#### 1700055N04Rik_ID226_4 --> 0 - 1 Original Alignment CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg aggctgtccttactcgtctggtttaacttctcttcctcttcttttttcag------AAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGCCTGGTACTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGCTACAggtaggtggggttccaagtttcactagtctgatccgtcttcctaaggacac Alignment from CESAR CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAg taatgaaggctgtccttactcgtctacttctcttcctcttcttttttcag------AAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGCCTGGTACTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGCTACAggtaggtggggttccaagtttcactagtctgatccgtcttcctaaggacac Alignment from Spaln_aa2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG aggctgtccttactcgtctggtttaacttctcttcctcttcttttttcag------AAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGCCTGGTACTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaggtggggttccaagtttcactagtctgatccgtcttcctaaggacac Alignment from Spaln_nt2Genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG aggctgtccttactcgtctggtttaacttctcttcctcttcttttttcag------AAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGCCTGGTACTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaggtggggttccaagtttcactagtctgatccgtcttcctaaggacac Alignment from Pairagon CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG aggctgtccttactcgtctggtttaacttctcttcctcttcttttttcag------AAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGCCTGGTACTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaggtggggttccaagtttcactagtctgatccgtcttcctaaggacac Alignment from Exonerate_protein2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG aggctgtccttactcgtctggtttaacttctcttcctcttctttTTTCAGAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGCCTGGTACTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaggtggggttccaagtttcactagtctgatccgtcttcctaaggacac Alignment from Exonerate_coding2genome CTCACCAAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG aggctgtccttactcgtctggtttaacttctcttcctcttctttTTTCAGAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGCCTGGTACTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaggtggggttccaagtttcactagtctgatccgtcttcctaaggacac Alignment from GeneWise AAGCTGAGCACAGCTTTCATCCGGAAAGAGCCCTTTGGCCTGGTGCTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCTTTAGTGGGGGCCATTGCTGCAG aggctgtccttactcgtctggtttaacttctcttcctcttcttttttcagAAACTGAGCACAGCCTTCATCTGGAAAGAACCCTTTGGCCTGGTACTTATCATTGCACCCTGGAATTATCCTGTGAACTTGATGATCATACCCTTGGTGGGGGCTATTGCTACAGgtaggtggggttccaagtttcactagtctgatccgtcttcctaaggacac #### 1700055N04Rik_ID227_5 --> 2 - 0 Original Alignment gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gtgtgcaagcatcagtctcccctcaccagggatcttcctgtctctcacaggaAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTG------gtaagttgggctatcactgatctgttaagcagcctggtacacccacaccc Alignment from CESAR gaAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCAG gtgtgcaagcatcagtctcccctcaccagggatcttcctgtctctcacaggaAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTG------gtaagttgggctatcactgatctgttaagcagcctggtacaccc Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTG gtgtgcaagcatcagtctcccctcaccagggatcttcctgtctctcacagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTGgtaagttgggctatcactgatctgttaagcagcctggtacacccacaccc Alignment from Spaln_nt2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTGGACCA gtgtgcaagcatcagtctcccctcaccagggatcttcctgtctctcacagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTGGTAA-gttgggctatcactgatctgttaagcagcctggtacacccacacc Alignment from Pairagon GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTG gtgtgcaagcatcagtctcccctcaccagggatcttcctgtctctcacagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTGgtaagttgggctatcactgatctgttaagcagcctggtacacccacaccc Alignment from Exonerate_protein2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTG gtgtgcaagcatcagtctcccctcaccagggatcttcctgtctctcacagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTGgtaagttgggctatcactgatctgttaagcagcctggtacacccacaccc Alignment from Exonerate_coding2genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTG gtgtgcaagcatcagtctcccctcaccagggatcttcctgtctctcacagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTGgtaagttgggctatcactgatctgttaagcagcctggtacacccacaccc Alignment from GeneWise GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTACCCCAGTATCTG gtgtgcaagcatcagtctcccctcaccagggatcttcctgtctctcacagGAAACTGTGTGGTGTTAAAGCCATCAGAAATTAGCAGGAACACAGAGAAGGTGCTGGCAGAGCTTCTACCTCAGTATCTGgtaagttgggctatcactgatctgttaagcagcctggtacacccacaccc #### 1700055N04Rik_ID228_6 --> 0 - 1 Original Alignment AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg aggtcgtcctgctaaagagcttgccccttccttctgcctccctcctttagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTC---ggtatgtagtagagccctgtcgaggacctggggtggagcgatataatagaa Alignment from CESAR AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg aggtcgtcctgctaaagagcttgccccttccttctgcctccctcctttagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTC---ggtatgtagtagagccctgtcgaggacctggggtggagcgatataatagaa Alignment from Spaln_aa2Genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aggtcgtcctgctaaagagcttgccccttccttctgcctccctcctttagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTC---Ggtatgtagtagagccctgtcgaggacctggggtggagcgatataatagaa Alignment from Spaln_nt2Genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCAC-AG aggtcgtcctgctaaagagcttgccccttccttctgcctccctcctttagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCGGTATgtagtagagccctgtcgaggacctggggtggagcgatataatagaa Alignment from Pairagon AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCA aggtcgtcctgctaaagagcttgccccttccttctgcctccctcctttagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCGgtatgtagtagagccctgtcgaggacctggggtggagcgatataatagaa Alignment from Exonerate_protein2genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aggtcgtcctgctaaagagcttgccccttccttctgcctccctcctttagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTC---Ggtatgtagtagagccctgtcgaggacctggggtggagcgatataatagaa Alignment from Exonerate_coding2genome AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG aggtcgtcctgctaaagagcttgccccttccttctgcctccctcctttagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTC---Ggtatgtagtagagccctgtcgaggacctggggtggagcgatataatagaa Alignment from GeneWise AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCGGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTC- aggtcgtcctgctaaagagcttgccccttccttctgcctccctcctttagAGCTGCTTTGCTGTGATGCTGGGAGGACCTGAGGAGACTGGGCAACTGCTAGAACACAAATTTGACTATATCTTTTTCGgtatgtagtagagccctgtcgaggacctggggtggagcgatataatagaa #### 1810009A15Rik_ID2453_2 --> 0 - 2 Original Alignment GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGG---------gc aggtgggcggccaaggccttacatgcactgtctttcttgccttcccacagGAGCTAAAGAAGAAGTTGTCTAAGCGCCGCAGGGTATTAAGTAAGGATTGGCAAAGGAAACGCCAGGTGGTTGGGGCTGTGATAGACGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGAACAATCAGCgcgtacagacaggttggacccacttcttaccagatattcagagcctcccaga Alignment from CESAR GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGG---------gc aggtgggcggccaaggccttacatgcactgtctttcttgccttcccacagGAGCTAAAGAAGAAGTTGTCTAAGCGCCGCAGGGTATTAAGTAAGGATTGGCAAAGGAAACGCCAGGTGGTTGGGGCTGTGATAGACGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGAACAATCAGCgcgtacagacaggttggacccacttcttaccagatattcagagcctcccaga Alignment from Spaln_aa2Genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGCG-------- aggtgggcggccaaggccttacatgcactgtctttcttgccttcccacagGAGCTAAAGAAGAAGTTGTCTAAGCGCCGCAGGGTATTAAGTAAGGATTGGCAAAGGAAACGCCAGGTGGTTGGGGCTGTGATAGACGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGAACAATCAGCGCgtacagacaggttggacccacttcttaccagatattcagagcctcccaga Alignment from Spaln_nt2Genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGG---------GC