattgtaacccttgca Alignment from Exonerate_protein2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAGTGG ctccccagccagccagattcctaccctgtgcgctctctacaccctcacagGGTGGGGAGGTAACACGCCCCTCTGAGGTCTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCGACAATGCCTCCAGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAATGGgcaagtctaggtcaggcaaggagttgagacttccaattgtaacccttgca Alignment from Exonerate_coding2genome GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCAGTGG ctccccagccagccagattcctaccctgtgcgctctctacaccctcacagGGTGGGGAGGTAACACGCCCCTCTGAGGTCTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCGACAATGCCTCCAGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAATGGgcaagtctaggtcaggcaaggagttgagacttccaattgtaacccttgca Alignment from GeneWise GGCGGGGAGGTGACACGGCCCTCTGAGGTGTCCAGGGACCTGCGAATCCTGCCACCCCCTCTCATCCCCACACCACCTCCGGATGAGGCCCGGCTACTTCAGCCGCTGCCTGCGGAAAGGAGGGGCCAGGAGGAGTTGGAGGTGCCA-------- ctccccagccagccagattcctaccctgtgcgctctctacaccctcacagGGTGGGGAGGTAACACGCCCCTCTGAGGTCTCCAGAGACCTGCGAATTCTGCTGCCTCCTCTCATTCCGACAATGCCTCCAGTTGAGGCTCGGTTACTTCAGGCACTGCCTGCTGAAAGGAGGGGCCAGGAAGAATTGGAAGTTCCAATGGGCAAgtctaggtcaggcaaggagttgagacttccaattgtaacccttgca #### Snx15_ID1468_4 --> 2 - 0 Original Alignment ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG agcacagcaacactgacactgatgcgatgtatttggtttgtatttcgtaggg---TTTGAAGCCTCTGTTATTGAGGAGCGTCGGAAGGGTGCAGATGACCTGCTGCGCTTCACAGTGCCCATCCCTGCACTCAACAACAGCCCTCAAGTCAAGGAATTTTTCCGAgtgagcatgtgtgctaacaagggtccccctcaatcaaatccacctgcctc Alignment from CESAR ggCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG accagcacagcaacactgacactgagatgtatttggtttgtatttcgtaggg---TTTGAAGCCTCTGTTATTGAGGAGCGTCGGAAGGGTGCAGATGACCTGCTGCGCTTCACAGTGCCCATCCCTGCACTCAACAACAGCCCTCAAGTCAAGGAATTTTTCCGAgtgagcatgtgtgctaacaagggtccccctcaatcaaatccacctgcctc Alignment from Spaln_aa2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG agcacagcaacactgacactgatgcgatgtatttggtttgtatttcgtagGGTTTGAAGCCTCT---GTTATTGAGGAGCGTCGGAAGGGTGCAGATGACCTGCTGCGCTTCACAGTGCCCATCCCTGCACTCAACAACAGCCCTCAAGTCAAGGAATTTTTCCGAgtgagcatgtgtgctaacaagggtccccctcaatcaaatccacctgcctc Alignment from Spaln_nt2Genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG agcacagcaacactgacactgatgcgatgtatttggtttgtatttcgtag---GGTTTGAAGCCTCTGTTATTGAGGAGCGTCGGAAGGGTGCAGATGACCTGCTGCGCTTCACAGTGCCCATCCCTGCACTCAACAACAGCCCTCAAGTCAAGGAATTTTTCCGAgtgagcatgtgtgctaacaagggtccccctcaatcaaatccacctgcctc Alignment from Pairagon GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG agcacagcaacactgacactgatgcgatgtatttggtttgtatttcgtag---GGTTTGAAGCCTCTGTTATTGAGGAGCGTCGGAAGGGTGCAGATGACCTGCTGCGCTTCACAGTGCCCATCCCTGCACTCAACAACAGCCCTCAAGTCAAGGAATTTTTCCGAgtgagcatgtgtgctaacaagggtccccctcaatcaaatccacctgcctc Alignment from Exonerate_protein2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG agcacagcaacactgacactgatgcgatgtatttggtttgtatttcgtagGG---TTTGAAGCCTCTGTTATTGAGGAGCGTCGGAAGGGTGCAGATGACCTGCTGCGCTTCACAGTGCCCATCCCTGCACTCAACAACAGCCCTCAAGTCAAGGAATTTTTCCGAgtgagcatgtgtgctaacaagggtccccctcaatcaaatccacctgcctc Alignment from Exonerate_coding2genome GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG agcacagcaacactgacactgatgcgatgtatttggtttgtatttcgtagGG---TTTGAAGCCTCTGTTATTGAGGAGCGTCGGAAGGGTGCAGATGACCTGCTGCGCTTCACAGTGCCCATCCCTGCACTCAACAACAGCCCTCAAGTCAAGGAATTTTTCCGAgtgagcatgtgtgctaacaagggtccccctcaatcaaatccacctgcctc Alignment from GeneWise GGCGGTTTGAAGCCTCTGTGATCGAGGAGCGGCGCAAGGGCGCGGAGGACCTGCTGCGCTTCACGGTGCCCATCCCTGCACTCAACAACAGCCCCCAACTCAAGGAGTTTTTCCGG agcacagcaacactgacactgatgcgatgtatttggtttgtatttcgtagGG---TTTGAAGCCTCTGTTATTGAGGAGCGTCGGAAGGGTGCAGATGACCTGCTGCGCTTCACAGTGCCCATCCCTGCACTCAACAACAGCCCTCAAGTCAAGGAATTTTTCCGAgtgagcatgtgtgctaacaagggtccccctcaatcaaatccacctgcctc #### Snx15_ID1469_3 --> 0 - 1 Original Alignment GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---g ggtttcttacccagttcaggcttaggtcacgcttgcacttgtctttccagGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTTCATGGGGACTTGGCCTATACTCACCGGAATCTCTTCCGGCATCTAGAGGAGTTTCCAGCCTTCCCCCAAGCCCAGGTGTTCATCggtcagctttggactctgtacatctccacctcagggcagcaggaatttggc Alignment from CESAR GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---g ggtttcttacccagttcaggcttaggtcacgcttgcacttgtctttccagGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTTCATGGGGACTTGGCCTATACTCACCGGAATCTCTTCCGGCATCTAGAGGAGTTTCCAGCCTTCCCCCAAGCCCAGGTGTTCATCggtcagctttggactctgtacatctccacctcagggcagcaggaatttggc Alignment from Spaln_aa2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---G ggtttcttacccagttcaggcttaggtcacgcttgcacttgtctttccagGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTTCATGGGGACTTGGCCTATACTCACCGGAATCTCTTCCGGCATCTAGAGGAGTTTCCAGCCTTCCCCCAAGCCCAGGTGTTCATCGgtcagctttggactctgtacatctccacctcagggcagcaggaatttggc Alignment from Spaln_nt2Genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---G ggtttcttacccagttcaggcttaggtcacgcttgcacttgtctttccagGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTTCATGGGGACTTGGCCTATACTCACCGGAATCTCTTCCGGCATCTAGAGGAGTTTCCAGCCTTCCCCCAAGCCCAGGTGTTCATCGgtcagctttggactctgtacatctccacctcagggcagcaggaatttggc Alignment from Pairagon GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGT---TTG ggtttcttacccagttcaggcttaggtcacgcttgcacttgtctttccagGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTTCATGGGGACTTGGCCTATACTCACCGGAATCTCTTCCGGCATCTAGAGGAGTTTCCAGCCTTCCCCCAAGCCCAGGTGTTCATCGgtcagctttggactctgtacatctccacctcagggcagcaggaatttggc Alignment from Exonerate_protein2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---G ggtttcttacccagttcaggcttaggtcacgcttgcacttgtctttccagGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTTCATGGGGACTTGGCCTATACTCACCGGAATCTCTTCCGGCATCTAGAGGAGTTTCCAGCCTTCCCCCAAGCCCAGGTGTTCATCGgtcagctttggactctgtacatctccacctcagggcagcaggaatttggc Alignment from Exonerate_coding2genome GTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTT---G ggtttcttacccagttcaggcttaggtcacgcttgcacttgtctttccagGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTTCATGGGGACTTGGCCTATACTCACCGGAATCTCTTCCGGCATCTAGAGGAGTTTCCAGCCTTCCCCCAAGCCCAGGTGTTCATCGgtcagctttggactctgtacatctccacctcagggcagcaggaatttggc Alignment from GeneWise TTCATCTCAAAGAAGGACCCAGAGGATATCAAAGAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTCCACGGGGACTTGGCCTATACTCACCGAAACCTCTTCCGTCGCCTAGAGGAGTTTCCGGCCTTCCCCCGTGCCCAGGTGTTTGGG- ggtttcttacccagTTCAGGCTTAGGTCACGCTTGCACTTGTCTTTCCAGGTAGTAGTCTGGAAGCGGTACAGCGACTTCCGTAAGCTTCATGGGGACTTGGCCTATACTCACCGGAATCTCTTCCGGCATCTAGAGGAGTTTCCAGCCTTCCCCCAAGCCCAGGTGTTCATCGgtcagctttggactctgtacatctccacctcagggcagcaggaatttggc #### Snx32_ID1066_12 --> 2 - 0 Original Alignment agCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG ctccacccaacacccattatccatcttgttaatgcctcctcctcctgtagaaCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATCGAGCTGGCTGAGCTGGAGCTCAAGCAGGCC---gtgagtagggatcactgtcagctccatcatgaagttgctcctgcctactt Alignment from CESAR agCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG ctccacccaacacccattatccatcttgttaatgcctcctcctcctgtagaaCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATCGAGCTGGCTGAGCTGGAGCTCAAGCAGGCC---gtgagtagggatcactgtcagctccatcatgaagttgctcctgccta Alignment from Spaln_aa2Genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCC ctccacccaacacccattatccatcttgttaatgcctcctcctcctgtagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATCGAGCTGGCTGAGCTGGAGCTCAAGCAGGCCgtgagtagggatcactgtcagctccatcatgaagttgctcctgcctactt Alignment from Spaln_nt2Genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCCAAG- ctccacccaacacccattatccatcttgttaatgcctcctcctcctgtagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATCGAGCTGGCTGAGCTGGAGCTCAAGCAGGCCGTGAgtagggatcactgtcagctccatcatgaagttgctcctgcctactt Alignment from Pairagon AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCC ctccacccaacacccattatccatcttgttaatgcctcctcctcctgtagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATCGAGCTGGCTGAGCTGGAGCTCAAGCAGGCCgtgagtagggatcactgtcagctccatcatgaagttgctcctgcctactt Alignment from Exonerate_protein2genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCC ctccacccaacacccattatccatcttgttaatgcctcctcctcctgtagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATCGAGCTGGCTGAGCTGGAGCTCAAGCAGGCCgtgagtagggatcactgtcagctccatcatgaagttgctcctgcctactt Alignment from Exonerate_coding2genome AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCC ctccacccaacacccattatccatcttgttaatgcctcctcctcctgtagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATCGAGCTGGCTGAGCTGGAGCTCAAGCAGGCCgtgagtagggatcactgtcagctccatcatgaagttgctcctgcctactt Alignment from GeneWise AGCTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATTGAGCTGGCCGAACTGGAGCTCAAGCACGCC ctccacccaacacccattatccatcttgttaatgcctcctcctcctgtagAACTCATGGACTTCAAGTCTCGCAGGGTCTCCTCTTTCCGTAAGAATCTCATCGAGCTGGCTGAGCTGGAGCTCAAGCAGGCCgtgagtagggatcactgtcagctccatcatgaagttgctcctgcctactt #### Snx32_ID1068_10 --> 0 - 0 Original Alignment AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taaccctttaacatgatttaaccattgcctgcccttctttcccacgacag------------------GCCTCTGATGAGGACTTGAAGCTGTCTGACATGCTGAGATATTACATGCTAGACTCACAGGCAGCCAAGgtacttggcagcctaggtaacttgagtattaaccacatggacagtcatca Alignment from CESAR AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG atataaaggaaaaactagtaacccttgcctgcccttctttcccacgacag------------------GCCTCTGATGAGGACTTGAAGCTGTCTGACATGCTGAGATATTACATGCTAGACTCACAGGCAGCCAAGgtacttggcagcctaggtaacttgagtattaaccacatggacagtcatca Alignment from Spaln_aa2Genome GCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taaccctttaacatgatttaaccattgcctgcccttctttcccacgacagGCCTCTGATGAGGACTTGAAGCTGTCTGACATGCTGAGATATTACATGCTAGACTCACAGGCAGCCAAGgtacttggcagcctaggtaacttgagtattaaccacatggacagtcatca Alignment from Spaln_nt2Genome GCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taaccctttaacatgatttaaccattgcctgcccttctttcccacgacagGCCTCTGATGAGGACTTGAAGCTGTCTGACATGCTGAGATATTACATGCTAGACTCACAGGCAGCCAAGgtacttggcagcctaggtaacttgagtattaaccacatggacagtcatca Alignment from Pairagon AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taaccctttaacatgatttaaccattgcctgcccttctttcccacgacag------------------GCCTCTGATGAGGACTTGAAGCTGTCTGACATGCTGAGATATTACATGCTAGACTCACAGGCAGCCAAGgtacttggcagcctaggtaacttgagtattaaccacatggacagtcatca Alignment from Exonerate_protein2genome GCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taaccctttaacatgatttaaccattgcctgcccttctttcccacgacagGCCTCTGATGAGGACTTGAAGCTGTCTGACATGCTGAGATATTACATGCTAGACTCACAGGCAGCCAAGgtacttggcagcctaggtaacttgagtattaaccacatggacagtcatca Alignment from Exonerate_coding2genome GCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taaccctttaacatgatttaaccattgcctgcccttctttcccacgacagGCCTCTGATGAGGACTTGAAGCTGTCTGACATGCTGAGATATTACATGCTAGACTCACAGGCAGCCAAGgtacttggcagcctaggtaacttgagtattaaccacatggacagtcatca Alignment from GeneWise GCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taaccctttaacatgatttaaccattgcctgcccttctttcccacgacagGCCTCTGATGAGGACTTGAAGCTGTCTGACATGCTGAGATATTACATGCTAGACTCACAGGCAGCCAAGgtacttggcagcctaggtaacttgagtattaaccacatggacagtcatca #### Snx32_ID1069_9 --> 1 - 0 Original Alignment gAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA agagggaatccttgagatgccccaggattcatgtccactgtggctcacagg---TTCTTGAAGCTGGCAGAACTCTTTGAACGGCTGAGGgtatatactaccttcgacacttggtcttctcaagtattgccaaggtgtac Alignment from CESAR gAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA atgagagggaatccttgagatgcccgattcatgtccactgtggctcacagg---TTCTTGAAGCTGGCAGAACTCTTTGAACGGCTGAGGgtatatactaccttcgacacttggtcttctcaagtattgccaaggtgtac Alignment from Spaln_aa2Genome GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA agagggaatccttgagatgccccaggattcatgtccactgtggctcacagG---TTCTTGAAGCTGGCAGAACTCTTTGAACGGCTGAGGgtatatactaccttcgacacttggtcttctcaagtattgccaaggtgtac Alignment from Spaln_nt2Genome GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA agagggaatccttgagatgccccaggattcatgtccactgtggctcacagG---TTCTTGAAGCTGGCAGAACTCTTTGAACGGCTGAGGgtatatactaccttcgacacttggtcttctcaagtattgccaaggtgtac Alignment from Pairagon GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA agagggaatccttgagatgccccaggattcatgtccactgtggctcacagG---TTCTTGAAGCTGGCAGAACTCTTTGAACGGCTGAGGgtatatactaccttcgacacttggtcttctcaagtattgccaaggtgtac Alignment from Exonerate_protein2genome GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA agagggaatccttgagatgccccaggattcatgtccactgtggctcacagG---TTCTTGAAGCTGGCAGAACTCTTTGAACGGCTGAGGgtatatactaccttcgacacttggtcttctcaagtattgccaaggtgtac Alignment from Exonerate_coding2genome GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA agagggaatccttgagatgccccaggattcatgtccactgtggctcacagG---TTCTTGAAGCTGGCAGAACTCTTTGAACGGCTGAGGgtatatactaccttcgacacttggtcttctcaagtattgccaaggtgtac Alignment from GeneWise GAGCTTCCTGAAGCTGGCAGAGCTCTTTGAACGGCTGAGA agagggaatccttgagatgccccaggattcatgtccactgtggctcacagG---TTCTTGAAGCTGGCAGAACTCTTTGAACGGCTGAGGgtatatactaccttcgacacttggtcttctcaagtattgccaaggtgtac #### Snx32_ID1070_8 --> 2 - 2 Original Alignment gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag tggtggcactgggtgtgcacattcatccgtgcttctctgtctccacttaggcCTGGCAGACAACTATATCCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAAC---------aggtataagttttctttattcacgctgttgctgcattcactctgctcttgca Alignment from CESAR gcCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGag tggtggcactgggtgtgcacattcatccgtgcttctctgtctccacttaggcCTGGCAGACAACTATATCCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAAC---------aggtataagttttctttattcacgctgttgctgcattcactctgctcttgca Alignment from Spaln_aa2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAA tggtggcactgggtgtgcacattcatccgtgcttctctgtctccacttagGCCTGGCAGACAACTATATCCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGGTATAAgttttctttattcacgctgttgctgcattcactctgctcttgca Alignment from Spaln_nt2Genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCA tggtggcactgggtgtgcacattcatccgtgcttctctgtctccacttagGCCTGGCAGACAACTATATCCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGgtataagttttctttattcacgctgttgctgcattcactctgctcttgca Alignment from Pairagon GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAAGAG tggtggcactgggtgtgcacattcatccgtgcttctctgtctccacttagGCCTGGCAGACAACTATATCCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAAC---------AGgtataagttttctttattcacgctgttgctgcattcactctgctcttgca Alignment from Exonerate_protein2genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCA tggtggcactgggtgtgcacattcatccgtgcttctctgtctccacttagGCCTGGCAGACAACTATATCCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGgtataagttttctttattcacgctgttgctgcattcactctgctcttgca Alignment from Exonerate_coding2genome GCCTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCA tggtggcactgggtgtgcacattcatccgtgcttctctgtctccacttagGCCTGGCAGACAACTATATCCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGgtataagttttctttattcacgctgttgctgcattcactctgctcttgca Alignment from GeneWise ----------------------------------------------------CTGGCAGACAACTATATCCCTATCTCTGCTGCACTGAGCAGTCTCGGAACCCAGGAAGTCAACCAACTCAA TGGTGGCACTGGGTGTGCACATTCATCCGTGCTTCTCTGTCTCCACTTAGGCCTGGCAGACAACTATATCCCCATTTCAGCTGCACTGAGCAGTCTTGGAACCCAGGAAGTGAACAGGTATAAgttttctttattcacgctgttgctgcattcactctgctcttgca #### Snx32_ID1072_6 --> 0 - 0 Original Alignment CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG--- acaacaccacccagagtacccaagtgtcagccaggttgccttcctgttagCTGAGTGTCCGGGAAAAGAACAGGAAGGAAGTATCAGGGGGGCTCCTGAGAAGCATTGTAAGGTATGCGGACGAAATCCTCATCACTGGTGGCATATCAGGGCTCAAGAGGgtgggtcttatcctttctgtggcaggagacccatgaacacagcaggcacc Alignment from CESAR CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAG--- acaacaccacccagagtacccaagtgtcagccaggttgccttcctgttagCTGAGTGTCCGGGAAAAGAACAGGAAGGAAGTATCAGGGGGGCTCCTGAGAAGCATTGTAAGGTATGCGGACGAAATCCTCATCACTGGTGGCATATCAGGGCTCAAGAGGgtgggtcttatcctttctgtggcaggagacccatgaacacagcaggcacc Alignment from Spaln_aa2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAGGAG acaacaccacccagagtacccaagtgtcagccaggttgccttcctgttagCTGAGTGTCCGGGAAAAGAACAGGAAGGAAGTATCAGGGGGGCTCCTGAGAAGCATTGTAAGGTATGCGGACGAAATCCTCATCACTGGTGGCATATCAGGGCTCAAGAGGgtgggtcttatcctttctgtggcaggagacccatgaacacagcaggcacc Alignment from Spaln_nt2Genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGG---CATATCAGGGCTCAAG--- acaacaccacccagagtacccaagtgtcagccaggttgccttcctgttagCTGAGTGTCCGGGAAAAGAACAGGAAGGAAGTATCAGGGGGGCTCCTGAGAAGCATTGTAAGGTATGCGGACGAAATCCTCATCACTGGTGGCATATCAGGGCTCAAGAGGgtgggtcttatcctttctgtggcaggagacccatgaacacagcaggcacc Alignment from Pairagon CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCAC---CGGCATATCAGGGCTCAAG--- acaacaccacccagagtacccaagtgtcagccaggttgccttcctgttagCTGAGTGTCCGGGAAAAGAACAGGAAGGAAGTATCAGGGGGGCTCCTGAGAAGCATTGTAAGGTATGCGGACGAAATCCTCATCACTGGTGGCATATCAGGGCTCAAGAGGgtgggtcttatcctttctgtggcaggagacccatgaacacagcaggcacc Alignment from Exonerate_protein2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAGGAG acaacaccacccagagtacccaagtgtcagccaggttgccttcctgttagCTGAGTGTCCGGGAAAAGAACAGGAAGGAAGTATCAGGGGGGCTCCTGAGAAGCATTGTAAGGTATGCGGACGAAATCCTCATCACTGGTGGCATATCAGGGCTCAAGAGGgtgggtcttatcctttctgtggcaggagacccatgaacacagcaggcacc Alignment from Exonerate_coding2genome CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACC---GGCATATCAGGGCTCAAGGAG acaacaccacccagagtacccaagtgtcagccaggttgccttcctgttagCTGAGTGTCCGGGAAAAGAACAGGAAGGAAGTATCAGGGGGGCTCCTGAGAAGCATTGTAAGGTATGCGGACGAAATCCTCATCACTGGTGGCATATCAGGGCTCAAGAGGgtgggtcttatcctttctgtggcaggagacccatgaacacagcaggcacc Alignment from GeneWise CTGAGTGTTCGAGAGAAGAACAGGAAGGAGGTCTTGGGAGGGCTCCTGAGGAGCATCGTCAGGTCTGCAGATGAAGTCCTCATCACCGGC---ATATCAGGGCTCAAGGAG acaacaccacccagagtacccaagtgtcagccaggttgccttcctgttagCTGAGTGTCCGGGAAAAGAACAGGAAGGAAGTATCAGGGGGGCTCCTGAGAAGCATTGTAAGGTATGCGGACGAAATCCTCATCACTGGTGGCATATCAGGGCTCAAGAGGgtgggtcttatcctttctgtggcaggagacccatgaacacagcaggcacc #### Snx32_ID1075_3 --> 0 - 0 Original Alignment ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC aaggcagctttgggtaagaagggatcaccccctttgttctgctcttgtagTTTAGTGGGCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAATGAAGAGTATGAATACACCAGCCTCATTgtaagcagcagcagggcagagctggagtggtaagaatatacataagggtg Alignment from CESAR ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAG------TACGCCGGCCTCATC aaggcagctttgggtaagaagggatcaccccctttgttctgctcttgtagTTTAGTGGGCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAATGAAGAGTATGAATACACCAGCCTCATTgtaagcagcagcagggcagagctggagtggtaagaatatacataagggtg Alignment from Spaln_aa2Genome AGTGGCCTCCCT---CACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC aaggcagctttgggtaagaagggatcaccccctttgttctgctcttgtagTTTAGTGGGCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAATGAAGAGTATGAATACACCAGCCTCATTgtaagcagcagcagggcagagctggagtggtaagaatatacataagggtg Alignment from Spaln_nt2Genome GAGTGGCCTCCC--TCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACG------CCGGCCTCATC aaggcagctttgggtaagaagggatcaccccctttgttctgctcttgtagTTTAGTGGGCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAATGAAGAGTATGAATACACCAGCCTCATTgtaagcagcagcagggcagagctggagtggtaagaatatacataagggtg Alignment from Pairagon ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACG------CCGGCCTCATC aaggcagctttgggtaagaagggatcaccccctttgttctgctcttgtagTTTAGTGGGCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAATGAAGAGTATGAATACACCAGCCTCATTgtaagcagcagcagggcagagctggagtggtaagaatatacataagggtg Alignment from Exonerate_protein2genome ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC aaggcagctttgggtaagaagggatcaccccctttgttctgctcttgtagTTTAGTGGGCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAATGAAGAGTATGAATACACCAGCCTCATTgtaagcagcagcagggcagagctggagtggtaagaatatacataagggtg Alignment from Exonerate_coding2genome ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC aaggcagctttgggtaagaagggatcaccccctttgttctgctcttgtagTTTAGTGGGCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAATGAAGAGTATGAATACACCAGCCTCATTgtaagcagcagcagggcagagctggagtggtaagaatatacataagggtg Alignment from GeneWise ---AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTAC------GCCGGCCTCATC aaggcagctttgggtaagaagggatcaccccctttgttctgctcttgtagTTTAGTGGGCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTCCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAATGAAGAGTATGAATACACCAGCCTCATTgtaagcagcagcagggcagagctggagtggtaagaatatacataagggtg #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg ccagtccttatatggcagagcactcgggagaactttggctttgtcctcaga------AATGTCAATGTGCATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcggtgagcaggtggggttagtgacccagatacacatacatgggcatggtgag Alignment from CESAR aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg ctctatccagtccttatatggcagagggagaactttggctttgtcctcaga------AATGTCAATGTGCATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcggtgagcaggtggggttagtgacccagatacacatacatgggcatggtgag Alignment from Spaln_aa2Genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccagtccttatatggcagagcactcgggagaactttggctttgtcctcagA------AATGTCAATGTGCATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtgagcaggtggggttagtgacccagatacacatacatgggcatggtgag Alignment from Spaln_nt2Genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccagtccttatatggcagagcactcgggagaactttggctttgtcctcagA------AATGTCAATGTGCATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtgagcaggtggggttagtgacccagatacacatacatgggcatggtgag Alignment from Pairagon ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccagtccttatatggcagagcactcgggagaactttggctttgtcctcagA------AATGTCAATGTGCATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtgagcaggtggggttagtgacccagatacacatacatgggcatggtgag Alignment from Exonerate_protein2genome CAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccagtccttatatggcagagcactcgggagaactttggctttgtcctcagAAATGTCAATGTGCATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtgagcaggtggggttagtgacccagatacacatacatgggcatggtgag Alignment from Exonerate_coding2genome CAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccagtccttatatggcagagcactcgggagaactttggctttgtcctcagAAATGTCAATGTGCATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtgagcaggtggggttagtgacccagatacacatacatgggcatggtgag Alignment from GeneWise ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG ccagtccttatatggcagagcactcgggagaactttggctttgtcctcagA------AATGTCAATGTGCATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtgagcaggtggggttagtgacccagatacacatacatgggcatggtgag #### Sptbn2_ID615_10 --> 0 - 0 Original Alignment ------GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ttccacttggataaaggggcaagagtacaagtgctcgctgttgcttgcagTACTGGGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTGATTCGCCAGAAGAAACTAGAGCAACTGGCTGCTCGATTTGACCGTAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGTCTTGTTTCTCAAgtacgacgtatcttttagacacaggtttcaggcacgggctcatgtttcag Alignment from CESAR ------GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ttccacttggataaaggggcaagagtacaagtgctcgctgttgcttgcagTACTGGGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTGATTCGCCAGAAGAAACTAGAGCAACTGGCTGCTCGATTTGACCGTAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGTCTTGTTTCTCAAgtacgacgtatcttttagacacaggtttcaggcacgggctcatgtttcag Alignment from Spaln_aa2Genome GCCTGGGAG------CGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ttccacttggataaaggggcaagagtacaagtgctcgctgttgcttgcagTACTGGGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTGATTCGCCAGAAGAAACTAGAGCAACTGGCTGCTCGATTTGACCGTAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGTCTTGTTTCTCAAgtacgacgtatcttttagacacaggtttcaggcacgggctcatgtttcag Alignment from Spaln_nt2Genome GGCCTGGGAGC-----GGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ttccacttggataaaggggcaagagtacaagtgctcgctgttgcttgcagTACTGGGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTGATTCGCCAGAAGAAACTAGAGCAACTGGCTGCTCGATTTGACCGTAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGTCTTGTTTCTCAAgtacgacgtatcttttagacacaggtttcaggcacgggctcatgtttcag Alignment from Pairagon ------GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ttccacttggataaaggggcaagagtacaagtgctcgctgttgcttgcagTACTGGGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTGATTCGCCAGAAGAAACTAGAGCAACTGGCTGCTCGATTTGACCGTAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGTCTTGTTTCTCAAgtacgacgtatcttttagacacaggtttcaggcacgggctcatgtttcag Alignment from Exonerate_protein2genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ttccacttggataaaggggcaagagtacaagtgctcgctgttgcttgcagtactggGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTGATTCGCCAGAAGAAACTAGAGCAACTGGCTGCTCGATTTGACCGTAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGTCTTGTTTCTCAAgtacgacgtatcttttagacacaggtttcaggcacgggctcatgtttcag Alignment from Exonerate_coding2genome GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ttccacttggataaaggggcaagagtacaagtgctcgctgttgcttgcagtactggGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTGATTCGCCAGAAGAAACTAGAGCAACTGGCTGCTCGATTTGACCGTAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGTCTTGTTTCTCAAgtacgacgtatcttttagacacaggtttcaggcacgggctcatgtttcag Alignment from GeneWise ------GCCTGGGAGCGGCTGGAGAAAGCCGAACATGAGCGAGAGCTAGCGCTGCGCACAGAGCTGATCCGCCAGGAGAAGCTGGAGCAACTGGCTGCTCGCTTCGACCGCAAGGCTGCCATGCGGGAGACCTGGCTCAGTGAGAACCAGCGACTTGTGTCCCAG ttccacttggataaaggggcaagagtacaagtgctcgctgttgcttgcagTACTGGGCCTGGGAGCGGTTGGAGAAAGCTGAACATGAGAGAGAGCTAGCATTGCGCACAGAGCTGATTCGCCAGAAGAAACTAGAGCAACTGGCTGCTCGATTTGACCGTAAGGCTGCCATGCGGAAGACCTGGCTCAGAGAGAACCAGCGTCTTGTTTCTCAAgtacgacgtatcttttagacacaggtttcaggcacgggctcatgtttcag #### Sptbn2_ID626_21 --> 0 - 0 Original Alignment ---------TTGTGGGTGACTGAGCGGCTTCCCATGGCCAGCTCTCTGGAACATGGCAAGGACTTGCCCAGTGTCCAGCTTCTCATGAAGAAAAACCAG tagttgctgtttgtggctgtggcgctatccccctgctttgctctttgcagTATGGGCCATTGTGGGTGACAGAGCAGCTTCCTATGGCCAGCTCTCTGGAACATGGGAAGGACTTGCCCAGTGTCCAGCTTCTTATGAAAAAAAACCAGgtcagtccaagggcaagggcacaaacagagtccaaaagagcattttaata Alignment from CESAR ---------TTGTGGGTGACTGAGCGGCTTCCCATGGCCAGCTCTCTGGAACATGGCAAGGACTTGCCCAGTGTCCAGCTTCTCATGAAGAAAAACCAG tagttgctgtttgtggctgtggcgctatccccctgctttgctctttgcagTATGGGCCATTGTGGGTGACAGAGCAGCTTCCTATGGCCAGCTCTCTGGAACATGGGAAGGACTTGCCCAGTGTCCAGCTTCTTATGAAAAAAAACCAGgtcagtccaagggcaagggcacaaacagagtccaaaagagcattttaata Alignment from Spaln_aa2Genome TTGTGGGTG---------ACTGAGCGGCTTCCCATGGCCAGCTCTCTGGAACATGGCAAGGACTTGCCCAGTGTCCAGCTTCTCATGAAGAAAAACCAG tagttgctgtttgtggctgtggcgctatccccctgctttgctctttgcagTATGGGCCATTGTGGGTGACAGAGCAGCTTCCTATGGCCAGCTCTCTGGAACATGGGAAGGACTTGCCCAGTGTCCAGCTTCTTATGAAAAAAAACCAGgtcagtccaagggcaagggcacaaacagagtccaaaagagcattttaata Alignment from Spaln_nt2Genome ATTGTGGGTG--------ACTGAGCGGCTTCCCATGGCCAGCTCTCTGGAACATGGCAAGGACTTGCCCAGTGTCCAGCTTCTCATGAAGAAAAACCAG tagttgctgtttgtggctgtggcgctatccccctgctttgctctttgcagTATGGGCCATTGTGGGTGACAGAGCAGCTTCCTATGGCCAGCTCTCTGGAACATGGGAAGGACTTGCCCAGTGTCCAGCTTCTTATGAAAAAAAACCAGgtcagtccaagggcaagggcacaaacagagtccaaaagagcattttaata Alignment from Pairagon ---------TTGTGGGTGACTGAGCGGCTTCCCATGGCCAGCTCTCTGGAACATGGCAAGGACTTGCCCAGTGTCCAGCTTCTCATGAAGAAAAACCAG tagttgctgtttgtggctgtggcgctatccccctgctttgctctttgcagTATGGGCCATTGTGGGTGACAGAGCAGCTTCCTATGGCCAGCTCTCTGGAACATGGGAAGGACTTGCCCAGTGTCCAGCTTCTTATGAAAAAAAACCAGgtcagtccaagggcaagggcacaaacagagtccaaaagagcattttaata Alignment from Exonerate_protein2genome ---------TTGTGGGTGACTGAGCGGCTTCCCATGGCCAGCTCTCTGGAACATGGCAAGGACTTGCCCAGTGTCCAGCTTCTCATGAAGAAAAACCAG tagttgctgtttgtggctgtggcgctatccccctgctttgctctttgcagTATGGGCCATTGTGGGTGACAGAGCAGCTTCCTATGGCCAGCTCTCTGGAACATGGGAAGGACTTGCCCAGTGTCCAGCTTCTTATGAAAAAAAACCAGgtcagtccaagggcaagggcacaaacagagtccaaaagagcattttaata Alignment from Exonerate_coding2genome ---------TTGTGGGTGACTGAGCGGCTTCCCATGGCCAGCTCTCTGGAACATGGCAAGGACTTGCCCAGTGTCCAGCTTCTCATGAAGAAAAACCAG tagttgctgtttgtggctgtggcgctatccccctgctttgctctttgcagTATGGGCCATTGTGGGTGACAGAGCAGCTTCCTATGGCCAGCTCTCTGGAACATGGGAAGGACTTGCCCAGTGTCCAGCTTCTTATGAAAAAAAACCAGgtcagtccaagggcaagggcacaaacagagtccaaaagagcattttaata Alignment from GeneWise ---------TTGTGGGTGACTGAGCGGCTTCCCATGGCCAGCTCTCTGGAACATGGCAAGGACTTGCCCAGTGTCCAGCTTCTCATGAAGAAAAACCAG tagttgctgtttgtggctgtggcgctatccccctgctttgctctttgcagTATGGGCCATTGTGGGTGACAGAGCAGCTTCCTATGGCCAGCTCTCTGGAACATGGGAAGGACTTGCCCAGTGTCCAGCTTCTTATGAAAAAAAACCAGgtcagtccaagggcaagggcacaaacagagtccaaaagagcattttaata #### Sptbn2_ID627_22 --> 0 - 0 Original Alignment ACCCTGCAGAAGGAGATCCAGGGCCATGAGCCCCGGATTGCAGACCTCAAAGAGAGGCAGCGCACTCTGGGAACAGCAGCAGCAGGTCCAGAGCTGGCTGAGCTCCAAGAAATGTGGAAACGCCTGAGCCATGAGCTGGAGCTTCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCCCAGCAATTCTATCGTGATGCTGCAGAGGCCGAGGCTTGGATGGGTGAGCAGGAGTTACACATGATGGGCCAGGAAAAGGCCAAG tccccttgtgagcctttgattgcgatcttttctgcacctctgtcttacag------CAGAAGAAAATCCAGGGCCATGAGCCCCGGATTGCCGACCTCAAAGAGAGGCAACGAACTTTGAGGACAGCTGCAGCAGGCCCAGAGTTAGCTAATCTCCAGGAAATGTGGAAACGCCTGAGCTATGAGTTGGAGCTCCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCTCAGCAATTCTATCATGATGCTGCAAAGGCTGAGGCCTGGATGGGTGACCGGGAGTTACACACGATGGGCCAAGAAAGGGCCAAGgtgagtgttgaggaatggctgtcttgctgcccattctcttactcccaaag Alignment from CESAR ACCCTGCAGAAGGAGATCCAGGGCCATGAGCCCCGGATTGCAGACCTCAAAGAGAGGCAGCGCACTCTGGGAACAGCAGCAGCAGGTCCAGAGCTGGCTGAGCTCCAAGAAATGTGGAAACGCCTGAGCCATGAGCTGGAGCTTCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCCCAGCAATTCTATCGTGATGCTGCAGAGGCCGAGGCTTGGATGGGTGAGCAGGAGTTACACATGATGGGCCAGGAAAAGGCCAAG ttcagttccccttgtgagcctttgatcttttctgcacctctgtcttacag------CAGAAGAAAATCCAGGGCCATGAGCCCCGGATTGCCGACCTCAAAGAGAGGCAACGAACTTTGAGGACAGCTGCAGCAGGCCCAGAGTTAGCTAATCTCCAGGAAATGTGGAAACGCCTGAGCTATGAGTTGGAGCTCCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCTCAGCAATTCTATCATGATGCTGCAAAGGCTGAGGCCTGGATGGGTGACCGGGAGTTACACACGATGGGCCAAGAAAGGGCCAAGgtgagtgttgaggaatggctgtcttgctgcccattctcttactcccaaag Alignment from Spaln_aa2Genome CAGAAGGAGATCCAGGGCCATGAGCCCCGGATTGCAGACCTCAAAGAGAGGCAGCGCACTCTGGGAACAGCAGCAGCAGGTCCAGAGCTGGCTGAGCTCCAAGAAATGTGGAAACGCCTGAGCCATGAGCTGGAGCTTCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCCCAGCAATTCTATCGTGATGCTGCAGAGGCCGAGGCTTGGATGGGTGAGCAGGAGTTACACATGATGGGCCAGGAAAAGGCCAAG tccccttgtgagcctttgattgcgatcttttctgcacctctgtcttacagCAGAAGAAAATCCAGGGCCATGAGCCCCGGATTGCCGACCTCAAAGAGAGGCAACGAACTTTGAGGACAGCTGCAGCAGGCCCAGAGTTAGCTAATCTCCAGGAAATGTGGAAACGCCTGAGCTATGAGTTGGAGCTCCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCTCAGCAATTCTATCATGATGCTGCAAAGGCTGAGGCCTGGATGGGTGACCGGGAGTTACACACGATGGGCCAAGAAAGGGCCAAGgtgagtgttgaggaatggctgtcttgctgcccattctcttactcccaaag Alignment from Spaln_nt2Genome CAGAAGGAGATCCAGGGCCATGAGCCCCGGATTGCAGACCTCAAAGAGAGGCAGCGCACTCTGGGAACAGCAGCAGCAGGTCCAGAGCTGGCTGAGCTCCAAGAAATGTGGAAACGCCTGAGCCATGAGCTGGAGCTTCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCCCAGCAATTCTATCGTGATGCTGCAGAGGCCGAGGCTTGGATGGGTGAGCAGGAGTTACACATGATGGGCCAGGAAAAGGCCAAG tccccttgtgagcctttgattgcgatcttttctgcacctctgtcttacagCAGAAGAAAATCCAGGGCCATGAGCCCCGGATTGCCGACCTCAAAGAGAGGCAACGAACTTTGAGGACAGCTGCAGCAGGCCCAGAGTTAGCTAATCTCCAGGAAATGTGGAAACGCCTGAGCTATGAGTTGGAGCTCCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCTCAGCAATTCTATCATGATGCTGCAAAGGCTGAGGCCTGGATGGGTGACCGGGAGTTACACACGATGGGCCAAGAAAGGGCCAAGgtgagtgttgaggaatggctgtcttgctgcccattctcttactcccaaag Alignment from Pairagon ACCCTGCAGAAGGAGATCCAGGGCCATGAGCCCCGGATTGCAGACCTCAAAGAGAGGCAGCGCACTCTGGGAACAGCAGCAGCAGGTCCAGAGCTGGCTGAGCTCCAAGAAATGTGGAAACGCCTGAGCCATGAGCTGGAGCTTCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCCCAGCAATTCTATCGTGATGCTGCAGAGGCCGAGGCTTGGATGGGTGAGCAGGAGTTACACATGATGGGCCAGGAAAAGGCCAAG tccccttgtgagcctttgattgcgatcttttctgcacctctgtcttacag------CAGAAGAAAATCCAGGGCCATGAGCCCCGGATTGCCGACCTCAAAGAGAGGCAACGAACTTTGAGGACAGCTGCAGCAGGCCCAGAGTTAGCTAATCTCCAGGAAATGTGGAAACGCCTGAGCTATGAGTTGGAGCTCCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCTCAGCAATTCTATCATGATGCTGCAAAGGCTGAGGCCTGGATGGGTGACCGGGAGTTACACACGATGGGCCAAGAAAGGGCCAAGgtgagtgttgaggaatggctgtcttgctgcccattctcttactcccaaag Alignment from Exonerate_protein2genome CAGAAGGAGATCCAGGGCCATGAGCCCCGGATTGCAGACCTCAAAGAGAGGCAGCGCACTCTGGGAACAGCAGCAGCAGGTCCAGAGCTGGCTGAGCTCCAAGAAATGTGGAAACGCCTGAGCCATGAGCTGGAGCTTCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCCCAGCAATTCTATCGTGATGCTGCAGAGGCCGAGGCTTGGATGGGTGAGCAGGAGTTACACATGATGGGCCAGGAAAAGGCCAAG tccccttgtgagcctttgattgcgatcttttctgcacctctgtcttacagCAGAAGAAAATCCAGGGCCATGAGCCCCGGATTGCCGACCTCAAAGAGAGGCAACGAACTTTGAGGACAGCTGCAGCAGGCCCAGAGTTAGCTAATCTCCAGGAAATGTGGAAACGCCTGAGCTATGAGTTGGAGCTCCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCTCAGCAATTCTATCATGATGCTGCAAAGGCTGAGGCCTGGATGGGTGACCGGGAGTTACACACGATGGGCCAAGAAAGGGCCAAGgtgagtgttgaggaatggctgtcttgctgcccattctcttactcccaaag Alignment from Exonerate_coding2genome CAGAAGGAGATCCAGGGCCATGAGCCCCGGATTGCAGACCTCAAAGAGAGGCAGCGCACTCTGGGAACAGCAGCAGCAGGTCCAGAGCTGGCTGAGCTCCAAGAAATGTGGAAACGCCTGAGCCATGAGCTGGAGCTTCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCCCAGCAATTCTATCGTGATGCTGCAGAGGCCGAGGCTTGGATGGGTGAGCAGGAGTTACACATGATGGGCCAGGAAAAGGCCAAG tccccttgtgagcctttgattgcgatcttttctgcacctctgtcttacagCAGAAGAAAATCCAGGGCCATGAGCCCCGGATTGCCGACCTCAAAGAGAGGCAACGAACTTTGAGGACAGCTGCAGCAGGCCCAGAGTTAGCTAATCTCCAGGAAATGTGGAAACGCCTGAGCTATGAGTTGGAGCTCCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCTCAGCAATTCTATCATGATGCTGCAAAGGCTGAGGCCTGGATGGGTGACCGGGAGTTACACACGATGGGCCAAGAAAGGGCCAAGgtgagtgttgaggaatggctgtcttgctgcccattctcttactcccaaag Alignment from GeneWise ---AAGGAGATCCAGGGCCATGAGCCCCGGATTGCAGACCTCAAAGAGAGGCAGCGCACTCTGGGAACAGCAGCAGCAGGTCCAGAGCTGGCTGAGCTCCAAGAAATGTGGAAACGCCTGAGCCATGAGCTGGAGCTTCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCCCAGCAATTCTATCGTGATGCTGCAGAGGCCGAGGCTTGGATGGGTGAGCAGGAGTTACACATGATGGGCCAGGAAAAGGCCAAG tccccttgtgagcctttgattgcgatcttttctgcacctctgtcttacagCAGAAGAAAATCCAGGGCCATGAGCCCCGGATTGCCGACCTCAAAGAGAGGCAACGAACTTTGAGGACAGCTGCAGCAGGCCCAGAGTTAGCTAATCTCCAGGAAATGTGGAAACGCCTGAGCTATGAGTTGGAGCTCCGGGGCAAGCGGCTGGAGGAAGCTCTTCGAGCTCAGCAATTCTATCATGATGCTGCAAAGGCTGAGGCCTGGATGGGTGACCGGGAGTTACACACGATGGGCCAAGAAAGGGCCAAGgtgagtgttgaggaatggctgtcttgctgcccattctcttactcccaaag #### Sptbn2_ID629_24 --> 1 - 0 Original Alignment cACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT aaagaacagttaggtgacacatagcaagtatgctcctccttccttcttagcACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTAGATGATCTGGAGCAGTGGATACAGGAGCAT---------------------------------------------------gtgagtctacagtctaacaaaaaggatcaagacctgtggggtgacaaagg Alignment from CESAR cACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT aaagaacagttaggtgacacatagcaagtatgctcctccttccttcttagcACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTAGATGATCTGGAGCAGTGGATACAGGAG---------------------CAT------------------------------gtgagtctacagtctaacaa Alignment from Spaln_aa2Genome CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGC aaagaacagttaggtgacacatagcaagtatgctcctccttccttcttagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTAGATGATCTGGAGCAGTGGATACAGGAGCAT---GTGAGTCTACAgtctaacaaaaaggatcaagacctgtggggtgacaa Alignment from Spaln_nt2Genome CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGT aaagaacagttaggtgacacatagcaagtatgctcctccttccttcttagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTAGATGATCTGGAGCAGTGGATACAGGAGCATgtgagtctacagtctaacaaaaaggatcaagacctgtggggtgacaaagg Alignment from Pairagon CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGT aaagaacagttaggtgacacatagcaagtatgctcctccttccttcttagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTAGATGATCTGGAGCAGTGGATACAGGAGCATgtgagtctacagtctaacaaaaaggatcaagacctgtggggtgacaaagg Alignment from Exonerate_protein2genome CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATG aaagaacagttaggtgacacatagcaagtatgctcctccttccttcttagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTAGATGATCTGGAGCAGTGGATACAGGAGCATGTGAGTCTACAGTCTAACAAAAAGGATCAAGACCTGTGGGgtgacaaagg Alignment from Exonerate_coding2genome CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATG aaagaacagttaggtgacacatagcaagtatgctcctccttccttcttagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTAGATGATCTGGAGCAGTGGATACAGGAGCATGTGAGTCTACAGTCTAACAAAAAGGATCAAGACCTGTGGGgtgacaaagg Alignment from GeneWise CACAAGACTAACAATACGCCAAGCCCAGGTGGACAAGCTGTACGCCAGCCTGAAGGAGCTGGCAGGAGAGCGGCGCGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTGGATGACCTGGAACAGTGGATACAGGAGCGTGAAGTTGTGGCAGCCTCCCATGAACTGGGCCAAGACTATGAGCACGTGACT aaagaacagttaggtgacacatagcaagtatgctcctccttccttcttagCACAAGACTAACAATACGGCAAGCCCAGGTAGATAAGCTGTATGCAAGCCTGAAGGAGCTGGCAGGAGAGCGGCATGAGCGCCTGCAGGAGCACCTCCGGCTGTGCCAGCTCCGCAGAGAGCTAGATGATCTGGAGCAGTGGATACAGGAG---------------------------------------------------CATgtgagtctacagtctaacaaaaaggatcaagacctgtggggtgacaaagg #### Sptbn2_ID633_28 --> 0 - 1 Original Alignment ---------------------------------ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg gtcatcatggtagagccccattactcatcagctctcttttcttttaccagAACATAAGGAAATCTCTGCCATACCCACGAGGAATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAACTTggtgagttatttagcaatatcacaggaggtaggggttttgtgagggtgtac Alignment from CESAR ---------------------------------ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTg gtcatcatggtagagccccattactcatcagctctcttttcttttaccagAACATAAGGAAATCTCTGCCATACCCACGAGGAATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAACTTggtgagttatttagcaatatcacaggaggtaggggttttgtgagggtgtac Alignment from Spaln_aa2Genome GCTGAGGAGATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG gtcatcatggtagagccccattactcatcagctctcttttcttttaccagaacataaggaaatctctgccatacCCACGAGGAATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAACTTGgtgagttatttagcaatatcacaggaggtaggggttttgtgagggtgtac Alignment from Spaln_nt2Genome GATCTCAGAG-AAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG gtcatcatggtagagccccattactcatcagctctcttttcttttaccagaacataaggaaatctctgccatacccacgagGAATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAACTTGgtgagttatttagcaatatcacaggaggtaggggttttgtgagggtgtac Alignment from Pairagon ---------------------------------ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG gtcatcatggtagagccccattactcatcagctctcttttcttttaccagAACATAAGGAAATCTCTGCCATACCCACGAGGAATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAACTTGgtgagttatttagcaatatcacaggaggtaggggttttgtgagggtgtac Alignment from Exonerate_protein2genome GGAGATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG gtcatcatggtagagccccattactcatcagctctcttttcttttaccagaacataaggaaatctctgccatacccacgAGGAATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAACTTGgtgagttatttagcaatatcacaggaggtaggggttttgtgagggtgtac Alignment from Exonerate_coding2genome GGAGATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG gtcatcatggtagagccccattactcatcagctctcttttcttttaccagaacataaggaaatctctgccatacccacgAGGAATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAACTTGgtgagttatttagcaatatcacaggaggtaggggttttgtgagggtgtac Alignment from GeneWise ---------------------------------ATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAGCTTG gtcatcatggtagagccccattactcatcagctctcttttcttttaccagAACATAAGGAAATCTCTGCCATACCCACGAGGAATCTCAGAGAAGCTGTCTCAGCTACAGTCCCGGCGCCAGGAGACAGCTGACAAGTGGCAGGAGAAGATGGACTGGCTACAACTTGgtgagttatttagcaatatcacaggaggtaggggttttgtgagggtgtac #### Sptbn2_ID634_29 --> 2 - 0 Original Alignment ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG--------- ccatcccctaacctacgaactctctatatatatccctctctgaatttcagttTTGGAGGTGCTTGTATTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCATACAGATCAgtatctactgcagtaccccagaagtgaccaaccccattactgccatattt Alignment from CESAR ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG--------- ccatcccctaacctacgaactctctatatatatccctctctgaatttcagttTTGGAGGTGCTTGTATTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCATACAGATCAgtatctactgcagtaccccagaagtgaccaaccccattactgccatattt Alignment from Spaln_aa2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACT ccatcccctaacctacgaactctctatatatatccctctctgaatttcagTTTTGGAGGTGCTTGTATTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTgcatacagatcagtatctactgcagtaccccagaagtgaccaaccccattactgccatattt Alignment from Spaln_nt2Genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG--------- ccatcccctaacctacgaactctctatatatatccctctctgaatttcagTTTTGGAGGTGCTTGTATTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCATACAGATCAgtatctactgcagtaccccagaagtgaccaaccccattactgccatattt Alignment from Pairagon TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG--------- ccatcccctaacctacgaactctctatatatatccctctctgaatttcagTTTTGGAGGTGCTTGTATTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCATACAGATCAgtatctactgcagtaccccagaagtgaccaaccccattactgccatattt Alignment from Exonerate_protein2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ccatcccctaacctacgaactctctatatatatccctctctgaatttcagTTTTGGAGGTGCTTGTATTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAtacagatcagtatctactgcagtaccccagaagtgaccaaccccattactgccatattt Alignment from Exonerate_coding2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ccatcccctaacctacgaactctctatatatatccctctctgaatttcagTTTTGGAGGTGCTTGTATTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCAtacagatcagtatctactgcagtaccccagaagtgaccaaccccattactgccatattt Alignment from GeneWise TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG--------- ccatcccctaacctacgaactctctatatatatccctctctgaatttcagTTTTGGAGGTGCTTGTATTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAATTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTAGCCTGGGAAGAGCGTTTTAGTGCATTGGATAAGCTCACTGCATACAGATCAgtatctactgcagtaccccagaagtgaccaaccccattactgccatattt #### Sptbn2_ID635_30 --> 0 - 2 Original Alignment CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGAT------------gg caacttttcaactccccctgcttcctgccagtgctgtggctccaccctagCTGGAAGAACGGGAAAATGAACGGAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACAACCTCCCACTTCAGAGCCTATGGCTAGTCAGCCAGAGGGGAGTCTGGTGGACGGCCAAAGAGTTCCTGACACTGCTTGGGATCGATATGTGATCgggtaaggattgataccaaatgctaaagccggtaaatgatcctccatggctg Alignment from CESAR CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGAT------------gg caacttttcaactccccctgcttcctgccagtgctgtggctccaccctagCTGGAAGAACGGGAAAATGAACGGAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACAACCTCCCACTTCAGAGCCTATGGCTAGTCAGCCAGAGGGGAGTCTGGTGGACGGCCAAAGAGTTCCTGACACTGCTTGGGATCGATATGTGATCgggtaaggattgataccaaatgctaaagccggtaaatgatccttgctgcctt Alignment from Spaln_aa2Genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGGG----------- caacttttcaactccccctgcttcctgccagtgctgtggctccaccctagCTGGAAGAACGGGAAAATGAACGGAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACAACCTCCCACTTCAGAGCCTATGGCTAGTCAGCCAGAGGGGAGTCTGGTGGACGGCCAAAGAGTTCCTGACACTGCTTGGGATCGATATGTGATCGGgtaaggattgataccaaatgctaaagccggtaaatgatcctccatggctg Alignment from Spaln_nt2Genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG---- caacttttcaactccccctgcttcctgccagtgctgtggctccaccctagCTGGAAGAACGGGAAAATGAACGGAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACAACCTCCCACTTCAGAGCCTATGGCTAGTCAGCCAGAGGGGAGTCTGGTGGACGGCCAAAGAGTTCCTGACACTGCTTGGGATCGATATgtgatcgggtaaggattgataccaaatgctaaagccggtaaatgatcctccatggctg Alignment from Pairagon CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGAT------------GG caacttttcaactccccctgcttcctgccagtgctgtggctccaccctagCTGGAAGAACGGGAAAATGAACGGAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACAACCTCCCACTTCAGAGCCTATGGCTAGTCAGCCAGAGGGGAGTCTGGTGGACGGCCAAAGAGTTCCTGACACTGCTTGGGATCGATATGTGATCGGgtaaggattgataccaaatgctaaagccggtaaatgatcctccatggctg Alignment from Exonerate_protein2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG caacttttcaactccccctgcttcctgccagtgctgtggctccaccctagCTGGAAGAACGGGAAAATGAACGGAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACAACCTCCCACTTCAGAGCCTATGGCTAGTCAGCCAGAGGGGAGTCTGGTGGACGGCCAAAGAGTTCCTGACACTGCTTGGGATCGatatgtgatcgggtaaggattgataccaaatgctaaagccggtaaatgatcctccatggctg Alignment from Exonerate_coding2genome CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGATGG caacttttcaactccccctgcttcctgccagtgctgtggctccaccctagCTGGAAGAACGGGAAAATGAACGGAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACAACCTCCCACTTCAGAGCCTATGGCTAGTCAGCCAGAGGGGAGTCTGGTGGACGGCCAAAGAGTTCCTGACACTGCTTGGGATCGatatgtgatcgggtaaggattgataccaaatgctaaagccggtaaatgatcctccatggctg Alignment from GeneWise CTGGAAGAGCGGGAAAATGAGCGGAAAAGGAAGAGGGAGGAGGAGGAACGGAGGAAACAGCCTCCTACTTCAGAGCCCATGGCTAGTCAGCCAGAAGGGAGTCTGGTAGATGGCCAGAGAGTTCCTGACACTGCCTGGGAT------------GG caacttttcaactccccctgcttcctgccagtgctgtggctccaccctagCTGGAAGAACGGGAAAATGAACGGAAAAGGAAGAGGGAGGGGGAGGAACAGAGGAAACAACCTCCCACTTCAGAGCCTATGGCTAGTCAGCCAGAGGGGAGTCTGGTGGACGGCCAAAGAGTTCCTGACACTGCTTGGGATCGATATGTGATCGGgtaaggattgataccaaatgctaaagccggtaaatgatcctccatggctg #### Ssh3_ID444_12 --> 1 - 2 Original Alignment aGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCag gggttggaaagacatggaccaccgcccctacttccccctgactgattcaga---------ACTCGTGTACTAGTCCACTGCAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGAAGCTCCGCCCCATAGTGCACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCaggtgagtgtggagaggtgaaggttgatgttgtgcataatgaggggtggctc Alignment from CESAR aGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCag aggttacttgggttggaaagacatgccctacttccccctgactgattcaga---------ACTCGTGTACTAGTCCACTGCAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGAAGCTCCGCCCCATAGTGCACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCaggtgagtgtggagaggtgaaggttgatgttgtgcataatgaggggtggctc Alignment from Spaln_aa2Genome GG CACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG GGgttggaaagacatggaccaccgcccctacttccccctgactgattcagAACTCGTGTACTAGTCCACTGCAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGAAGCTCCGCCCCATAGTGCACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtgagtgtggagaggtgaaggttgatgttgtgcataatgaggggtggctc Alignment from Spaln_nt2Genome GG CACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG GGgttggaaagacatggaccaccgcccctacttccccctgactgattcagAACTCGTGTACTAGTCCACTGCAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGAAGCTCCGCCCCATAGTGCACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtgagtgtggagaggtgaaggttgatgttgtgcataatgaggggtggctc Alignment from Pairagon AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gggttggaaagacatggaccaccgcccctacttccccctgactgattcagA---------ACTCGTGTACTAGTCCACTGCAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGAAGCTCCGCCCCATAGTGCACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtgagtgtggagaggtgaaggttgatgttgtgcataatgaggggtggctc Alignment from Exonerate_protein2genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gggttggaaagacatggaccaccgcccctacttccccctgactgATTCAGA---ACTCGTGTACTAGTCCACTGCAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGAAGCTCCGCCCCATAGTGCACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtgagtgtggagaggtgaaggttgatgttgtgcataatgaggggtggctc Alignment from Exonerate_coding2genome AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gggttggaaagacatggaccaccgcccctacttccccctgactgATTCAGA---ACTCGTGTACTAGTCCACTGCAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGAAGCTCCGCCCCATAGTGCACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtgagtgtggagaggtgaaggttgatgttgtgcataatgaggggtggctc Alignment from GeneWise AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gggttggaaagacatggaccaccgcccctacttccccctgactgattcagA---------ACTCGTGTACTAGTCCACTGCAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGAAGCTCCGCCCCATAGTGCACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtgagtgtggagaggtgaaggttgatgttgtgcataatgaggggtggctc #### Ssh3_ID446_10 --> 0 - 2 Original Alignment CCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag ACACCTCTACTTGgtaagaaattagtacctcgcctggctgctttcctcag---------------------AACCTAGAGGAACTTCAAAAGAACaggtgtgttttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from CESAR CCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACag ACACCTCTACTTGgtgagttgtccttacctcgcctggctgctttcctcag---------------------AACCTAGAGGAACTTCAAAAGAACaggtgtgttttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Spaln_aa2Genome CCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG ACACCTCTACTTGgtaagaaattagtacctcgcctggctgctttcctcag---------------------AACCTAGAGGAACTTCAAAAGAACAGgtgtgttttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Spaln_nt2Genome CCACCTCTACTTGGG-------------CTC---TGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG ACACCTCTACTTGGTAAGAAATTAGTACCTCGCCTGGCTGCTTTCCTCAGAACCTAGAGGAACTTCAAAAGAACAGgtgtgttttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Pairagon CCACCTCTACTTG GGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAACAG ACACCTCTACTTGgtaagaaattagtacctcgcctggctgctttcctcag---------------------AACCTAGAGGAACTTCAAAAGAACAGgtgtgttttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Exonerate_protein2genome CCACCTCTACTTGGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAAC ACACCTCTACTTGGTAAGAAATTAGTACCTCGCCTGGCTGCTTTCCTCAGAACCTAGAggaacttcaaaagaacaggtgtgttttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from Exonerate_coding2genome CCACCTCTACTTGGGCTCTGAGTGGAATGCTGCCAACCTGGAGGAACTTCAGAAAAAC ACACCTCTACTTGGTAAGAAATTAGTACCTCGCCTGGCTGCTTTCCTCAGAACCTAGAggaacttcaaaagaacaggtgtgttttctggctgtgggtgcctcttttttctcccagcctctctgtgg Alignment from GeneWise CTACTTGGGCTCTGAGTGGAATGC CTACTTGGTAAGA------AATTAgtacctcgcctggctgctttcctcagaacctagaggaacttcaaaagaacaggtgtgttttctggctgtgggtgcctcttttttctcccagcctctctgtgg #### Ssh3_ID449_7 --> 1 - 2 Original Alignment gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca aaccaagtatgatggagtgatgtcacttcatctccccctcccctttgcagg------CTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGCGAAACTTAACTCTGATCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCTTTTCGACCACCTAATGCTGAGCCTGGAcagtgagaactgggacagggtgcagcagggggacaaggaggaaggtgttgct Alignment from CESAR gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca ggagggaaccaagtatgatggagtgcttcatctccccctcccctttgcagg------CTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGCGAAACTTAACTCTGATCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCTTTTCGACCACCTAATGCTGAGCCTGGAcagtgagaactgggacagggtgcagcagggggacaaggaggaaggtgttgct Alignment from Spaln_aa2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA aaccaagtatgatggagtgatgtcacttcatctccccctcccctttgcagG------CTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGCGAAACTTAACTCTGATCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCTTTTCGACCACCTAATGCTGAGCCTGGACAgtgagaactgggacagggtgcagcagggggacaaggaggaaggtgttgct Alignment from Spaln_nt2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA aaccaagtatgatggagtgatgtcacttcatctccccctcccctttgcagG------CTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGCGAAACTTAACTCTGATCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCTTTTCGACCACCTAATGCTGAGCCTGGACAgtgagaactgggacagggtgcagcagggggacaaggaggaaggtgttgct Alignment from Pairagon GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA aaccaagtatgatggagtgatgtcacttcatctccccctcccctttgcagG------CTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGCGAAACTTAACTCTGATCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCTTTTCGACCACCTAATGCTGAGCCTGGACAgtgagaactgggacagggtgcagcagggggacaaggaggaaggtgttgct Alignment from Exonerate_protein2genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA aaccaagtatgatggagtgatgtcacttcatctccccctcccctttgcagG------CTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGCGAAACTTAACTCTGATCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCTTTTCGACCACCTAATGCTGAGCCTGGACAgtgagaactgggacagggtgcagcagggggacaaggaggaaggtgttgct Alignment from Exonerate_coding2genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA aaccaagtatgatggagtgatgtcacttcatctccccctcccctttgcagG------CTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGCGAAACTTAACTCTGATCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCTTTTCGACCACCTAATGCTGAGCCTGGACAgtgagaactgggacagggtgcagcagggggacaaggaggaaggtgttgct Alignment from GeneWise GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA aaccaagtatgatggagtgatgtcacttcatctccccctcccctttgcagG------CTGCAAGTATTGCACCAGGCATGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGCGAAACTTAACTCTGATCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCTTTTCGACCACCTAATGCTGAGCCTGGACAgtgagaactgggacagggtgcagcagggggacaaggaggaaggtgttgct #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG------------------------------ tgagaggattgaggctagtaagaccaactgttctctttcactttttcaagacAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGCAC------CAAAAGGCATTAGACCTGGACTCCAGTTGTAAAAACCTGAGCTGGTTGAGGGAGTGCTTGGACgtagtttgctgctggcctatacacacatccctgcttactccccctagggt Alignment from CESAR tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG tgagaggattgaggctagtaagaccaactgttctctttcactttttcaagacAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAaacctgagctggttgagggagtgcttggacgtagtttgctgctggcctatacacacatccctgcttactccccctagggt Alignment from Spaln_aa2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAGGAAGCAG tgagaggattgaggctagtaagaccaactgttctctttcactttttcaagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAAACCTGAgctggttgagggagtgcttggacgtagtttgctgctggcctatacacacatccctgcttactccccctagggt Alignment from Spaln_nt2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCA GCT tgagaggattgaggctagtaagaccaactgttctctttcactttttcaagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCA------TGCACCAAAAGGCATTAGACCTGGACTCCAgttgtaaaaacctgagctggttgagggagtgcttggacgtagtttgctgctggcctatacacacatccctgcttactccccctagGGT Alignment from Pairagon TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCT tgagaggattgaggctagtaagaccaactgttctctttcactttttcaagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCA------TGCACCAAAAGGCATTAGACCTGGACTCCAGTTgtaaaaacctgagctggttgagggagtgcttggacgtagtttgctgctggcctatacacacatccctgcttactccccctagggt Alignment from Exonerate_protein2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG--- tgagaggattgaggctagtaagaccaactgttctctttcactttttcaagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAAACctgagctggttgagggagtgcttggacgtagtttgctgctggcctatacacacatccctgcttactccccctagggt Alignment from Exonerate_coding2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG--- tgagaggattgaggctagtaagaccaactgttctctttcactttttcaagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAAACctgagctggttgagggagtgcttggacgtagtttgctgctggcctatacacacatccctgcttactccccctagggt Alignment from GeneWise TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG------------------------------ tgagaggattgaggctagtaagaccaactgttctctttcactttttcaagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATG------CACCAAAAGGCATTAGACCTGGACTCCAGTTGTAAAAACCTGAGCTGGTTGAGGGAGTGCTTGGACgtagtttgctgctggcctatacacacatccctgcttactccccctagggt #### Stx5a_ID2334_6 --> 0 - 0 Original Alignment TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG ggggggaatagcaaaataaattctctgtttattacctcctgttgtcacagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTG---------gtaattgggcgggaccttataagtagttgggttaaggaccttttgtaggg Alignment from CESAR TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG ggggggaatagcaaaataaattctctgtttattacctcctgttgtcacagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTG---------gtaattgggcgggaccttataagtagttgggttaaggacct Alignment from Spaln_aa2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTG ggggggaatagcaaaataaattctctgtttattacctcctgttgtcacagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGgtaattgggcgggaccttataagtagttgggttaaggaccttttgtaggg Alignment from Spaln_nt2Genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGAG ggggggaatagcaaaataaattctctgtttattacctcctgttgtcacagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTG-GTAATTGGgcgggaccttataagtagttgggttaaggaccttttgtagg Alignment from Pairagon TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTG ggggggaatagcaaaataaattctctgtttattacctcctgttgtcacagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGgtaattgggcgggaccttataagtagttgggttaaggaccttttgtaggg Alignment from Exonerate_protein2genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGA ggggggaatagcaaaataaattctctgtttattacctcctgttgtcacagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGGTAATTGGgcgggaccttataagtagttgggttaaggaccttttgtaggg Alignment from Exonerate_coding2genome TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGAGGACTGA ggggggaatagcaaaataaattctctgtttattacctcctgttgtcacagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGGTAATTGGgcgggaccttataagtagttgggttaaggaccttttgtaggg Alignment from GeneWise TCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTG ggggggaatagcaaaataaattctctgtttattacctcctgttgtcacagTCAAAGCTGGCTTCTATGTCCAATGACTTCAAGTCAGTTCTAGAAGTGgtaattgggcgggaccttataagtagttgggttaaggaccttttgtaggg #### Stx5a_ID2335_7 --> 0 - 1 Original Alignment AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT---g acacacccatattctcagagcccagactaccgcctctcctttgccttcagAATCTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCCTGCCTCTAGCCCCCAACAACCTTTTGggtaaacttgcattagcactatgcctaggggatatgttctggtgggtctgg Alignment from CESAR AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT---g acacacccatattctcagagcccagactaccgcctctcctttgccttcagAATCTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCCTGCCTCTAGCCCCCAACAACCTTTTGggtaaacttgcattagcactatgcctaggggatatgttctggtgggtctgg Alignment from Spaln_aa2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTGGAG acacacccatattctcagagcccagactaccgcctctcctttgccttcagAATCTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCCTGCCTCTAGCCCCCAACAACCTTTTGGgtaaacttgcattagcactatgcctaggggatatgttctggtgggtctgg Alignment from Spaln_nt2Genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT---G acacacccatattctcagagcccagactaccgcctctcctttgccttcagAATCTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCCTGCCTCTAGCCCCCAACAACCTTTTGGgtaaacttgcattagcactatgcctaggggatatgttctggtgggtctgg Alignment from Pairagon AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTT---G acacacccatattctcagagcccagactaccgcctctcctttgccttcagAATCTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCCTGCCTCTAGCCCCCAACAACCTTTTGGgtaaacttgcattagcactatgcctaggggatatgttctggtgggtctgg Alignment from Exonerate_protein2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAAC---CTTG acacacccatattctcagagcccagactaccgcctctcctttgccttcagAATCTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCCTGCCTCTAGCCCCCAACAACCTTTTGGgtaaacttgcattagcactatgcctaggggatatgttctggtgggtctgg Alignment from Exonerate_coding2genome AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAAC---CTTG acacacccatattctcagagcccagactaccgcctctcctttgccttcagAATCTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCCTGCCTCTAGCCCCCAACAACCTTTTGGgtaaacttgcattagcactatgcctaggggatatgttctggtgggtctgg Alignment from GeneWise AATCTGAAACAGCAGAGGAACCGTCGGGAACAGTTCTCCAGGGCACCAGTGTCAGCCCTGCCTCTTGCCCCCAACAACCTTGGA- acacacccatattctcagagcccagactaccgcctctcctttgccttcagAATCTGAAACAGCAGAGGAACCGGCGAGCCCAGTTATCCAGGGCACCAGTGTCTGCCCTGCCTCTAGCCCCCAACAACCTTTTGGgtaaacttgcattagcactatgcctaggggatatgttctggtgggtctgg #### Syvn1_ID1386_5 --> 2 - 0 Original Alignment ct---------------------------CTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcaggcctgtggagactttggagactccactttgtcaattagctTTCGGGTCCCTTGAGATCGATATGCTGCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTAgtaagtctgacgtagggaaagacttgacctgtgtgtgctatgagtccctc Alignment from CESAR ctCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG agggtgttggggagtgaaaagtgagtgtcaggccgtcaggcctgtggagactttcgggtcccttgagatcgatatgctgCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTAgtaagtctgacgtagggaaagacttgacctgtgtgtgctatgagtccctc Alignment from Spaln_aa2Genome GTCTCT------CTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcaggcctgtggagactttggagactccactttgtcaattagctttcgggtcccttgagATCGATATGCTGCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTAgtaagtctgacgtagggaaagacttgacctgtgtgtgctatgagtccctc Alignment from Spaln_nt2Genome CTC----------TCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcaggcctgtggagactttggagactccactttgtcaattagctttcgggtcccttgagATCGATATGCTGCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTAgtaagtctgacgtagggaaagacttgacctgtgtgtgctatgagtccctc Alignment from Pairagon CT---------------------------CTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcaggcctgtggagactttggagactccactttgtcaattagCTTTCGGGTCCCTTGAGATCGATATGCTGCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTAgtaagtctgacgtagggaaagacttgacctgtgtgtgctatgagtccctc Alignment from Exonerate_protein2genome CTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcaggcctgtggagactttggagactccactttgtcaattagctttcgggtcccttgagatcgatatgctgCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTAgtaagtctgacgtagggaaagacttgacctgtgtgtgctatgagtccctc Alignment from Exonerate_coding2genome CTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcaggcctgtggagactttggagactccactttgtcaattagctttcgggtcccttgagatcgatatgctgCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTAgtaagtctgacgtagggaaagacttgacctgtgtgtgctatgagtccctc Alignment from GeneWise ------GTCTCTCTCATGTTTCTCCTGGGTATCCTGGACTTCCTCTTCGTCAGCCACGCTTATCACAGCATCCTGACCCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGAG tcaggccgtcaggcctgtggagactttggagactccactttgtcaattagctttcgggtcccttgagATCGATATGCTGCTCATGTTTCTCCTGGGCATCCTTGACTTCCTCTTTGTCAGCCATGCTTATCACAGCATCCTGACTCGTGGGGCTTCTGTGCAGCTGGTATTTGGCTTTGTAgtaagtctgacgtagggaaagacttgacctgtgtgtgctatgagtccctc #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ggtgtgtctgccagccctgcagttggctagtgttgtaaaacttcctccaggcTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTGTTTGCCATTAAGCCCATG------------aggtagagcgggcccgaagcggcacgttgtctttgtcactcccatgatgtct Alignment from CESAR gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag ggtgtgtctgccagccctgcagttggctagtgttgtaaaacttcctccaggcTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTGTTTGCCATTAAGCCC------------ATGaggtagagcgggcccgaagcggcacgttgtctttgtcactttctgcttctgt Alignment from Spaln_aa2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgtgtctgccagccctgcagttggctagtgttgtaaaacttcctccagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTGTTTGCCATTAAGCCC------------ATGAGgtagagcgggcccgaagcggcacgttgtctttgtcactcccatgatgtct Alignment from Spaln_nt2Genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgtgtctgccagccctgcagttggctagtgttgtaaaacttcctccagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTGTTTGCCATTAAGC------------CCATGAGgtagagcgggcccgaagcggcacgttgtctttgtcactcccatgatgtct Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgtgtctgccagccctgcagttggctagtgttgtaaaacttcctccagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTGTTTGCCATTAAGC------------CCATGAGgtagagcgggcccgaagcggcacgttgtctttgtcactcccatgatgtct Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgtgtctgccagccctgcagttggctagtgttgtaaaacttcctccagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTGTTTGCCATTAAGCCCATGAGGTAGAGCGGGCCcgaagcggcacgttgtctttgtcactcccatgatgtct Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgtgtctgccagccctgcagttggctagtgttgtaaaacttcctccagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTGTTTGCCATTAAGCCCATGAGGTAGAGCGGGCCcgaagcggcacgttgtctttgtcactcccatgatgtct Alignment from GeneWise GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ggtgtgtctgccagccctgcagttggctagtgttgtaaaacttcctccagGCTTCATCAAGGTGCTGCTGTATATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTGTTTGCCATTAAGCCC------------ATGAGgtagagcgggcccgaagcggcacgttgtctttgtcactcccatgatgtct #### Syvn1_ID1393_12 --> 2 - 1 Original Alignment ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg aggtaattgatccactcccaatttacatcacggccttcctttccctccagctGTTTCTCGGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCT------------------------------------------ggtaagttgcccatcgcccatcctcttggacctgaggtggaattcgacagc Alignment from CESAR ccGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTg aggtaattgatccactcccaatttacatcacggccttcctttccctccagctGTTTCTCGGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCT------------------------------------------ggtaagttgcccatcgcccatcctcttggacctgaggtggaattcgacagc Alignment from Spaln_aa2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTT--------- aggtaattgatccactcccaatttacatcacggccttcctttccctccagCTGTTTCTCGGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTGGTAAGTTGCCC---ATCGCCCATCCTCTTGGACCTGAGGTGGAATTCGAC Alignment from Spaln_nt2Genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTT aggtaattgatccactcccaatttacatcacggccttcctttccctccagCTGTTTCTCGGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTGgtaagttgcccatcgcccatcctcttggacctgaggtggaattcgacagc Alignment from Pairagon CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCTTTTG aggtaattgatccactcccaatttacatcacggccttcctttccctccagCTGTTTCTCGGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCC------------------------------------------TGgtaagttgcccatcgcccatcctcttggacctgaggtggaattcgacagc Alignment from Exonerate_protein2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCT aggtaattgatccactcccaatttacatcacggccttcctttccctccagCTGTTTCTCGGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTGGTAAGTTGCCC---ATCGCCCATCCTCTTGGACCTGAGgtggaattcgac Alignment from Exonerate_coding2genome CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCACCT aggtaattgatccactcccaatttacatcacggccttcctttccctccagCTGTTTCTCGGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTGGTAAGTTGCCC---ATCGCCCATCCTCTTGGACCTGAGgtggaattcgac Alignment from GeneWise CCGTTTCTCGGCCTAGTGGAGCAGCCACCACCACAGCTGCTGGCACCAGTACTTCTGCCCCAGCACCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCCGGCTTCCCTTTCCCTCCTCCTTGGATGGGTATGCCTCTGCCTCCA-CCTTTT-------- aggtaattgatccactcccaatttacatcacggccttcctttccctccagCTGTTTCTCGGCCTAGTGGAGCAGCAACCACTCCAGCTGCTGGCACAAGTCCTTCCGCCCCAGCATCTGGGTCTGTACCTGGCCCAGAGGCTGGTCCTGCCCCTGGCTTCCCTGGTAAGTTGCCC---ATCGCCCATCCTCTTGGACCTGAGGTGGAATTCGAC #### Taf5_ID10096_4 --> 0 - 2 Original Alignment GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACag caatgagcaaaccaaaaacagtttaggagtgggtttccctatcttcacagGTATTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCACCTCAA---aggtatgcagcagtacataaaggtgaaagctatggcaagaggactggagtgg Alignment from CESAR GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACag caatgagcaaaccaaaaacagtttaggagtgggtttccctatcttcacagGTATTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCACCTCAA---aggtatgcagcagtacataaaggtgaaagctatggcaagaggactggagtgg Alignment from Spaln_aa2Genome GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAA caatgagcaaaccaaaaacagtttaggagtgggtttccctatcttcacagGTATTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCACCTCAAAGgtatgcagcagtacataaaggtgaaagctatggcaagaggactggagtgg Alignment from Spaln_nt2Genome GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAA-----CAG-- caatgagcaaaccaaaaacagtttaggagtgggtttccctatcttcacagGTATTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCACCTCAAAGGTATGCAGCAgtacataaaggtgaaagctatggcaagaggactggagtgg Alignment from Pairagon GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAA--------------------------------------------------- caatgagcaaaccaaaaacagtttaggagtgggtttccctatcttcacagGTATTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCACCTCAAAGGTATGCAGCAGTACATAAAGGTGAAAGCTATGGCAAGAGGACTGGAGTGG Alignment from Exonerate_protein2genome GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG caatgagcaaaccaaaaacagtttaggagtgggtttccctatcttcacagGTATTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCACCTCAA---AGgtatgcagcagtacataaaggtgaaagctatggcaagaggactggagtgg Alignment from Exonerate_coding2genome GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG caatgagcaaaccaaaaacagtttaggagtgggtttccctatcttcacagGTATTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCACCTCAA---AGgtatgcagcagtacataaaggtgaaagctatggcaagaggactggagtgg Alignment from GeneWise GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAA caatgagcaaaccaaaaacagtttaggagtgggtttccctatcttcacagGTATTTTTTGGTTTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCACCTCAAAGgtatgcagcagtacataaaggtgaaagctatggcaagaggactggagtgg #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment ag---CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg ggtgggggtgtgacaggcattctcaagttcacaaattcttctctgctcagagATGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATtggtaagtgcctatgtagtgggatttggcatggagcgtgggtggatttgtcc Alignment from CESAR ag---CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg ggtgggggtgtgacaggcattctcaagttcacaaattcttctctgctcagagATGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATtggtaagtgcctatgtagtgggatttggcatggagcgtgggtggatttgtcc Alignment from Spaln_aa2Genome AG---CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggtgggggtgtgacaggcattctcaagttcacaaattcttctctgctcagAGATGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTGgtaagtgcctatgtagtgggatttggcatggagcgtgggtggatttgtcc Alignment from Spaln_nt2Genome AG---CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggtgggggtgtgacaggcattctcaagttcacaaattcttctctgctcagAGATGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTGgtaagtgcctatgtagtgggatttggcatggagcgtgggtggatttgtcc Alignment from Pairagon A---GCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggtgggggtgtgacaggcattctcaagttcacaaattcttctctgctcagAGATGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTGgtaagtgcctatgtagtgggatttggcatggagcgtgggtggatttgtcc Alignment from Exonerate_protein2genome AG---CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggtgggggtgtgacaggcattctcaagttcacaaattcttctctgctcagAGATGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTGgtaagtgcctatgtagtgggatttggcatggagcgtgggtggatttgtcc Alignment from Exonerate_coding2genome AG---CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggtgggggtgtgacaggcattctcaagttcacaaattcttctctgctcagAGATGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTGgtaagtgcctatgtagtgggatttggcatggagcgtgggtggatttgtcc Alignment from GeneWise --CAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggtgggggtgtgacaggcattctcaagttcacaaattcttctctgctcagAGATGCTGTCTGAGGTCCTTTGGGCAATGGTGATGCACATAGGCCTCGGCATGGGCCGAGAGATTGGGGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGTCTCTTAGCCTTCTTGCATGCTCTGCGGTTGCATTGgtaagtgcctatgtagtgggatttggcatggagcgtgggtggatttgtcc #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ catgtaactcccattcactgtccatgggcatcttgttctttctttctcagGAAGTGGTACAGTACGTTCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCGAGCACCGACACAGAAGAAACACCCAAAGAAGA---GCAGGCCAACAGTTCGGAgtgagtgcacagggattggactaagtggtgacctgtgtaacctctgctcc Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ catgtaactcccattcactgtccatgggcatcttgttctttctttctcagGAAGTGGTACAGTACGTTCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCGAGCACCGACACAGAAGAAACACCCAAAGAAGA---GCAGGCCAACAGTTCGGAgtgagtgcacagggattggactaagtggtgacctgtgtaacctctgctcc Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAG---CAG catgtaactcccattcactgtccatgggcatcttgttctttctttctcagGAAGTGGTACAGTACGTTCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCGAGCACCGACACAGAAGAAACACCCAAAGAAGAGCAGGCCAACAGTTCGGAgtgagtgcacagggattggactaagtggtgacctgtgtaacctctgctcc Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCA catgtaactcccattcactgtccatgggcatcttgttctttctttctcagGAAGTGGTACAGTACGTTCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCGAGCACCGACACAGAAGAAACACCCAAAGAAG---AGCAGGCCAACAgttcggagtgagtgcacagggattggactaagtggtgacctgtgtaacctctgctcc Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ catgtaactcccattcactgtccatgggcatcttgttctttctttctcagGAAGTGGTACAGTACGTTCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCGAGCACCGACACAGAAGAAACACCCAAAGAAG---AGCAGGCCAACAGTTCGGAgtgagtgcacagggattggactaagtggtgacctgtgtaacctctgctcc Alignment from Exonerate_protein2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG catgtaactcccattcactgtccatgggcatcttgttctttctttctcagGAAGTGGTACAGTACGTTCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCGAGCACCGACACAGAAGAAACACCCAAAGAAGA---GCAGGCCAACAGttcggagtgagtgcacagggattggactaagtggtgacctgtgtaacctctgctcc Alignment from Exonerate_coding2genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG catgtaactcccattcactgtccatgggcatcttgttctttctttctcagGAAGTGGTACAGTACGTTCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCGAGCACCGACACAGAAGAAACACCCAAAGAAGA---GCAGGCCAACAGttcggagtgagtgcacagggattggactaagtggtgacctgtgtaacctctgctcc Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG------ catgtaactcccattcactgtccatgggcatcttgttctttctttctcagGAAGTGGTACAGTACGTTCTGGTGGTCCTGGCTTTAGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCGAGCACCGACACAGAAGAAACACCCAAAGAAGA---GCAGGCCAACAGTTCGGAgtgagtgcacagggattggactaagtggtgacctgtgtaacctctgctcc #### Tcirg1_ID175_12 --> 1 - 0 Original Alignment t------GACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG cagggcacctgaccaattgtgtagctcatgtttttatgccacttacacagtATGAAGGATGAGTATCTATCCCAGCACTCCATGCTAACCCTGAACCCTAACATTACAGGAGTCTTCCTTGGACCATACCCCTTTGGCATTGAGCCAgtaagagagcatacaagtgcatgggaaagaggtgcctgggaaggcttgtc Alignment from CESAR t------GACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG cagggcacctgaccaattgtgtagctcatgtttttatgccacttacacagtATGAAGGATGAGTATCTATCCCAGCACTCCATGCTAACCCTGAACCCTAACATTACAGGAGTCTTCCTTGGACCATACCCCTTTGGCATTGAGCCAgtaagagagcatacaagtgcatgggaaagaggtgcctgggaaggcttgtc Alignment from Spaln_aa2Genome T------GACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG cagggcacctgaccaattgtgtagctcatgtttttatgccacttacacagTATGAAGGATGAGTATCTATCCCAGCACTCCATGCTAACCCTGAACCCTAACATTACAGGAGTCTTCCTTGGACCATACCCCTTTGGCATTGAGCCAgtaagagagcatacaagtgcatgggaaagaggtgcctgggaaggcttgtc Alignment from Spaln_nt2Genome T------GACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG cagggcacctgaccaattgtgtagctcatgtttttatgccacttacacagTATGAAGGATGAGTATCTATCCCAGCACTCCATGCTAACCCTGAACCCTAACATTACAGGAGTCTTCCTTGGACCATACCCCTTTGGCATTGAGCCAgtaagagagcatacaagtgcatgggaaagaggtgcctgggaaggcttgtc Alignment from Pairagon -----------------------------------------------------GAGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG CAGGGCACCTGACCAATTGTGTAGCTCATGTTTTTATGCCACTTACACAGTATGAAGGATGAGTATCTATCCCAGCACTCCATGCTAACCCTGAACCCTAACATTACAGGAGTCTTCCTTGGACCATACCCCTTTGGCATTGAGCCAgtaagagagcatacaagtgcatgggaaagaggtgcctgggaaggcttgtc Alignment from Exonerate_protein2genome CTGGAGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG cagggcacctgaccaattgtgtagctcatgtttttatgccacttacacagTATGAAGGATGAGTATCTATCCCAGCACTCCATGCTAACCCTGAACCCTAACATTACAGGAGTCTTCCTTGGACCATACCCCTTTGGCATTGAGCCAgtaagagagcatacaagtgcatgggaaagaggtgcctgggaaggcttgtc Alignment from Exonerate_coding2genome CTGGAGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG cagggcacctgaccaattgtgtagctcatgtttttatgccacttacacagTATGAAGGATGAGTATCTATCCCAGCACTCCATGCTAACCCTGAACCCTAACATTACAGGAGTCTTCCTTGGACCATACCCCTTTGGCATTGAGCCAgtaagagagcatacaagtgcatgggaaagaggtgcctgggaaggcttgtc Alignment from GeneWise ----AGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG cagggcacctgaccaattgtgtagctcatgtttttatgccacttacacagTATGAAGGATGAGTATCTATCCCAGCACTCCATGCTAACCCTGAACCCTAACATTACAGGAGTCTTCCTTGGACCATACCCCTTTGGCATTGAGCCAgtaagagagcatacaagtgcatgggaaagaggtgcctgggaaggcttgtc #### Tcirg1_ID180_7 --> 1 - 0 Original Alignment cTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GTCCT ccgttatcctcagcttccacacaaggtctaataacatcttttcatcacagcTTTCATTGCCATGTCTTCTCATATCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTCACAGCAGTTGCAGCAGCAAAGCCAGGAGCTTCAG---gtaagaagtgcccatgtaaactggaacctctggtttcattcacagGTCTT Alignment from CESAR cTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GT ccgttatcctcagcttccacacaaggtctaataacatcttttcatcacagcTTTCATTGCCATGTCTTCTCATATCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTCACAGCAGTTGCAGCAGCAAAGCCAGGAGCTTCAG---gtaagaagtgcccatgtaaaaagctcaggtttcatctttcttcagGT Alignment from Spaln_aa2Genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAG GAAGT ccgttatcctcagcttccacacaaggtctaataacatcttttcatcacagCTTTCATTGCCATGTCTTCTCATATCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTCACAGCAGTTGCAGCAGCAAAGCCAGGAGCTTCAGgtaagaagtgcccatgtaaactggaacctctggtttcattcacag---GT Alignment from Spaln_nt2Genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAG GAAGT ccgttatcctcagcttccacacaaggtctaataacatcttttcatcacagCTTTCATTGCCATGTCTTCTCATATCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTCACAGCAGTTGCAGCAGCAAAGCCAGGAGCTTCAGgtaagaagtgcccatgtaaactggaacctctggtttcattcacag---GT Alignment from Pairagon CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGG------------------------------------------AAGTCCT ccgttatcctcagcttccacacaaggtctaataacatcttttcatcacagCTTTCATTGCCATGTCTTCTCATATCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTCACAGCAGTTGCAGCAGCAAAGCCAGGAGCTTCAGGTAAGAAGTGCCCATGTAAACTGGAACCTCTGGTTTCATTCACAGGTCTT Alignment from Exonerate_protein2genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GT ccgttatcctcagcttccacacaaggtctaataacatcttttcatcacagCTTTCATTGCCATGTCTTCTCATATCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTCACAGCAGTTGCAGCAGCAAAGCCAGGAGCTTCAG---gtaagaagtgcccatgtaaactggaacctctggtttcattcacagGT Alignment from Exonerate_coding2genome CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAGGAA GT ccgttatcctcagcttccacacaaggtctaataacatcttttcatcacagCTTTCATTGCCATGTCTTCTCATATCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTCACAGCAGTTGCAGCAGCAAAGCCAGGAGCTTCAG---gtaagaagtgcccatgtaaactggaacctctggtttcattcacagGT Alignment from GeneWise CTTCCACTGTCATGTCTTCCCATACCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTTGCAGCAGCTGCAGCAGCAAAGCCAGGAGCTTCAG------------------------------------------GAAGTCCT ccgttatcctcagcttccacacaaggtctaataacatcttttcatcacagCTTTCATTGCCATGTCTTCTCATATCTGGAGCAGGAGGAAGCCCGGTTCAGGACCTCACAGCAGTTGCAGCAGCAAAGCCAGGAGCTTCAGGTAAGAAGTGCCCATGTAAACTGGAACCTCTGGTTTCATTCACAGGTCTT #### Tcirg1_ID183_4 --> 0 - 2 Original Alignment GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTC---------------aa agggcctcaagatgtacatgccagtagttcgcattctttttttgtgatagGTGGCAGCTGATCACACTGAAGGCCCTTTCTCAGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACCTGAAAGTCTGTGCTGTAATCCTGaagtgagttggggcagcctagcttttatgggcttcccacatgtgctccctgc Alignment from CESAR GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTC---------------aa agggcctcaagatgtacatgccagtagttcgcattctttttttgtgatagGTGGCAGCTGATCACACTGAAGGCCCTTTCTCAGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACCTGAAAGTCTGTGCTGTAATCCTGaagtgagttggggcagcctagcttttatgggcttcccacatgtgctccctgc Alignment from Spaln_aa2Genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAAT-------------- agggcctcaagatgtacatgccagtagttcgcattctttttttgtgatagGTGGCAGCTGATCACACTGAAGGCCCTTTCTCAGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACCTGAAAGTCTGTGCTGTAATCCTGAAgtgagttggggcagcctagcttttatgggcttcccacatgtgctccctgc Alignment from Spaln_nt2Genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCA agggcctcaagatgtacatgccagtagttcgcattctttttttgtgatagGTGGCAGCTGATCACACTGAAGGCCCTTTCTCAGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACCTGAAAGTCTgtgctgtaatcctgaagtgagttggggcagcctagcttttatgggcttcccacatgtgctccctgc Alignment from Pairagon -------------------------------------------------GGTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTC---------------AA AGGGCCTCAAGATGTACATGCCAGTAGTTCGCATTCTTTTTTTGTGATAGGTGGCAGCTGATCACACTGAAGGCCCTTTCTCAGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACCTGAAAGTCTGTGCTGTAATCCTGAAgtgagttggggcagcctagcttttatgggcttcccacatgtgctccctgc Alignment from Exonerate_protein2genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGT agggcctcaagatgtacatgccagtagttcgcattctttttttgtgatagGTGGCAGCTGATCACACTGAAGGCCCTTTCTCAGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACCTGAAAGTctgtgctgtaatcctgaagtgagttggggcagcctagcttttatgggcttcccacatgtgctccctgc Alignment from Exonerate_coding2genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGT agggcctcaagatgtacatgccagtagttcgcattctttttttgtgatagGTGGCAGCTGATCACACTGAAGGCCCTTTCTCAGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACCTGAAAGTctgtgctgtaatcctgaagtgagttggggcagcctagcttttatgggcttcccacatgtgctccctgc Alignment from GeneWise GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTC---------------AA agggcctcaagatgtacatgccagtagttcgcattctttttttgtgatagGTGGCAGCTGATCACACTGAAGGCCCTTTCTCAGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACCTGAAAGTCTGTGCTGTAATCCTGAAgtgagttggggcagcctagcttttatgggcttcccacatgtgctccctgc #### Tcirg1_ID184_3 --> 2 - 0 Original Alignment ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cgtaaccctgtggaatttcctccagccctgtgtcccactctcccttacagccTTCTTGAGGGAAGAAGTGCCATGGGCAGGTCTGACACTCGCCCCACCTGAGGGGACACTACCGGCACCACCTCCACGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTTCATGGCAATCAAGAGGCACTGCGGGCCCAGCTGCACCAGCTACGACTTTACTCAGCTGTGCTGGGCCAGAGCCACAGTCCA---gtgagttggtcctagccagagcaaaaagcaggtatagggcctcaagatgt Alignment from CESAR ccTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cgtaaccctgtggaatttcctccagccctgtgtcccactctcccttacagccTTCTTGAGGGAAGAAGTGCCATGGGCAGGTCTGACACTCGCCCCACCTGAGGGGACACTACCGGCACCACCTCCACGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTTCATGGCAATCAAGAGGCACTGCGGGCCCAGCTGCACCAGCTACGACTTTACTCAGCTGTGCTGGGCCAGAGCCACAGT---CCAgtgagttggtcctagccagagcaaaaagcaggtatagggcctcaagatgt Alignment from Spaln_aa2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCG cgtaaccctgtggaatttcctccagccctgtgtcccactctcccttacagCCTTCTTGAGGGAAGAAGTGCCATGGGCAGGTCTGACACTCGCCCCACCTGAGGGGACACTACCGGCACCACCTCCACGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTTCATGGCAATCAAGAGGCACTGCGGGCCCAGCTGCACCAGCTACGACTTTACTCAGCTGTGCTGGGCCAGAGCCACAGTCCAgtgagttggtcctagccagagcaaaaagcaggtatagggcctcaagatgt Alignment from Spaln_nt2Genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCG cgtaaccctgtggaatttcctccagccctgtgtcccactctcccttacagCCTTCTTGAGGGAAGAAGTGCCATGGGCAGGTCTGACACTCGCCCCACCTGAGGGGACACTACCGGCACCACCTCCACGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTTCATGGCAATCAAGAGGCACTGCGGGCCCAGCTGCACCAGCTACGACTTTACTCAGCTGTGCTGGGCCAGAGCCACAGTCCAgtgagttggtcctagccagagcaaaaagcaggtatagggcctcaagatgt Alignment from Pairagon CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCG cgtaaccctgtggaatttcctccagccctgtgtcccactctcccttacagCCTTCTTGAGGGAAGAAGTGCCATGGGCAGGTCTGACACTCGCCCCACCTGAGGGGACACTACCGGCACCACCTCCACGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTTCATGGCAATCAAGAGGCACTGCGGGCCCAGCTGCACCAGCTACGACTTTACTCAGCTGTGCTGGGCCAGAGCCACAGTCCAgtgagttggtcctagccagagcaaaaagcaggtatagggcctcaagatgt Alignment from Exonerate_protein2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cgtaaccctgtggaatttcctccagccctgtgtcccactctcccttacagCCTTCTTGAGGGAAGAAGTGCCATGGGCAGGTCTGACACTCGCCCCACCTGAGGGGACACTACCGGCACCACCTCCACGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTTCATGGCAATCAAGAGGCACTGCGGGCCCAGCTGCACCAGCTACGACTTTACTCAGCTGTGCTGGGCCAGAGCCACAGT---CCAgtgagttggtcctagccagagcaaaaagcaggtatagggcctcaagatgt Alignment from Exonerate_coding2genome CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cgtaaccctgtggaatttcctccagccctgtgtcccactctcccttacagCCTTCTTGAGGGAAGAAGTGCCATGGGCAGGTCTGACACTCGCCCCACCTGAGGGGACACTACCGGCACCACCTCCACGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTTCATGGCAATCAAGAGGCACTGCGGGCCCAGCTGCACCAGCTACGACTTTACTCAGCTGTGCTGGGCCAGAGCCACAGT---CCAgtgagttggtcctagccagagcaaaaagcaggtatagggcctcaagatgt Alignment from GeneWise CCTTCTTGCGGGAAGAAGTGCAGCGGGCAGGTCTGACGCTGGCCCCACCTGAGGGGACACTGCCAGCACCACCTCCCCGAGACCTGCTGCGCATCCAGGAGGAAACGGATCGCTTGGCCCAGGAGCTTCGGGATGTTCGTGGCAATCAGCAGGCACTGCGGGCCCAGCTGCACCAGCTGCGGCTTCACTCGGCTGTGCTGGGCCAGAGCCACAGCCCGCCG cgtaaccctgtggaatttcctccagccctgtgtcccactctcccttacagCCTTCTTGAGGGAAGAAGTGCCATGGGCAGGTCTGACACTCGCCCCACCTGAGGGGACACTACCGGCACCACCTCCACGAGACCTACTACGCATCCAGGAGGAGACAGATCGCTTGGCCCCTGAGCTTCAGGATGTTCATGGCAATCAAGAGGCACTGCGGGCCCAGCTGCACCAGCTACGACTTTACTCAGCTGTGCTGGGCCAGAGCCACAGT---CCAgtgagttggtcctagccagagcaaaaagcaggtatagggcctcaagatgt #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTT---a atcccttctgagaggttctgatacatatcctctgtgtcctcttgtaacagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCACTGTGAGGAACTGGAAAAGACATTTCCCagtaagctggactcattcacatcccatggcaggcttggtctgaaggagagt Alignment from CESAR CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTT---a atcccttctgagaggttctgatacatatcctctgtgtcctcttgtaacagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCACTGTGAGGAACTGGAAAAGACATTTCCCagtaagctggactcattcacatcccatggcaggcttggtctgaaggagagt Alignment from Spaln_aa2Genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTT---A atcccttctgagaggttctgatacatatcctctgtgtcctcttgtaacagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCACTGTGAGGAACTGGAAAAGACATTTCCCAgtaagctggactcattcacatcccatggcaggcttggtctgaaggagagt Alignment from Spaln_nt2Genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTT---A atcccttctgagaggttctgatacatatcctctgtgtcctcttgtaacagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCACTGTGAGGAACTGGAAAAGACATTTCCCAgtaagctggactcattcacatcccatggcaggcttggtctgaaggagagt Alignment from Pairagon CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTT---A atcccttctgagaggttctgatacatatcctctgtgtcctcttgtaacagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCACTGTGAGGAACTGGAAAAGACATTTCCCAgtaagctggactcattcacatcccatggcaggcttggtctgaaggagagt Alignment from Exonerate_protein2genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTT---A atcccttctgagaggttctgatacatatcctctgtgtcctcttgtaacagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCACTGTGAGGAACTGGAAAAGACATTTCCCAgtaagctggactcattcacatcccatggcaggcttggtctgaaggagagt Alignment from Exonerate_coding2genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTT---A atcccttctgagaggttctgatacatatcctctgtgtcctcttgtaacagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCACTGTGAGGAACTGGAAAAGACATTTCCCAgtaagctggactcattcacatcccatggcaggcttggtctgaaggagagt Alignment from GeneWise CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTACC- atcccttctgagaggttctgatacatatcctctgtgtcctcttgtaacagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCACTGTGAGGAACTGGAAAAGACATTTCCCAgtaagctggactcattcacatcccatggcaggcttggtctgaaggagagt #### Tctn3_ID7995_6 --> 2 - 0 Original Alignment gt------------------------------TTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ctcacttactggggctgtcatccccttattgtcttgatgtttttctctagggCTTAGTCATGGCTTTATTACTCAACATCCCTTTCTAGAGACTAAAAGCACAACATCTCCCCGTTTCTTTAAGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCAGTCTCATATTATAACTTCAGAGTCTTGAAGgtgagtcacaccacctttctcactccttcagattctcctcacttgaatta Alignment from CESAR gt------------------------------TTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ctcacttactggggctgtcatccccttattgtcttgatgtttttctctagggCTTAGTCATGGCTTTATTACTCAACATCCCTTTCTAGAGACTAAAAGCACAACATCTCCCCGTTTCTTTAAGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCAGTCTCATATTATAACTTCAGAGTCTTGAAGgtgagtcacaccacctttctcactccttcagattctcctcacttgaatta Alignment from Spaln_aa2Genome AGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ctcacttactggggctgtcatccccttattgtcttgatgtttttctctagggcttagtcatggctttattactcaacatccctttctagAGACTAAAAGCACAACATCTCCCCGTTTCTTTAAGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCAGTCTCATATTATAACTTCAGAGTCTTGAAGgtgagtcacaccacctttctcactccttcagattctcctcacttgaatta Alignment from Spaln_nt2Genome AGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ctcacttactggggctgtcatccccttattgtcttgatgtttttctctagggcttagtcatggctttattactcaacatccctttctagAGACTAAAAGCACAACATCTCCCCGTTTCTTTAAGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCAGTCTCATATTATAACTTCAGAGTCTTGAAGgtgagtcacaccacctttctcactccttcagattctcctcacttgaatta Alignment from Pairagon ----------------------------------------------------------------------------------TTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG CTCACTTACTGGGGCTGTCATCCCCTTATTGTCTTGATGTTTTTCTCTAGGGCTTAGTCATGGCTTTATTACTCAACATCCCTTTCTAGAGACTAAAAGCACAACATCTCCCCGTTTCTTTAAGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCAGTCTCATATTATAACTTCAGAGTCTTGAAGgtgagtcacaccacctttctcactccttcagattctcctcacttgaatta Alignment from Exonerate_protein2genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ctcacttactggggctgtcatccccttattgtcttgatgtttttctctagggcttagtcatggctttattactcaacatcCCTTTCTAGAGACTAAAAGCACAACATCTCCCCGTTTCTTTAAGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCAGTCTCATATTATAACTTCAGAGTCTTGAAGgtgagtcacaccacctttctcactccttcagattctcctcacttgaatta Alignment from Exonerate_coding2genome GTTTCCTAGAGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ctcacttactggggctgtcatccccttattgtcttgatgtttttctctagggcttagtcatggctttattactcaacatcCCTTTCTAGAGACTAAAAGCACAACATCTCCCCGTTTCTTTAAGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCAGTCTCATATTATAACTTCAGAGTCTTGAAGgtgagtcacaccacctttctcactccttcagattctcctcacttgaatta Alignment from GeneWise AGAGTAAAAGCACAACGTGTCCTCGTTTCTTCAGGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCTGCCTCTTACTATAACTTCAGAGTCTTGAAG ctcacttactggggctgtcatccccttattgtcttgatgtttttctctagggcttagtcatggctttattactcaacatccctttctagAGACTAAAAGCACAACATCTCCCCGTTTCTTTAAGGACCTGGCCAGTAGCTGCACCTCGGAGCCAGCCCTGGATGCAGTCTCATATTATAACTTCAGAGTCTTGAAGgtgagtcacaccacctttctcactccttcagattctcctcacttgaatta #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ------------------------ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg gcttcatgagagatgtgtgctgacacccgccctgtctttcctttgaacagACAATTTTATCAATATCAGAACAAATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTggtaggcaaactcctgtttttcagtttctgtaatatgaatgattgcttggt Alignment from CESAR ------------------------ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg gcttcatgagagatgtgtgctgacacccgccctgtctttcctttgaacagACAATTTTATCAATATCAGAACAAATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTggtaggcaaactcctgtttttcagtttctgtaatatgaatgattgcttggt Alignment from Spaln_aa2Genome CAGATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG gcttcatgagagatgtgtgctgacacccgccctgtctttcctttgaacagacaattttatcaatatcagAACAAATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGgtaggcaaactcctgtttttcagtttctgtaatatgaatgattgcttggt Alignment from Spaln_nt2Genome CAGATCTTTTCATT--GGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG gcttcatgagagatgtgtgctgacacccgccctgtctttcctttgaacagacaattttatcaatatcagAACAAATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGgtaggcaaactcctgtttttcagtttctgtaatatgaatgattgcttggt Alignment from Pairagon -----ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG gcttcatgagagatgtgtgctgacacccgccctgtctttcctttgaacagacaattttatcaatatcagAACAAATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGgtaggcaaactcctgtttttcagtttctgtaatatgaatgattgcttggt Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG gcttcatgagagatgtgtgctgacacccgccctgtctttcctttgaacagacaattttatcaatatcagaacaaATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGgtaggcaaactcctgtttttcagtttctgtaatatgaatgattgcttggt Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG gcttcatgagagatgtgtgctgacacccgccctgtctttcctttgaacagacaattttatcaatatcagaacaaATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGgtaggcaaactcctgtttttcagtttctgtaatatgaatgattgcttggt Alignment from GeneWise --CAGATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG gcttcatgagagatgtgtgctgacacccgccctgtctttcctttgaacagacaattttatcaatatcagAACAAATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTGgtaggcaaactcctgtttttcagtttctgtaatatgaatgattgcttggt #### Tm7sf2_ID1412_8 --> 2 - 1 Original Alignment ttATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCT---------------------------------------------g aaggcttggaattctaccccaccatctgcaagcctgtcctttctccccagttATTGGTTATTATATCTTCCGAGGGGCCAACTCCGAGAAAAACACATTCAGGCAGAATCCTTCCGAGCCCAGTGTGGCTGAGGATGCTGTGGAAATAATCCGTGTACCTAAGCTCATTGTGGAGggtcagttgggtttgtgagaggttatgcctaactgaactcgagggcctgta Alignment from CESAR ttATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTg aaggcttggaattctaccccaccatctgcaagcctgtcctttctccccagttATTGGTTATTATATCTTCCGAGGGGCCAACTCCGAGAAAAACACATTCAGGCAGAATCCTTCCGAGCCCAGTGTGGCTgaggatgctgtggaaataatccgtgtacctaagctcattgtggagggtcagttgggtttgtgagaggttatgcctaactgaactcgagggcctgta Alignment from Spaln_aa2Genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTG GCTG aaggcttggaattctaccccaccatctgcaagcctgtcctttctccccagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCCGAGAAAAACACATTCAGGCAGAATCCTTCCGAGCCCAGTGTGgctgaggatgctgtggaaataatccgtgtacctaagctcattgtggagggtcagTTGGgtttgtgagaggttatgcctaactgaactcgagggcctgta Alignment from Spaln_nt2Genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG-------- aaggcttggaattctaccccaccatctgcaagcctgtcctttctccccagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCCGAGAAAAACACATTCAGGCAGAATCCTTCCGAGCCCAGTGTGGCTGAGGATGCTgtggaaataatccgtgtacctaagctcattgtggagggtcagttgggtttgtgagaggttatgcctaactgaactcgagggcctgta Alignment from Pairagon TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG---------------------------------------------------------- aaggcttggaattctaccccaccatctgcaagcctgtcctttctccccagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCCGAGAAAAACACATTCAGGCAGAATCCTTCCGAGCCCAGTGTGGCTGAGGATGCTGTGGAAATAATCCGTGTACCTAAGCTCATTGTGGAGGGTCAGTTGGGTTTgtgagaggttatgcctaactgaactcgagggcctgta Alignment from Exonerate_protein2genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG aaggcttggaattctaccccaccatctgcaagcctgtcctttctccccagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCCGAGAAAAACACATTCAGGCAGAATCCTTCCGAGCCCAGTGTGGCTGaggatgctgtggaaataatccgtgtacctaagctcattgtggagggtcagttgggtttgtgagaggttatgcctaactgaactcgagggcctgta Alignment from Exonerate_coding2genome TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCTG aaggcttggaattctaccccaccatctgcaagcctgtcctttctccccagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCCGAGAAAAACACATTCAGGCAGAATCCTTCCGAGCCCAGTGTGGCTGaggatgctgtggaaataatccgtgtacctaagctcattgtggagggtcagttgggtttgtgagaggttatgcctaactgaactcgagggcctgta Alignment from GeneWise TTATTGGTTACTACATCTTCCGAGGGGCCAACTCCCAGAAAAACACATTCAGGAAGAATCCTTCTGACCCCAGCGTGGCT---------------------G aaggcttggaattctaccccaccatctgcaagcctgtcctttctccccagTTATTGGTTATTATATCTTCCGAGGGGCCAACTCCGAGAAAAACACATTCAGGCAGAATCCTTCCGAGCCCAGTGTGGCTGAGGATGCTGTGGAAATAATCCgtgtacctaagctcattgtggagggtcagttgggtttgtgagaggttatgcctaactgaactcgagggcctgta #### Tm7sf2_ID1417_3 --> 0 - 1 Original Alignment GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAAT---------g tatgcggtgaaatgatcctcggcctgttctgcatgtcttatgctctgaagGTAGCTGAAGGCTTGGAACTGAAGGACAAGAGTCGCTTGCGTTACCCTATTAATGCAGATTTTggtgagtgaggtacccccccctccatgaatcacagttaaagtgtagattcc Alignment from CESAR GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAAT---------g tatgcggtgaaatgatcctcggcctgttctgcatgtcttatgctctgaagGTAGCTGAAGGCTTGGAACTGAAGGACAAGAGTCGCTTGCGTTACCCTATTAATGCAGATTTTggtgagtgaggtacccccccctccatgaatcacagttaaagtgtagattcc Alignment from Spaln_aa2Genome GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAAT---------G tatgcggtgaaatgatcctcggcctgttctgcatgtcttatgctctgaagGTAGCTGAAGGCTTGGAACTGAAGGACAAGAGTCGCTTGCGTTACCCTATTAATGCAGATTTTGgtgagtgaggtacccccccctccatgaatcacagttaaagtgtagattcc Alignment from Spaln_nt2Genome GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG--------- tatgcggtgaaatgatcctcggcctgttctgcatgtcttatgctctgaagGTAGCTGAAGGCTTGGAACTGAAGGACAAGAGTCGCTTGCGTTACCCTATTAATGCAGATTTTGgtgagtgaggtacccccccctccatgaatcacagttaaagtgtagattcc Alignment from Pairagon GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG--------- tatgcggtgaaatgatcctcggcctgttctgcatgtcttatgctctgaagGTAGCTGAAGGCTTGGAACTGAAGGACAAGAGTCGCTTGCGTTACCCTATTAATGCAGATTTTGgtgagtgaggtacccccccctccatgaatcacagttaaagtgtagattcc Alignment from Exonerate_protein2genome GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG tatgcggtgaaatgatcctcggcctgttctgcatgtcttatgctctgaagGTAGCTGAAGGCTTGGAACTGAAGGACAAGAGTCGCTTGCGTTACCCTATTAATGcagattttggtgagtgaggtacccccccctccatgaatcacagttaaagtgtagattcc Alignment from Exonerate_coding2genome GTGGCCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAATG tatgcggtgaaatgatcctcggcctgttctgcatgtcttatgctctgaagGTAGCTGAAGGCTTGGAACTGAAGGACAAGAGTCGCTTGCGTTACCCTATTAATGcagattttggtgagtgaggtacccccccctccatgaatcacagttaaagtgtagattcc Alignment from GeneWise CCGAAGGCCTGGAACTGAAGGACAAGAGTCGCCTGCGCTACCCTATTAAT---------G tatgcggtgaaatgatcctcggcctgttctgcatgtcttatgctctgaaggtagCTGAAGGCTTGGAACTGAAGGACAAGAGTCGCTTGCGTTACCCTATTAATGCAGATTTTGgtgagtgaggtacccccccctccatgaatcacagttaaagtgtagattcc #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment c---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccatccttcctacgcctgtcaccacctgttgtgtgtatgtgtcattttagcCTGTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacgagcttaagtgtgcaca Alignment from CESAR c---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccatccttcctacgcctgtcaccacctgttgtgtgtatgtgtcattttagcCTGTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacgagcttaagtgtgcaca Alignment from Spaln_aa2Genome C---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccatccttcctacgcctgtcaccacctgttgtgtgtatgtgtcattttagCCTGTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacgagcttaagtgtgcaca Alignment from Spaln_nt2Genome CTGCTCTGAA---GCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccatccttcctacgcctgtcaccacctgttgtgtgtatgtgtcattttagCCTGTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacgagcttaagtgtgcaca Alignment from Pairagon C---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccatccttcctacgcctgtcaccacctgttgtgtgtatgtgtcattttagCCTGTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacgagcttaagtgtgcaca Alignment from Exonerate_protein2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccatccttcctacgcctgtcaccacctgttgtgtgtatgtgtcattttagcctGTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacgagcttaagtgtgcaca Alignment from Exonerate_coding2genome CTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccatccttcctacgcctgtcaccacctgttgtgtgtatgtgtcattttagcctGTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacgagcttaagtgtgcaca Alignment from GeneWise -AGCTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA ccatccttcctacgcctgtcaccacctgttgtgtgtatgtgtcattttagCCTGTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacgagcttaagtgtgcaca #### Trim8_ID9936_5 --> 1 - 1 Original Alignment gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAA------------------------g taagatgagaggcctcatcctccggaacttctgcttcttttaaattttaggACCCAGACCTGCACAAGCAGCAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTGAATGAGGTAACCAAGAAGGAGAAGCAGTTGCGGAAAATGCTTGAAGGAAACCTGCCTCCAGACTACCAGggtaatttgttaagggcccctgtacagggtgatggccagtcagcacccact Alignment from CESAR gACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAA------------------------g taaggtgagaggcctcatcctccggaacttctgcttcttttaaattttaggACCCAGACCTGCACAAGCAGCAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTGAATGAGGTAACCAAGAAGGAGAAGCAGTTGCGGAAAATGCTTGAAGGAAACCTGCCTCCAGACTACCAGggtaatttgttaagggcccctgtacagggtgatggccagtcagcacccact Alignment from Spaln_aa2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAGGTCCCTT taagatgagaggcctcatcctccggaacttctgcttcttttaaattttagGACCCAGACCTGCACAAGCAGCAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTGAATGAGGTAACCAAGAAGGAGAAGCAGTTGCGGAAAATGCTTGAAGGAAACCTgcctccagactaccagggtaatttgttaagggcccctgtacagggtgatggccagtcagcacccact Alignment from Spaln_nt2Genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG------- taagatgagaggcctcatcctccggaacttctgcttcttttaaattttagGACCCAGACCTGCACAAGCAGCAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTGAATGAGGTAACCAAGAAGGAGAAGCAGTTGCGGAAAATGCTTGAAGGAAACCTgcctccagactaccagggtaatttgttaagggcccctgtacagggtgatggccagtcagcacccact Alignment from Pairagon GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG------------------------ taagatgagaggcctcatcctccggaacttctgcttcttttaaattttagGACCCAGACCTGCACAAGCAGCAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTGAATGAGGTAACCAAGAAGGAGAAGCAGTTGCGGAAAATGCTTGAAGGAAACCTGCCTCCAGACTACCAGGgtaatttgttaagggcccctgtacagggtgatggccagtcagcacccact Alignment from Exonerate_protein2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagatgagaggcctcatcctccggaacttctgcttcttttaaattttagGACCCAGACCTGCACAAGCAGCAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTGAATGAGGTAACCAAGAAGGAGAAGCAGTTGCGGAAAATGCTTGAAGgaaacctgcctccagactaccagggtaatttgttaagggcccctgtacagggtgatggccagtcagcacccact Alignment from Exonerate_coding2genome GACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAG taagatgagaggcctcatcctccggaacttctgcttcttttaaattttagGACCCAGACCTGCACAAGCAGCAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTGAATGAGGTAACCAAGAAGGAGAAGCAGTTGCGGAAAATGCTTGAAGgaaacctgcctccagactaccagggtaatttgttaagggcccctgtacagggtgatggccagtcagcacccact Alignment from GeneWise ------AACACCAAGTCTGTGAAAATCCTAATGGAC---AGGACCCAGACCTGCACGGGCAGCAGCCTTTCTCCCCCTAAGATCGGCCACCTGAACTCCAAGCTGTTCCTGAACGAGGTGGCCAAGAAGGAGAAGCAGTTGCGGAAGATGCTAGAAGGT---------------------- taagatgagAGGCCTCATCCTCCGGAACTTCTGCTTCTTTTAAATTTTAGGACCCAGACCTGCACAAGCAGCAGCCTCTCTCCCCCTAAGATTGGCCACCTGAACTCCAATCTGTTTCTGAATGAGGTAACCAAGAAGGAGAAGCAGTTGCGGAAAATGCTTGAAGGAAACCTGCCTCCAGACTACCAGGgtaatttgttaagggcccctgtacagggtgatggccagtcagcacccact #### Trmt112_ID1862_3 --> 0 - 0 Original Alignment ---------------------------------------------TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aggtctgggtgctcgtgtgcgtcctgatcactgtgcattttttcgtgcagAACTACTATTACTACTTACCTTGGGTCCACAGTCCTCTTCGAGTGTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGACGAGACGTTTTTGAGGGAGATGCATCATGTGTTGCTTGAGgtgggtaacctggatcattgtgcccaggcctccatggttaccagcgttca Alignment from CESAR ctttgccttctattgaaaagtgaagcccaagtgtgagacacaatactaccc Alignment from Spaln_aa2Genome -------------TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aggtctgggtgctcgtgtgcgtcctgatcactgtgcattttttcgtgcagaactactattactacttaccttgggtccacagTCCTCTTCGAGTGTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGACGAGACGTTTTTGAGGGAGATGCATCATGTGTTGCTTGAGgtgggtaacctggatcattgtgcccaggcctccatggttaccagcgttca Alignment from Spaln_nt2Genome T--TAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aggtctgggtgctcgtgtgcgtcctgatcactgtgcattttttcgtgcagaactactattactacttaccttgggtccacagtcctcttcgagTGTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGACGAGACGTTTTTGAGGGAGATGCATCATGTGTTGCTTGAGgtgggtaacctggatcattgtgcccaggcctccatggttaccagcgttca Alignment from Pairagon -------------TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aggtctgggtgctcgtgtgcgtcctgatcactgtgcattttttcgtgcagaactactattactacttaccttgggtccacagTCCTCTTCGAGTGTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGACGAGACGTTTTTGAGGGAGATGCATCATGTGTTGCTTGAGgtgggtaacctggatcattgtgcccaggcctccatggttaccagcgttca Alignment from Exonerate_protein2genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aggtctgggtgctcgtgtgcgtcctgatcactgtgcattttttcgtgcagaactactattactacttaccttgggtccacagtcctcttcgagtgTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGACGAGACGTTTTTGAGGGAGATGCATCATGTGTTGCTTGAGgtgggtaacctggatcattgtgcccaggcctccatggttaccagcgttca Alignment from Exonerate_coding2genome TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAG aggtctgggtgctcgtgtgcgtcctgatcactgtgcattttttcgtgcagaactactattactacttaccttgggtccacagtcctcttcgagtgTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGACGAGACGTTTTTGAGGGAGATGCATCATGTGTTGCTTGAGgtgggtaacctggatcattgtgcccaggcctccatggttaccagcgttca Alignment from GeneWise -------------TTAAACTTGGCCGAGGTACCCAAAGAGCCGACTGAAGGCTATGAGCACGACGAGACATTTTTGAGGAAGATGCACCACGTGTTGCTTGAGGTT----------------------------------------------- aggtctgggtgctcgtgtgcgtcctgatcactgtgcattttttcgtgcagaactactattactacttaccttgggtccacagTCCTCTTCGAGTGTTGAACTTAGCCGCAGTGCCCAGAGAGCCAACTGAGGGCTATGAGCATGACGAGACGTTTTTGAGGGAGATGCATCATGTGTTGCTTGAGGTGGGTAACCTGGATCATTGTGCCCAGGCCTCCATGGTTACCAGCGTTCA #### Trpt1_ID1982_5 --> 2 - 1 Original Alignment gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAg gctatgcaggggaagagagagctctctttttgttcttcgtcctctaacaggc------CCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCGCTAGCCCTCACAggtaaggattgccccacagagctgaatcactcatgcctgtcatagaacgtg Alignment from CESAR gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAg cccatagctatgcaggggaagagagctttttgttcttcgtcctctaacaggc------CCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCGCTAGCCCTCACAggtaaggattgccccacagagctgaatcactcatgcctgtcatagaacgtg Alignment from Spaln_aa2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG gctatgcaggggaagagagagctctctttttgttcttcgtcctctaacagGC------CCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCGCTAGCCCTCACAGgtaaggattgccccacagagctgaatcactcatgcctgtcatagaacgtg Alignment from Spaln_nt2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG gctatgcaggggaagagagagctctctttttgttcttcgtcctctaacagGC------CCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCGCTAGCCCTCACAGgtaaggattgccccacagagctgaatcactcatgcctgtcatagaacgtg Alignment from Pairagon GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG gctatgcaggggaagagagagctctctttttgttcttcgtcctctaacagGC------CCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCGCTAGCCCTCACAGgtaaggattgccccacagagctgaatcactcatgcctgtcatagaacgtg Alignment from Exonerate_protein2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG gctatgcaggggaagagagagctctctttttgttcttcgtcctctaacagGC------CCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCGCTAGCCCTCACAGgtaaggattgccccacagagctgaatcactcatgcctgtcatagaacgtg Alignment from Exonerate_coding2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG gctatgcaggggaagagagagctctctttttgttcttcgtcctctaacagGC------CCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCGCTAGCCCTCACAGgtaaggattgccccacagagctgaatcactcatgcctgtcatagaacgtg Alignment from GeneWise GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG gctatgcaggggaagagagagctctctttttgttcttcgtcctctaacagGC------CCAAATTGTGGAGTGACAGTGTTTATTGATGGGCCGCTAGCCCTCACAGgtaaggattgccccacagagctgaatcactcatgcctgtcatagaacgtg #### Ubxn1_ID2438_2 --> 1 - 2 Original Alignment g---GAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATtg tttgtataaggtataaggaagggcattacctctgctccctccttctccaggCTGGAGAAGGCTCTTGCCCTCACAGGGAACCATGGCATCGAGGCTGCGATGGCTtggtgagcagacaatctgcacattcggtgggtaatggagccgatgcacaagg Alignment from CESAR g---GAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATtg tttgtataaggtataaggaagggcattacctctgctccctccttctccaggCTGGAGAAGGCTCTTGCCCTCACAGGGAACCATGGCATCGAGGCTGCGATGGCTtggtgagcagacaatctgcacattcggtgggtaatggagccgatgcacaagg Alignment from Spaln_aa2Genome GGAGAAGGCTCTG---GCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tttgtataaggtataaggaagggcattacctctgctccctccttctccagGCTGGAGAAGGCTCTTGCCCTCACAGGGAACCATGGCATCGAGGCTGCGATGGCTTGgtgagcagacaatctgcacattcggtgggtaatggagccgatgcacaagg Alignment from Spaln_nt2Genome GGAGAAGGCT---CTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tttgtataaggtataaggaagggcattacctctgctccctccttctccagGCTGGAGAAGGCTCTTGCCCTCACAGGGAACCATGGCATCGAGGCTGCGATGGCTTGgtgagcagacaatctgcacattcggtgggtaatggagccgatgcacaagg Alignment from Pairagon ---GGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tttgtataaggtataaggaagggcattacctctgctccctccttctccagGCTGGAGAAGGCTCTTGCCCTCACAGGGAACCATGGCATCGAGGCTGCGATGGCTTGgtgagcagacaatctgcacattcggtgggtaatggagccgatgcacaagg Alignment from Exonerate_protein2genome G---GAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tttgtataaggtataaggaagggcattacctctgctccctccttctccagGCTGGAGAAGGCTCTTGCCCTCACAGGGAACCATGGCATCGAGGCTGCGATGGCTTGgtgagcagacaatctgcacattcggtgggtaatggagccgatgcacaagg Alignment from Exonerate_coding2genome G---GAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tttgtataaggtataaggaagggcattacctctgctccctccttctccagGCTGGAGAAGGCTCTTGCCCTCACAGGGAACCATGGCATCGAGGCTGCGATGGCTTGgtgagcagacaatctgcacattcggtgggtaatggagccgatgcacaagg Alignment from GeneWise AAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG tttgtataaggtataaggaagggcattacctctgctccctccttctccaggctggagAAGGCTCTTGCCCTCACAGGGAACCATGGCATCGAGGCTGCGATGGCTTGgtgagcagacaatctgcacattcggtgggtaatggagccgatgcacaagg #### Unc93b1_ID211_2 --> 0 - 1 Original Alignment TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGg ttcgatggggagccaccaacatggacctaccactgttccttctgctctag---------CTTGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCACTACTACTGCCGTAAGCGTCTTGGGGTAGTTAAGAATGCATTGGCAGCCAGCACAGGTGTCACTCTGACTTATGGCATCTTCCTGggtgggtacgacatagtaactctgcttgccctcttcctctacaacttcaaa Alignment from CESAR TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGg tcttggagtttcgatggggagccaccctaccactgttccttctgctctag---------CTTGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCACTACTACTGCCGTAAGCGTCTTGGGGTAGTTAAGAATGCATTGGCAGCCAGCACAGGTGTCACTCTGACTTATGGCATCTTCCTGggtgggtacgacatagtaactctgcttgccctcttcctctacaacttcaaa Alignment from Spaln_aa2Genome TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGG ttcgatggggagccaccaacatggacctaccactgttccttctgctctag---------CTTGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCACTACTACTGCCGTAAGCGTCTTGGGGTAGTTAAGAATGCATTGGCAGCCAGCACAGGTGTCACTCTGACTTATGGCATCTTCCTGGgtgggtacgacatagtaactctgcttgccctcttcctctacaacttcaaa Alignment from Spaln_nt2Genome GAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGG ttcgatggggagccaccaacatggacctaccactgttccttctgctctag---CTTGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCACTACTACTGCCGTAAGCGTCTTGGGGTAGTTAAGAATGCATTGGCAGCCAGCACAGGTGTCACTCTGACTTATGGCATCTTCCTGGgtgggtacgacatagtaactctgcttgccctcttcctctacaacttcaaa Alignment from Pairagon CTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGG ttcgatggggagccaccaacatggacctaccactgttccttctgctctagCTTGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCACTACTACTGCCGTAAGCGTCTTGGGGTAGTTAAGAATGCATTGGCAGCCAGCACAGGTGTCACTCTGACTTATGGCATCTTCCTGGgtgggtacgacatagtaactctgcttgccctcttcctctacaacttcaaa Alignment from Exonerate_protein2genome CTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGG ttcgatggggagccaccaacatggacctaccactgttccttctgctctagCTTGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCACTACTACTGCCGTAAGCGTCTTGGGGTAGTTAAGAATGCATTGGCAGCCAGCACAGGTGTCACTCTGACTTATGGCATCTTCCTGGgtgggtacgacatagtaactctgcttgccctcttcctctacaacttcaaa Alignment from Exonerate_coding2genome CTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGG ttcgatggggagccaccaacatggacctaccactgttccttctgctctagCTTGTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCACTACTACTGCCGTAAGCGTCTTGGGGTAGTTAAGAATGCATTGGCAGCCAGCACAGGTGTCACTCTGACTTATGGCATCTTCCTGGgtgggtacgacatagtaactctgcttgccctcttcctctacaacttcaaa Alignment from GeneWise TTGGACGAACTCGTGGGTGCGTACCCCAACTACAATGAGGAGGAGGAAGAGCGCCGCTACTACCGCCGCAAGCGCCTCGGAGTGGTCAAGAACGTGCTGGCGGCCAGCACGGGTGTCACCCTTACTTACGGCGTCTACCTGG ttcgatggggagccaccaacatggacctaccactgttccttctgctctagCTT---------GTGGGTGCATACCCCAACTACAATGAGGAGGAGGAAGAGCGCCACTACTACTGCCGTAAGCGTCTTGGGGTAGTTAAGAATGCATTGGCAGCCAGCACAGGTGTCACTCTGACTTATGGCATCTTCCTGGgtgggtacgacatagtaactctgcttgccctcttcctctacaacttcaaa #### Vldlr_ID5811_10 --> 2 - 2 Original Alignment gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag cagaatttgcccacaagcaaaaacaaatgacactcaccttaaccacacaggcAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAACTGAGGAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTGTTTTGGGCT------------------------aggtaagttccatctgcatccctaatcatacggagaaccgtgcaccaagggt Alignment from CESAR gcAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCag cagaatttgcccacaagcaaaaacaaatgacactcaccttaaccacacaggcAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAACTGAGGAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTGTTTTGGGCT------------------------aggtaagttccatctgcatccctaatcatacggagaaccgtgcaccaagggt Alignment from Spaln_aa2Genome cagaatttgcccacaagcaaaaacaaatgacactcaccttaaccacacaggcaaagagccaagtctgatctttactaatcgaagagacatcaggaagattggcctagagagaaaggaatatatccaacttgtagagcaactgaggaacacagtggctcttgatgcagacattgcagctcagaagctgttttgggctaggtaagttccatctgcatccctaatcatacggagaaccgtgcaccaagggt Alignment from Spaln_nt2Genome cagaatttgcccacaagcaaaaacaaatgacactcaccttaaccacacaggcaaagagccaagtctgatctttactaatcgaagagacatcaggaagattggcctagagagaaaggaatatatccaacttgtagagcaactgaggaacacagtggctcttgatgcagacattgcagctcagaagctgttttgggctaggtaagttccatctgcatccctaatcatacggagaaccgtgcaccaagggt Alignment from Pairagon GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGATCTCAGCCAGAAGGCCATCTTCAG cagaatttgcccacaagcaaaaacaaatgacactcaccttaaccacacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAACTGAGGAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTGTTTTGGGCT------------------------AGgtaagttccatctgcatccctaatcatacggagaaccgtgcaccaagggt Alignment from Exonerate_protein2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGA cagaatttgcccacaagcaaaaacaaatgacactcaccttaaccacacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAACTGAGGAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTGTTTTGGGCTAGgtaagttccatctgcatccctaatcatacggagaaccgtgcaccaagggt Alignment from Exonerate_coding2genome GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGA cagaatttgcccacaagcaaaaacaaatgacactcaccttaaccacacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAACTGAGGAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTGTTTTGGGCTAGgtaagttccatctgcatccctaatcatacggagaaccgtgcaccaagggt Alignment from GeneWise GCAAAGAGCCGAGTCTGATCTTCACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATACATCCAACTTGTAGAGCAACTAAGGAACACGGTGGCTCTCGATGCGGACATTGCAGCTCAGAAGCTGTTTTGGGCTGA cagaatttgcccacaagcaaaaacaaatgacactcaccttaaccacacagGCAAAGAGCCAAGTCTGATCTTTACTAATCGAAGAGACATCAGGAAGATTGGCCTAGAGAGAAAGGAATATATCCAACTTGTAGAGCAACTGAGGAACACAGTGGCTCTTGATGCAGACATTGCAGCTCAGAAGCTGTTTTGGGCTAGgtaagttccatctgcatccctaatcatacggagaaccgtgcaccaagggt #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tgaggagaaagtagccgaatctcccttcctctctttgttctctctgccagac---------AGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgaggcttatgacttttgtctatgtgtgcatgtatgaaccagttctagg Alignment from CESAR acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcacaagtgtgaggagaaagtagccttcctctctttgttctctctgccagac---------AGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgaggcttatgacttttgtctatgtgtgcatgtatgaaccagttctagg Alignment from Spaln_aa2Genome CCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tgaggagaaagtagccgaatctcccttcctctctttgttctctctgccagacagCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgaggcttatgacttttgtctatgtgtgcatgtatgaaccagttctagg Alignment from Spaln_nt2Genome AAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tgaggagaaagtagccgaatctcccttcctctctttgttctctctgccagACAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgaggcttatgacttttgtctatgtgtgcatgtatgaaccagttctagg Alignment from Pairagon TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tgaggagaaagtagccgaatctcccttcctctctttgttctctctgccag------------ACAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgaggcttatgacttttgtctatgtgtgcatgtatgaaccagttctagg Alignment from Exonerate_protein2genome TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tgaggagaaagtagccgaatctcccttcctctctttgtTCTCTCTGCCAGACAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgaggcttatgacttttgtctatgtgtgcatgtatgaaccagttctagg Alignment from Exonerate_coding2genome TCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tgaggagaaagtagccgaatctcccttcctctctttgtTCTCTCTGCCAGACAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgaggcttatgacttttgtctatgtgtgcatgtatgaaccagttctagg Alignment from GeneWise AAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG tgaggagaaagtagccgaatctcccttcctctctttgttctctctgccagACAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgaggcttatgacttttgtctatgtgtgcatgtatgaaccagttctagg #### Vps13a_ID4057_66 --> 0 - 1 Original Alignment GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAg cttaacagaattatataataatataactaagtgttttctgtgtcctacagGGTTTTGTAAGTGGTATTACGGGCATTGTTTCAAAGCCAATT---ggtaactagcgtcaccttggctgttacatatttcacaagtgtcattctcat Alignment from CESAR GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAg cttaacagaattatataataatataactaagtgttttctgtgtcctacagGGTTTTGTAAGTGGTATTACGGGCATTGTTTCAAAGCCAATT---ggtaactagcgtcaccttggctgttacatatttcacaagtgtcattctcat Alignment from Spaln_aa2Genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATT- cttaacagaattatataataatataactaagtgttttctgtgtcctacagGGTTTTGTAAGTGGTATTACGGGCATTGTTTCAAAGCCAATTGgtaactagcgtcaccttggctgttacatatttcacaagtgtcattctcat Alignment from Spaln_nt2Genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG cttaacagaattatataataatataactaagtgttttctgtgtcctacagGGTTTTGTAAGTGGTATTACGGGCATTGTTTCAAAGCCAATT---Ggtaactagcgtcaccttggctgttacatatttcacaagtgtcattctcat Alignment from Pairagon GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG cttaacagaattatataataatataactaagtgttttctgtgtcctacagGGTTTTGTAAGTGGTATTACGGGCATTGTTTCAAAGCCAATT---Ggtaactagcgtcaccttggctgttacatatttcacaagtgtcattctcat Alignment from Exonerate_protein2genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG cttaacagaattatataataatataactaagtgttttctgtgtcctacagGGTTTTGTAAGTGGTATTACGGGCATTGTTTCAAAGCCAATT---Ggtaactagcgtcaccttggctgttacatatttcacaagtgtcattctcat Alignment from Exonerate_coding2genome GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATTAAAG cttaacagaattatataataatataactaagtgttttctgtgtcctacagGGTTTTGTAAGTGGTATTACGGGCATTGTTTCAAAGCCAATT---Ggtaactagcgtcaccttggctgttacatatttcacaagtgtcattctcat Alignment from GeneWise GGTTTTGTAAGTGGCATTACAGGGATTGTTACAAAGCCAATT- cttaacagaattatataataatataactaagtgttttctgtgtcctacagGGTTTTGTAAGTGGTATTACGGGCATTGTTTCAAAGCCAATTGgtaactagcgtcaccttggctgttacatatttcacaagtgtcattctcat #### Vps13a_ID4058_65 --> 2 - 0 Original Alignment gt---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT catcagtgatgactgggccattgtctgattgtgtattttgtattttccaggtCCTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAAGGCATCACTCGAGGGGGAAAAGGTCTGGTCTCTgtaacgttcccctgggtttgggaccgcagcagcagaatcgttttgagcta Alignment from CESAR gt---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT catcagtgatgactgggccattgtctgattgtgtattttgtattttccaggtCCTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAAGGCATCACTCGAGGGGGAAAAGGTCTGGTCTCTgtaacgttcccctgggtttgggaccgcagcagcagaatcgttttgagcta Alignment from Spaln_aa2Genome GTGGGCTAGCTGGT---GCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT catcagtgatgactgggccattgtctgattgtgtattttgtattttccagGTCCTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAAGGCATCACTCGAGGGGGAAAAGGTCTGGTCTCTgtaacgttcccctgggtttgggaccgcagcagcagaatcgttttgagcta Alignment from Spaln_nt2Genome GTGGGCTAGCT---GGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT catcagtgatgactgggccattgtctgattgtgtattttgtattttccagGTCCTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAAGGCATCACTCGAGGGGGAAAAGGTCTGGTCTCTgtaacgttcccctgggtttgggaccgcagcagcagaatcgttttgagcta Alignment from Pairagon G---TGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT catcagtgatgactgggccattgtctgattgtgtattttgtattttccagGTCCTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAAGGCATCACTCGAGGGGGAAAAGGTCTGGTCTCTgtaacgttcccctgggtttgggaccgcagcagcagaatcgttttgagcta Alignment from Exonerate_protein2genome GT---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT catcagtgatgactgggccattgtctgattgtgtattttgtattttccagGTCCTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAAGGCATCACTCGAGGGGGAAAAGGTCTGGTCTCTgtaacgttcccctgggtttgggaccgcagcagcagaatcgttttgagcta Alignment from Exonerate_coding2genome GT---GGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT catcagtgatgactgggccattgtctgattgtgtattttgtattttccagGTCCTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAAGGCATCACTCGAGGGGGAAAAGGTCTGGTCTCTgtaacgttcccctgggtttgggaccgcagcagcagaatcgttttgagcta Alignment from GeneWise --GGTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCGGCCATGACCATGGATGAAGACTACCAGCAGAAGAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGCCTTCGAGAGGGCATCACTCGAGGAGGAAAAGGCCTTGTCTCT catcagtgatgactgggccattgtctgattgtgtattttgtattttccagGTCCTGGGCTAGCTGGTGCTGCCTCCAAAATCACCAGTGCTATGGCTAAAGGAGTAGCAGCCATGACCATGGATGAAGACTACCAGCAGAAAAGGAGAGAAGCAATGAATAAGCAGCCTGCTGGACTACGAGAAGGCATCACTCGAGGGGGAAAAGGTCTGGTCTCTgtaacgttcccctgggtttgggaccgcagcagcagaatcgttttgagcta #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gtggtctgtcaataagtttccccatgtttatttattatgttactctttagctTTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAACTATCGTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACGTTTCTGAAATTAAAATT---ggtgagtagtacatctaataaaatgtatttagaattgactaaatgtaaaag Alignment from CESAR ctTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gtggtctgtcaataagtttccccatgtttatttattatgttactctttagctTTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAACTATCGTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACGTTTCTGAAATTAAAATT---ggtgagtagtacatctaataaaatgtatttagaattgactaaatgtaaaag Alignment from Spaln_aa2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATT- gtggtctgtcaataagtttccccatgtttatttattatgttactctttagCTTTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAACTATCGTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACGTTTCTGAAATTAAAATTGgtgagtagtacatctaataaaatgtatttagaattgactaaatgtaaaag Alignment from Spaln_nt2Genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG- gtggtctgtcaataagtttccccatgtttatttattatgttactctttagCTTTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAACTATCGTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACGTTTCTGAAATTAAAATTGGTGAgtagtacatctaataaaatgtatttagaattgactaaatgtaaaag Alignment from Pairagon CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTG gtggtctgtcaataagtttccccatgtttatttattatgttactctttagCTTTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAACTATCGTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACGTTTCTGAAATTAAAATTGgtgagtagtacatctaataaaatgtatttagaattgactaaatgtaaaag Alignment from Exonerate_protein2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtggtctgtcaataagtttccccatgtttatttattatgttactctttagCTTTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAACTATCGTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACGTTTCTGAAATTAAAATT---Ggtgagtagtacatctaataaaatgtatttagaattgactaaatgtaaaag Alignment from Exonerate_coding2genome CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG gtggtctgtcaataagtttccccatgtttatttattatgttactctttagCTTTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAACTATCGTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACGTTTCTGAAATTAAAATT---Ggtgagtagtacatctaataaaatgtatttagaattgactaaatgtaaaag Alignment from GeneWise CTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTG gtggtctgtcaataagtttccccatgtttatttattatgttactctttagCTTTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAACTATCGTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACGTTTCTGAAATTAAAATTGgtgagtagtacatctaataaaatgtatttagaattgactaaatgtaaaag #### Vwce_ID2948_3 --> 2 - 1 Original Alignment cc---------CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAg tactcatctatccttgcaactaaagtctaaatacatgtttctttttttagccCAACAGTACCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCAggtgagtgtggtgaaagagagcagaccatgatcaccaaaataatatgaaga Alignment from CESAR cc---------CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAg aactcatctatccttgcaactaaagtctaaatacatgtttctttttttagccCAACAGTACCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCAggtgagtgtggtgaaagagagcagaccatgatcaccaaaataatatgaaga Alignment from Spaln_aa2Genome CC---------CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tactcatctatccttgcaactaaagtctaaatacatgtttctttttttagCCCAACAGTACCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCAGgtgagtgtggtgaaagagagcagaccatgatcaccaaaataatatgaaga Alignment from Spaln_nt2Genome CT-----GCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tactcatctatccttgcaactaaagtctaaatacatgtttctttttttagCCCAACAGTACCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCAGgtgagtgtggtgaaagagagcagaccatgatcaccaaaataatatgaaga Alignment from Pairagon ---------------------------------------------------------GCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG TACTCATCTATCCTTGCAACTAAAGTCTAAATACATGTTTCTTTTTTTAGCCCAACAGTACCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCAGgtgagtgtggtgaaagagagcagaccatgatcaccaaaataatatgaaga Alignment from Exonerate_protein2genome CTGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tactcatctatccttgcaactaaagtctaaatacatgtttctttttttagcccaaCAGTACCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCAGgtgagtgtggtgaaagagagcagaccatgatcaccaaaataatatgaaga Alignment from Exonerate_coding2genome CTGCCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tactcatctatccttgcaactaaagtctaaatacatgtttctttttttagcccaaCAGTACCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCAGgtgagtgtggtgaaagagagcagaccatgatcaccaaaataatatgaaga Alignment from GeneWise --------CCCCTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG tactcatctatccttgcaactaaagtctaaatacatgtttctttttttagCCCAACAGTACCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTTTGTTCATGCCAGGATGGAGAGCAAGGGGCCACGTGCCCAGgtgagtgtggtgaaagagagcagaccatgatcaccaaaataatatgaaga #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment gg---------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA cagttggtccattttgtcgccccagtatatgtctgttgtcccccatccagggCGGCCCTTGGTGAACCTTCAGCGGAAACATACAGCTAATTTCGCACCATCGGGACAGCCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACCGGCAGTGAGACCCAAgtaattaggctatggctcggctagagctatagaatgcctgacaatcccga Alignment from CESAR gg---------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA cagttggtccattttgtcgccccagtatatgtctgttgtcccccatccagggCGGCCCTTGGTGAACCTTCAGCGGAAACATACAGCTAATTTCGCACCATCGGGACAGCCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACCGGCAGTGAGACCCAAgtaattaggctatggctcggctagagctatagaatgcctgacaatcccga Alignment from Spaln_aa2Genome GGGTGAACCTTCAG---------CGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA cagttggtccattttgtcgccccagtatatgtctgttgtcccccatccagGGCGGCCCTTGGTGAACCTTCAGCGGAAACATACAGCTAATTTCGCACCATCGGGACAGCCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACCGGCAGTGAGACCCAAgtaattaggctatggctcggctagagctatagaatgcctgacaatcccga Alignment from Spaln_nt2Genome GG---------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA cagttggtccattttgtcgccccagtatatgtctgttgtcccccatccagGGCGGCCCTTGGTGAACCTTCAGCGGAAACATACAGCTAATTTCGCACCATCGGGACAGCCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACCGGCAGTGAGACCCAAgtaattaggctatggctcggctagagctatagaatgcctgacaatcccga Alignment from Pairagon ------------------------------------------------------------GGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA CAGTTGGTCCATTTTGTCGCCCCAGTATATGTCTGTTGTCCCCCATCCAGGGCGGCCCTTGGTGAACCTTCAGCGGAAACATACAGCTAATTTCGCACCATCGGGACAGCCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACCGGCAGTGAGACCCAAgtaattaggctatggctcggctagagctatagaatgcctgacaatcccga Alignment from Exonerate_protein2genome GG---------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA cagttggtccattttgtcgccccagtatatgtctgttgtcccccatccagGGCGGCCCTTGGTGAACCTTCAGCGGAAACATACAGCTAATTTCGCACCATCGGGACAGCCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACCGGCAGTGAGACCCAAgtaattaggctatggctcggctagagctatagaatgcctgacaatcccga Alignment from Exonerate_coding2genome GG---------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA cagttggtccattttgtcgccccagtatatgtctgttgtcccccatccagGGCGGCCCTTGGTGAACCTTCAGCGGAAACATACAGCTAATTTCGCACCATCGGGACAGCCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACCGGCAGTGAGACCCAAgtaattaggctatggctcggctagagctatagaatgcctgacaatcccga Alignment from GeneWise -------------------------------------------------------------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA CAGTTGGTCCATTTTGTCGCCCCAGTATATGTCTGTTGTCCCCCATCCAGGGCGGCCCTTGGTGAACCTTCAGCGGAAACATACAGCTAATTTCGCACCATCGGGACAGCCACGGCGGGAGCAGGCAGTGAATGCTCTGTGCTGGGGCACCGGCAGTGAGACCCAAgtaattaggctatggctcggctagagctatagaatgcctgacaatcccga #### Wdr74_ID2318_8 --> 1 - 1 Original Alignment tTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAg aaatgggatccagaaatcacactgatccttcctgtccctttgaccaccagtTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGAT---------ggtaagtagaccacttaacccatggatttcttgagaagggaagcaaatgag Alignment from CESAR tTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAg aaatgggatccagaaatcacactgatccttcctgtccctttgaccaccagtTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGAT---------ggtaagtagaccacttaacccatggatttcttgagaagggaagcaaatgag Alignment from Spaln_aa2Genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGAT- aaatgggatccagaaatcacactgatccttcctgtccctttgaccaccagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATGgtaagtagaccacttaacccatggatttcttgagaagggaagcaaatgag Alignment from Spaln_nt2Genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgggatccagaaatcacactgatccttcctgtccctttgaccaccagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGAT---------Ggtaagtagaccacttaacccatggatttcttgagaagggaagcaaatgag Alignment from Pairagon TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgggatccagaaatcacactgatccttcctgtccctttgaccaccagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGAT---------Ggtaagtagaccacttaacccatggatttcttgagaagggaagcaaatgag Alignment from Exonerate_protein2genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgggatccagaaatcacactgatccttcctgtccctttgaccaccagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGAT---------Ggtaagtagaccacttaacccatggatttcttgagaagggaagcaaatgag Alignment from Exonerate_coding2genome TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGATTTTCGGCAAG aaatgggatccagaaatcacactgatccttcctgtccctttgaccaccagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGAT---------Ggtaagtagaccacttaacccatggatttcttgagaagggaagcaaatgag Alignment from GeneWise TTCCGTCATCGTAGGGAACACTCATGGGCAGCTGGCAGAAATTGAT- aaatgggatccagaaatcacactgatccttcctgtccctttgaccaccagTTCTGTCATCGTAGGGAACACTCATGGGCAACTGGCAGAAATTGATGgtaagtagaccacttaacccatggatttcttgagaagggaagcaaatgag #### Wdr74_ID2320_10 --> 0 - 0 Original Alignment GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gtatctagaacagggactatatacacttcaaacttctattttttatttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGAT---------gtgagggaacgcaactactaattaagtgtgagggatttcgagacagagct Alignment from CESAR GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gtatctagaacagggactatatacacttcaaacttctattttttatttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGAT---------gtgagggaacgcaactactaattaagtgtgagggatttcga Alignment from Spaln_aa2Genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGAT gtatctagaacagggactatatacacttcaaacttctattttttatttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATgtgagggaacgcaactactaattaagtgtgagggatttcgagacagagct Alignment from Spaln_nt2Genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGAT gtatctagaacagggactatatacacttcaaacttctattttttatttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATgtgagggaacgcaactactaattaagtgtgagggatttcgagacagagct Alignment from Pairagon GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGAT gtatctagaacagggactatatacacttcaaacttctattttttatttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATgtgagggaacgcaactactaattaagtgtgagggatttcgagacagagct Alignment from Exonerate_protein2genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGAT gtatctagaacagggactatatacacttcaaacttctattttttatttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATgtgagggaacgcaactactaattaagtgtgagggatttcgagacagagct Alignment from Exonerate_coding2genome GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGAT gtatctagaacagggactatatacacttcaaacttctattttttatttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGGGATgtgagggaacgcaactactaattaagtgtgagggatttcgagacagagct Alignment from GeneWise GTTTATCTCAAGTCTCAACTGAACTGCCTTCTCCTGTCAGGCCGGGATAACTGGGAG gtatctagaacagggactatatacacttcaaacttctattttttatttagGTTTATCTCAAGTGTCAGCTTAACTGCCTTCTCTTGTCAGGCCGG---------GATgtgagggaacgcaactactaattaagtgtgagggatttcgagacagagct #### Yif1a_ID830_2 --> 2 - 0 Original Alignment gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG aggcagtcatcagggttcttattcctgctgagccatgtctgtctcctcaggt---AAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGACACAAGTGGTGGTTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAATAACCTGCTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGgtaaaacctgaacccctgggaagggggaggtaggtttgtagccaggattt Alignment from CESAR gtTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG aaaaggcagtcatcagggttcttattgctgagccatgtctgtctcctcaggt---AAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGACACAAGTGGTGGTTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAATAACCTGCTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGgtaaaacctgaacccctgggaagggggaggtaggtttgtagccaggattt Alignment from Spaln_aa2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG aggcagtcatcagggttcttattcctgctgagccatgtctgtctcctcagGT---AAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGACACAAGTGGTGGTTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAATAACCTGCTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGgtaaaacctgaacccctgggaagggggaggtaggtttgtagccaggattt Alignment from Spaln_nt2Genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG aggcagtcatcagggttcttattcctgctgagccatgtctgtctcctcagGT---AAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGACACAAGTGGTGGTTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAATAACCTGCTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGgtaaaacctgaacccctgggaagggggaggtaggtttgtagccaggattt Alignment from Pairagon GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG aggcagtcatcagggttcttattcctgctgagccatgtctgtctcctcagGT---AAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGACACAAGTGGTGGTTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAATAACCTGCTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGgtaaaacctgaacccctgggaagggggaggtaggtttgtagccaggattt Alignment from Exonerate_protein2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG aggcagtcatcagggttcttattcctgctgagccatgtctgtctcctcagGT---AAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGACACAAGTGGTGGTTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAATAACCTGCTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGgtaaaacctgaacccctgggaagggggaggtaggtttgtagccaggattt Alignment from Exonerate_coding2genome GTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG aggcagtcatcagggttcttattcctgctgagccatgtctgtctcctcagGT---AAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGACACAAGTGGTGGTTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAATAACCTGCTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGgtaaaacctgaacccctgggaagggggaggtaggtttgtagccaggattt Alignment from GeneWise GCTTACCATTCGGCATATGGAGTCCACGGTTCCAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTCGATGATACAAGTGGTGGTTATTCCAGCCAACTGGGCGGATACCCAGCCCCAGGAGCTGATGTAGCCTTCAGTGTCAACAACCTGCTTGGAGACCCAGTGGCCAATATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAG gggttcttattcctgctga------------GCCATGTCTGTCTCCTCAGGTAAGCATAGGACCCGGGCAGCTCCAGACCCTCCTCCACTCTTTGATGACACAAGTGGTGGTTATTCCAGCCAACTGGGTGGGTACCCAGCCCCGGGAGCTGATGTAGCCTTCAGTGTCAATAACCTGCTTGGAGACCCACTGGCCAACATGGCAATGGCCTATGGCACCTCCATAGCATCCCAAGGGAAGGACATAGTGCACAAAGAGgtaaaacctgaacccctgggaagggggaggtaggtttgtagccaggattt #### Yif1a_ID831_3 --> 0 - 0 Original Alignment CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG tccaatcttacaggagggaatttcttatctcttgtttttccgtcaatcag---------TTTGTGTCCGTGAATAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGCTATTAGTCTTCCCATACACACATCAAgtaatgtcattcagagtgctggccccctacttgtgaataacctgactgat Alignment from CESAR CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG gacataggatccaatcttacaggagtatctcttgtttttccgtcaatcag---------TTTGTGTCCGTGAATAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGCTATTAGTCTTCCCATACACACATCAAgtaatgtcattcagagtgctggccccctacttgtgaataacctgactgat Alignment from Spaln_aa2Genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG tccaatcttacaggagggaatttcttatctcttgtttttccgtcaatcag---------TTTGTGTCCGTGAATAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGCTATTAGTCTTCCCATACACACATCAAgtaatgtcattcagagtgctggccccctacttgtgaataacctgactgat Alignment from Spaln_nt2Genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG tccaatcttacaggagggaatttcttatctcttgtttttccgtcaatcag---------TTTGTGTCCGTGAATAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGCTATTAGTCTTCCCATACACACATCAAgtaatgtcattcagagtgctggccccctacttgtgaataacctgactgat Alignment from Pairagon CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG tccaatcttacaggagggaatttcttatctcttgtttttccgtcaatcag---------TTTGTGTCCGTGAATAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGCTATTAGTCTTCCCATACACACATCAAgtaatgtcattcagagtgctggccccctacttgtgaataacctgactgat Alignment from Exonerate_protein2genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG tccaatcttacaggagggaatttcttatctcttgtttttccGTCAATCAGTTTGTGTCCGTGAATAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGCTATTAGTCTTCCCATACACACATCAAgtaatgtcattcagagtgctggccccctacttgtgaataacctgactgat Alignment from Exonerate_coding2genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG tccaatcttacaggagggaatttcttatctcttgtttttccGTCAATCAGTTTGTGTCCGTGAATAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGCTATTAGTCTTCCCATACACACATCAAgtaatgtcattcagagtgctggccccctacttgtgaataacctgactgat Alignment from GeneWise TTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG tccaatcttacaggagggaatttcttatctcttgtttttccgtcaatcagTTTGTGTCCGTGAATAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGCTATTAGTCTTCCCATACACACATCAAgtaatgtcattcagagtgctggccccctacttgtgaataacctgactgat #### Zdhhc16_ID8346_3 --> 0 - 2 Original Alignment GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag tactataattgtggtcaaggtgacttgtgaccacatccctcccttcgcag---------GACATTAGCACTGTATCCATCTGCAAGAAATGTATTTATCCCAAGCCGGCACGCACACACCACTGCAGCATCTGTAACaggtgaggctgagctttgctctgtgcctcactcattttgggccaaactgacc Alignment from CESAR GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATag gacatcttctactataattgtggtctgtgaccacatccctcccttcgcag---------GACATTAGCACTGTATCCATCTGCAAGAAATGTATTTATCCCAAGCCGGCACGCACACACCACTGCAGCATCTGTAACaggtgaggctgagctttgctctgtgcctcactcattttgggccaaactgacc Alignment from Spaln_aa2Genome AATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG tactataattgtggtcaaggtgacttgtgaccacatccctcccttcgcag---GACATTAGCACTGTATCCATCTGCAAGAAATGTATTTATCCCAAGCCGGCACGCACACACCACTGCAGCATCTGTAACAGgtgaggctgagctttgctctgtgcctcactcattttgggccaaactgacc Alignment from Spaln_nt2Genome -ACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG tactataattgtggtcaaggtgacttgtgaccacatccctcccttcgcagGACATTAGCACTGTATCCATCTGCAAGAAATGTATTTATCCCAAGCCGGCACGCACACACCACTGCAGCATCTGTAACAGgtgaggctgagctttgctctgtgcctcactcattttgggccaaactgacc Alignment from Pairagon GGCAGGAATGACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG tactataattgtggtcaaggtgacttgtgaccacatccctcccttcgcag---------GACATTAGCACTGTATCCATCTGCAAGAAATGTATTTATCCCAAGCCGGCACGCACACACCACTGCAGCATCTGTAACAGgtgaggctgagctttgctctgtgcctcactcattttgggccaaactgacc Alignment from Exonerate_protein2genome GACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG tactataattgtggtcaaggtgacttgtgaccacatccctcccttcgcagGACATTAGCACTGTATCCATCTGCAAGAAATGTATTTATCCCAAGCCGGCACGCACACACCACTGCAGCATCTGTAACAGgtgaggctgagctttgctctgtgcctcactcattttgggccaaactgacc Alignment from Exonerate_coding2genome GACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG tactataattgtggtcaaggtgacttgtgaccacatccctcccttcgcagGACATTAGCACTGTATCCATCTGCAAGAAATGTATTTATCCCAAGCCGGCACGCACACACCACTGCAGCATCTGTAACAGgtgaggctgagctttgctctgtgcctcactcattttgggccaaactgacc Alignment from GeneWise GACATTGCTACTGTCTCCATCTGTAAGAAGTGCATTTATCCCAAGCCAGCCCGAACACACCACTGCAGCATCTGTAATAG tactataattgtggtcaaggtgacttgtgaccacatccctcccttcgcagGACATTAGCACTGTATCCATCTGCAAGAAATGTATTTATCCCAAGCCGGCACGCACACACCACTGCAGCATCTGTAACAGgtgaggctgagctttgctctgtgcctcactcattttgggccaaactgacc #### Zdhhc16_ID8350_7 --> 1 - 0 Original Alignment tTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- agatttactcatgacttccaggttctaacctgccactgccactcctgaagtTCTGTGGCCCTGGCTCTGGGTGCCCTAACCATGTGGCACGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGTCCgtgagtgctgaagggactgcatgattgagtggagaagtgatcacaggtat Alignment from CESAR tTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- agatttactcatgacttccaggttctaacctgccactgccactcctgaagtTCTGTGGCCCTGGCTCTGGGTGCCCTAACCATGTGGCACGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGTCCgtgagtgctgaagggactgcatgattgagtggagaagtgatcacaggtat Alignment from Spaln_aa2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- agatttactcatgacttccaggttctaacctgccactgccactcctgaagTTCTGTGGCCCTGGCTCTGGGTGCCCTAACCATGTGGCACGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGTCCgtgagtgctgaagggactgcatgattgagtggagaagtgatcacaggtat Alignment from Spaln_nt2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- agatttactcatgacttccaggttctaacctgccactgccactcctgaagTTCTGTGGCCCTGGCTCTGGGTGCCCTAACCATGTGGCACGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGTCCgtgagtgctgaagggactgcatgattgagtggagaagtgatcacaggtat Alignment from Pairagon TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- agatttactcatgacttccaggttctaacctgccactgccactcctgaagTTCTGTGGCCCTGGCTCTGGGTGCCCTAACCATGTGGCACGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGTCCgtgagtgctgaagggactgcatgattgagtggagaagtgatcacaggtat Alignment from Exonerate_protein2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- agatttactcatgacttccaggttctaacctgccactgccactcctgaagTTCTGTGGCCCTGGCTCTGGGTGCCCTAACCATGTGGCACGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGTCCgtgagtgctgaagggactgcatgattgagtggagaagtgatcacaggtat Alignment from Exonerate_coding2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG--- agatttactcatgacttccaggttctaacctgccactgccactcctgaagTTCTGTGGCCCTGGCTCTGGGTGCCCTAACCATGTGGCACGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGTCCgtgagtgctgaagggactgcatgattgagtggagaagtgatcacaggtat Alignment from GeneWise TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGTG agatttactcatgacttccaggttctaacctgccactgccactcctgaagTTCTGTGGCCCTGGCTCTGGGTGCCCTAACCATGTGGCACGCTGTCCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGTCCgtgagtgctgaagggactgcatgattgagtggagaagtgatcacaggtat #### Zfand5_ID4879_2 --> 2 - 2 Original Alignment ggACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAag agtaagaaacaaataagcatcatgtttctctaattcttccttttaatcagga---------GGTTCTAACAGTCCCACCTCAGATGCTGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAaggtatgagggaatatttctcagattttctagactaagctattttcgctatg Alignment from CESAR ggACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAag ttttctgtaagtaagaaacaaataattctctaattcttccttttaatcagga---------GGTTCTAACAGTCCCACCTCAGATGCTGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAaggtatgagggaatatttctcagattttctagactaagctattttcgctatg Alignment from Spaln_aa2Genome GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agtaagaaacaaataagcatcatgtttctctaattcttccttttaatcagGA---------GGTTCTAACAGTCCCACCTCAGATGCTGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtatgagggaatatttctcagattttctagactaagctattttcgctatg Alignment from Spaln_nt2Genome GTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agtaagaaacaaataagcatcatgtttctctaattcttccttttaatcagGAGGTTCTAACAGTCCCACCTCAGATGCTGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtatgagggaatatttctcagattttctagactaagctattttcgctatg Alignment from Pairagon GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agtaagaaacaaataagcatcatgtttctctaattcttccttttaatcag---------GAGGTTCTAACAGTCCCACCTCAGATGCTGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtatgagggaatatttctcagattttctagactaagctattttcgctatg Alignment from Exonerate_protein2genome GTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agtaagaaacaaataagcatcatgtttctctaattcttccttttaatcagGAGGTTCTAACAGTCCCACCTCAGATGCTGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtatgagggaatatttctcagattttctagactaagctattttcgctatg Alignment from Exonerate_coding2genome GTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agtaagaaacaaataagcatcatgtttctctaattcttccttttaatcagGAGGTTCTAACAGTCCCACCTCAGATGCTGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtatgagggaatatttctcagattttctagactaagctattttcgctatg Alignment from GeneWise GGACAGCTAGTGGTTCCAACAGTCCTACCTCAGATTCTGCATCTGTACAGAGAGCAGATGCTGGTTTAAACAACTGTGAAGGTGCTGCTGGCAGCACATCTGAAAAATCAAG agtaagaaacaaataagcatcatgtttctctaattcttccttttaatcagGA---------GGTTCTAACAGTCCCACCTCAGATGCTGCATCAGTACAGAAACCAGATGCTGGTTTGAATAACTGTGAGGGTGCTGCTGGCAGTACATCTGAAAAATCAAGgtatgagggaatatttctcagattttctagactaagctattttcgctatg #### Zfyve27_ID8429_11 --> 0 - 1 Original Alignment CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACA---------g gtggcctgcattgtccaagggtcacaccgcaattttttaaacctttcaagCGAAGTTGCAGCAACTGTGCAAACAGCTTCTGCTCACGTTGTTGCTCATTCAAGGTCCCCCGCTCCTCCATGGGAGCCACACTTGTCAAAggtaactgaggaagtctgtggataggactggggccgctgagagcaagagag Alignment from CESAR CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACA---------g gtggcctgcattgtccaagggtcacaccgcaattttttaaacctttcaagCGAAGTTGCAGCAACTGTGCAAACAGCTTCTGCTCACGTTGTTGCTCATTCAAGGTCCCCCGCTCCTCCATGGGAGCCACACTTGTCAAAggtaactgaggaagtctgtggataggactggggccgctgagagcaagagag Alignment from Spaln_aa2Genome CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACA---------G gtggcctgcattgtccaagggtcacaccgcaattttttaaacctttcaagCGAAGTTGCAGCAACTGTGCAAACAGCTTCTGCTCACGTTGTTGCTCATTCAAGGTCCCCCGCTCCTCCATGGGAGCCACACTTGTCAAAGgtaactgaggaagtctgtggataggactggggccgctgagagcaagagag Alignment from Spaln_nt2Genome CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACA---------G gtggcctgcattgtccaagggtcacaccgcaattttttaaacctttcaagCGAAGTTGCAGCAACTGTGCAAACAGCTTCTGCTCACGTTGTTGCTCATTCAAGGTCCCCCGCTCCTCCATGGGAGCCACACTTGTCAAAGgtaactgaggaagtctgtggataggactggggccgctgagagcaagagag Alignment from Pairagon CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCAC---------AG gtggcctgcattgtccaagggtcacaccgcaattttttaaacctttcaagCGAAGTTGCAGCAACTGTGCAAACAGCTTCTGCTCACGTTGTTGCTCATTCAAGGTCCCCCGCTCCTCCATGGGAGCCACACTTGTCAAAGgtaactgaggaagtctgtggataggactggggccgctgagagcaagagag Alignment from Exonerate_protein2genome CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAGCTCCTGAAG gtggcctgcattgtccaagggtcacaccgcaattttttaaacctttcaagCGAAGTTGCAGCAACTGTGCAAACAGCTTCTGCTCACGTTGTTGCTCATTCAAGGTCCCCCGCTCCTCCATGGGAGCCACACTTGTCAAAGgtaactgaggaagtctgtggataggactggggccgctgagagcaagagag Alignment from Exonerate_coding2genome CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACAGCTCCTGAAG gtggcctgcattgtccaagggtcacaccgcaattttttaaacctttcaagCGAAGTTGCAGCAACTGTGCAAACAGCTTCTGCTCACGTTGTTGCTCATTCAAGGTCCCCCGCTCCTCCATGGGAGCCACACTTGTCAAAGgtaactgaggaagtctgtggataggactggggccgctgagagcaagagag Alignment from GeneWise CGGAGCTGCAGCAACTGTGGGAACAGCTTCTGCTCGCGGTGTTGCTCCTTCAAGGTGCCCAGGTCCTCTATGGGAGCCACA---------G gtggcctgcattgtccaagggtcacaccgcaattttttaaacctttcaagCGAAGTTGCAGCAACTGTGCAAACAGCTTCTGCTCACGTTGTTGCTCATTCAAGGTCCCCCGCTCCTCCATGGGAGCCACACTTGTCAAAGgtaactgaggaagtctgtggataggactggggccgctgagagcaagagag #### Zp1_ID3069_3 --> 0 - 1 Original Alignment GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg acaatgccacactcagctgctccctctttcttttatttttttgtttctag------CGATTCCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAACAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTTCACCTCATGCTTTTGCCCTACACCCTATCCCTGACCGTACATTGGCTGGGTCTGGCCAT------CTCACTATGTTGTACCCAGAACAAAGCTTCATCCATCCAACTCCTGCTCCACCATCCCTAGGACCTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAACTAACTGAGCTGGACTCTGTAggtgtgtgaacctcatctgtgtacagactaagtactatgacctgtgagctg Alignment from CESAR GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAg agtgtcacaatgccacactcagctgctttcttttatttttttgtttctag------CGATTCCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAACAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTTCACCTCATGCTTTTGCCCTACACCCTATCCCTGACCGTACATTGGCTGGGTCTGGCCAT------CTCACTATGTTGTACCCAGAACAAAGCTTCATCCATCCAACTCCTGCTCCACCATCCCTAGGACCTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAACTAACTGAGCTGGACTCTGTAggtgtgtgaacctcatctgtgtacagactaagtactatgacctgtgagctg Alignment from Spaln_aa2Genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG acaatgccacactcagctgctccctctttcttttatttttttgtttctag------CGATTCCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAACAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTTCACCTCATGCTTTTGCCCTACACCCTATCCCTGACCGTACATTGGCTGGGTCTGGCCAT------CTCACTATGTTGTACCCAGAACAAAGCTTCATCCATCCAACTCCTGCTCCACCATCCCTAGGACCTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAACTAACTGAGCTGGACTCTGTAGgtgtgtgaacctcatctgtgtacagactaagtactatgacctgtgagctg Alignment from Spaln_nt2Genome CGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG acaatgccacactcagctgctccctctttcttttatttttttgtttctagCGATTCCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAACAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTTCACCTCATGCTTTTGCCCTACACCCTATCCCTGACCGTACATTGGCTGGGTCTGGCCA------TCTCACTATGTTGTACCCAGAACAAAGCTTCATCCATCCAACTCCTGCTCCACCATCCCTAGGACCTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAACTAACTGAGCTGGACTCTGTAGgtgtgtgaacctcatctgtgtacagactaagtactatgacctgtgagctg Alignment from Pairagon GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG acaatgccacactcagctgctccctctttcttttatttttttgtttctag------CGATTCCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAACAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTTCACCTCATGCTTTTGCCCTACACCCTATCCCTGACCGTACATTGGCTGGGTCTGGCCA------TCTCACTATGTTGTACCCAGAACAAAGCTTCATCCATCCAACTCCTGCTCCACCATCCCTAGGACCTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAACTAACTGAGCTGGACTCTGTAGgtgtgtgaacctcatctgtgtacagactaagtactatgacctgtgagctg Alignment from Exonerate_protein2genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG acaatgccacactcagctgctccctctttcttttatttttttgtTTCTAGCGATTCCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAACAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTTCACCTCATGCTTTTGCCCTACACCCTATCCCTGACCGTACATTGGCTGGGTCTGGCCAT------CTCACTATGTTGTACCCAGAACAAAGCTTCATCCATCCAACTCCTGCTCCACCATCCCTAGGACCTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAACTAACTGAGCTGGACTCTGTAGgtgtgtgaacctcatctgtgtacagactaagtactatgacctgtgagctg Alignment from Exonerate_coding2genome GATGGGCGGTTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG acaatgccacactcagctgctccctctttcttttatttttttgtTTCTAGCGATTCCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAACAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTTCACCTCATGCTTTTGCCCTACACCCTATCCCTGACCGTACATTGGCTGGGTCTGGCCAT------CTCACTATGTTGTACCCAGAACAAAGCTTCATCCATCCAACTCCTGCTCCACCATCCCTAGGACCTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAACTAACTGAGCTGGACTCTGTAGgtgtgtgaacctcatctgtgtacagactaagtactatgacctgtgagctg Alignment from GeneWise ---TTCCACCTGAGGGTGTTCATACAAGCCGTCCTACCCAATGGCCGTGTGGATATAGCACAAGATGTCACACTGATCTGTCCCAAACCAGACCACACCGTGACTCCGGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTACACCTCATGCTTTTGCCCTTCACCCCATCCCTGACCACACCTTGGCTGGGTCTGGCCACACTGGTCTCACTACGTTGTACCCAGAACAGAGCTTCATCCATCCAACTCCTGCTCCGCCATCCCTAGGACCTGGACCTGCTGGATCCACTGTACCTCACTCCCAATGGGGCACGCTGGAGCCCTGGGAATTGACTGAGCTGGATTCTGTAG acaatgccacactcagctgctccctctttcttttatttttttgtttctagCGATTCCACCTGAGAGTTTTCATACAAGCTGTCTTACCAAACAGCCATGTGGATATAGCACAAGATGTCACACTGATCTGTCCTAAACCAGATCACACTGTGACTCCAGACCCCTACCTGGCTCCACCCACCACACCTGAGCCTTTTTCACCTCATGCTTTTGCCCTACACCCTATCCCTGACCGTACATTGGCTGGGTCTGGCCAT------CTCACTATGTTGTACCCAGAACAAAGCTTCATCCATCCAACTCCTGCTCCACCATCCCTAGGACCTGGACCTACTGGATCTACTGTACCCCACTCACAATGGGGTACACTTGAGCCCTGGGAACTAACTGAGCTGGACTCTGTAGgtgtgtgaacctcatctgtgtacagactaagtactatgacctgtgagctg ####