aggtgggcggccaaggccttacatgcactgtctttcttgccttcccacagGAGCTAAAGAAGAAGTTGTCTAAGCGCCGCAGGGTATTAAGTAAGGATTGGCAAAGGAAACGCCAGGTGGTTGGGGCTGTGATAGACGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGAACAATCAGCGCgtacagacaggttggacccacttcttaccagatattcagagcctcccaga Alignment from Pairagon GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGG---------GC aggtgggcggccaaggccttacatgcactgtctttcttgccttcccacagGAGCTAAAGAAGAAGTTGTCTAAGCGCCGCAGGGTATTAAGTAAGGATTGGCAAAGGAAACGCCAGGTGGTTGGGGCTGTGATAGACGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGAACAATCAGCGCgtacagacaggttggacccacttcttaccagatattcagagcctcccaga Alignment from Exonerate_protein2genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGC aggtgggcggccaaggccttacatgcactgtctttcttgccttcccacagGAGCTAAAGAAGAAGTTGTCTAAGCGCCGCAGGGTATTAAGTAAGGATTGGCAAAGGAAACGCCAGGTGGTTGGGGCTGTGATAGACGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCgaacaatcagcgcgtacagacaggttggacccacttcttaccagatattcagagcctcccaga Alignment from Exonerate_coding2genome GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGC aggtgggcggccaaggccttacatgcactgtctttcttgccttcccacagGAGCTAAAGAAGAAGTTGTCTAAGCGCCGCAGGGTATTAAGTAAGGATTGGCAAAGGAAACGCCAGGTGGTTGGGGCTGTGATAGACGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCgaacaatcagcgcgtacagacaggttggacccacttcttaccagatattcagagcctcccaga Alignment from GeneWise GAGCTGAAGAAGAAGTTGTTCAAGCGCCGCAGGGTATTAAGCAGGGATCGGCGACGGAAACGCCAGGTGGTCGGGGCTGTGATAGACGAAGGGCTGACTACGAAGCACCACCTCAAGAAGCGGGCGTCCAGT-- aggtgggcggccaaggccttacatgcactgtctttcttgccttcccacagGAGCTAAAGAAGAAGTTGTCTAAGCGCCGCAGGGTATTAAGTAAGGATTGGCAAAGGAAACGCCAGGTGGTTGGGGCTGTGATAGACGAAGGGTTGACTATGAAGCACCACCTCAAGAAGCGAACAATCAGCGCgtacagacaggttggacccacttcttaccagatattcagagcctcccaga #### 2010012O05Rik_ID10004_3 --> 0 - 2 Original Alignment ---AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACca tgtgtgcataaggaagagtaccagtctgttacactgataacttttcacagTTAAGTTTAAGGAAGATGGCAATAATAACAACACACCTACAGTACcagtaagaatgcttggtcaagtgggaggtggatggaggtgggagggggatgg Alignment from CESAR ---AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACca tgtgtgcataaggaagagtaccagtctgttacactgataacttttcacagTTAAGTTTAAGGAAGATGGCAATAATAACAACACACCTACAGTACcagtaagaatgcttggtcaagtgggaggtggatggaggtgggagggggatgg Alignment from Spaln_aa2Genome ---AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA tgtgtgcataaggaagagtaccagtctgttacactgataacttttcacagTTAAGTTTAAGGAAGATGGCAATAATAACAACACACCTACAGTACCAgtaagaatgcttggtcaagtgggaggtggatggaggtgggagggggatgg Alignment from Spaln_nt2Genome AGTTTAAGG---AAGATGGCAATAATAACAACACACCTTCAGTACCA tgtgtgcataaggaagagtaccagtctgttacactgataacttttcacagTTAAGTTTAAGGAAGATGGCAATAATAACAACACACCTACAGTACCAgtaagaatgcttggtcaagtgggaggtggatggaggtgggagggggatgg Alignment from Pairagon ---AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA tgtgtgcataaggaagagtaccagtctgttacactgataacttttcacagTTAAGTTTAAGGAAGATGGCAATAATAACAACACACCTACAGTACCAgtaagaatgcttggtcaagtgggaggtggatggaggtgggagggggatgg Alignment from Exonerate_protein2genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCA tgtgtgcataaggaagagtaccagtctgttacactgataacttttcacagttaAGTTTAAGGAAGATGGCAATAATAACAACACACCTACAGTACCAgtaagaatgcttggtcaagtgggaggtggatggaggtgggagggggatgg Alignment from Exonerate_coding2genome AGTTTAAGGAAGATGGCAATAATAACAACACACCTTCAGTACCAGCAAGAAGCTATTCAGAAGAA tgtgtgcataaggaagagtaccagtctgttacactgataacttttcacagttaAGTTTAAGGAAGATGGCAATAATAACAACACACCTACAGTACCAGTAAGAATGCTTGGTCAAGTGggaggtggatggaggtgggagggggatgg Alignment from GeneWise tgtgtgcataaggaagagtaccagtctgttacactgataacttttcacagttaagtttaaggaagatggcaataataacaacacacctacagtaccagtaagaatgcttggtcaagtgggaggtggatggaggtgggagggggatgg #### AI846148_ID2143_3 --> 2 - 1 Original Alignment ag------TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg aagtgggagctgtggaggctcccaagctatgcttacattgtgccttctagagGACTACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTTTTAGATTCTGAGGACAACCCATCTCTTCCCACTAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAACTGCCCagtgaggcaccaaggaagctttggtttagtaggacatcctgtgctaagggg Alignment from CESAR ag------TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCg aagtgggagctgtggaggctcccaagctatgcttacattgtgccttctagagGACTACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTTTTAGATTCTGAGGACAACCCATCTCTTCCCACTAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAACTGCCCagtgaggcaccaaggaagctttggtttagtaggacatcctgtgctaagggg Alignment from Spaln_aa2Genome AG------TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagtgggagctgtggaggctcccaagctatgcttacattgtgccttctagAGGACTACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTTTTAGATTCTGAGGACAACCCATCTCTTCCCACTAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgaggcaccaaggaagctttggtttagtaggacatcctgtgctaagggg Alignment from Spaln_nt2Genome AG------TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagtgggagctgtggaggctcccaagctatgcttacattgtgccttctagAGGACTACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTTTTAGATTCTGAGGACAACCCATCTCTTCCCACTAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgaggcaccaaggaagctttggtttagtaggacatcctgtgctaagggg Alignment from Pairagon AG------TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagtgggagctgtggaggctcccaagctatgcttacattgtgccttctagAGGACTACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTTTTAGATTCTGAGGACAACCCATCTCTTCCCACTAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgaggcaccaaggaagctttggtttagtaggacatcctgtgctaagggg Alignment from Exonerate_protein2genome AG------TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagtgggagctgtggaggctcccaagctatgcttacattgtgccttctagAGGACTACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTTTTAGATTCTGAGGACAACCCATCTCTTCCCACTAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgaggcaccaaggaagctttggtttagtaggacatcctgtgctaagggg Alignment from Exonerate_coding2genome AG------TCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagtgggagctgtggaggctcccaagctatgcttacattgtgccttctagAGGACTACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTTTTAGATTCTGAGGACAACCCATCTCTTCCCACTAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgaggcaccaaggaagctttggtttagtaggacatcctgtgctaagggg Alignment from GeneWise -----GAGTCAGGCCAGGATGGCCAGCCAGACCCCATCTCCAACCCGGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTCTTGGATTCCGAGGACAACCCATCCCTTCCTAAGAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAGCTGCCCG aagtgggagctgtggaggctcccaagctatgcttacattgtgccttctagAGGACTACTCAGGCCAGGATGGCCGGCCAGATCCCATCTCCAACCCAGATCCTGTCAGGATGCCAGCAGAGATAGTGGTCCTTTTAGATTCTGAGGACAACCCATCTCTTCCCACTAGGCTCCGGCCCAGAGGACTCCGCCCCCTTGAACTGCCCAgtgaggcaccaaggaagctttggtttagtaggacatcctgtgctaagggg #### Abcc2_ID8821_5 --> 0 - 0 Original Alignment GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC agactgcattttgtatgtttgttaaacacatgcatttattttcatttcag---AGCAAGTCTAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACACATgtaagactctacatccattcattgcttatgttattataactggaggatgc Alignment from CESAR GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC aagagactgcattttgtatgtttgtacacatgcatttattttcatttcag---AGCAAGTCTAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACACATgtaagactctacatccattcattgcttatgttattataactggaggatgc Alignment from Spaln_aa2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC agactgcattttgtatgtttgttaaacacatgcatttattttcatttcagAGCAAGTCTAACATGACC---TATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACACATgtaagactctacatccattcattgcttatgttattataactggaggatgc Alignment from Spaln_nt2Genome GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC agactgcattttgtatgtttgttaaacacatgcatttattttcatttcag---AGCAAGTCTAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACACATgtaagactctacatccattcattgcttatgttattataactggaggatgc Alignment from Pairagon GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC agactgcattttgtatgtttgttaaacacatgcatttattttcatttcag---AGCAAGTCTAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACACATgtaagactctacatccattcattgcttatgttattataactggaggatgc Alignment from Exonerate_protein2genome AGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC agactgcattttgtatgtttgttaaacacatgcatttattttcatttcagAGCAAGTCTAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACACATgtaagactctacatccattcattgcttatgttattataactggaggatgc Alignment from Exonerate_coding2genome AGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC agactgcattttgtatgtttgttaaacacatgcatttattttcatttcagAGCAAGTCTAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACACATgtaagactctacatccattcattgcttatgttattataactggaggatgc Alignment from GeneWise GATAGCAAGTCCAACATGACCTATTCCTGCCTGTTCTTCGTCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGCGACTCAACACAC agactgcattttgtatgtttgttaaacacatgcatttattttcatttcagAGC---AAGTCTAACATGACCTATTCCTGCCTGTTCTTCATCTCCTATGGTTTCCAGATTGTCATTTTGATCCTTTCAGCCTTTTCAGAATCAAGTGACTCAACACATgtaagactctacatccattcattgcttatgttattataactggaggatgc #### Actn3_ID692_18 --> 0 - 0 Original Alignment CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG ttaacccaagacttggctactccctaacagcgtttcttctcttcctgcagCACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCTATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCTTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACCACTTTGAC---gtaagaacagggggctaaattcctgtgggctgacgtacttgagggcaggt Alignment from CESAR CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG ttaacccaagacttggctactccctaacagcgtttcttctcttcctgcagCACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCTATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCTTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACCACTTTGAC---gtaagaacagggggctaaattcctgtgggctgacgtacttgagggca Alignment from Spaln_aa2Genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGAC ttaacccaagacttggctactccctaacagcgtttcttctcttcctgcagCACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCTATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCTTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACCACTTTGACgtaagaacagggggctaaattcctgtgggctgacgtacttgagggcaggt Alignment from Spaln_nt2Genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGAC ttaacccaagacttggctactccctaacagcgtttcttctcttcctgcagCACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCTATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCTTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACCACTTTGACgtaagaacagggggctaaattcctgtgggctgacgtacttgagggcaggt Alignment from Pairagon CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGAC ttaacccaagacttggctactccctaacagcgtttcttctcttcctgcagCACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCTATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCTTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACCACTTTGACgtaagaacagggggctaaattcctgtgggctgacgtacttgagggcaggt Alignment from Exonerate_protein2genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG ttaacccaagacttggctactccctaacagcgtttcttctcttcctgcagCACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCTATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCTTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACCACTTTGAC---gtaagaacagggggctaaattcctgtgggctgacgtacttgagggca Alignment from Exonerate_coding2genome CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGACCGG ttaacccaagacttggctactccctaacagcgtttcttctcttcctgcagCACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCTATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCTTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACCACTTTGAC---gtaagaacagggggctaaattcctgtgggctgacgtacttgagggca Alignment from GeneWise CACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCCATTGCCCGCACCATCAATGAGGTCGAGAACCAGGTACTGACCCGAGATGCCAAGGGCCTGAGCCAGGAGCAGCTCAACGAATTCCGCGCCTCCTTCAACCACTTTGAC ttaacccaagacttggctactccctaacagcgtttcttctcttcctgcagCACATTCGTGTGGGCTGGGAGCAGTTGCTCACCTCTATTGCCCGCACCATCAATGAAGTTGATAACCAGGTACTTACTAGAGATGCCAAGGGCTTGAGCCAGGAGCAGCTCAATGAATTCCGTGCCTCCTTCAACCACTTTGACgtaagaacagggggctaaattcctgtgggctgacgtacttgagggcaggt #### Actn3_ID697_13 --> 1 - 0 Original Alignment tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG gggtctaactctacacatagtctgtttcatttttcatttcaatcctttagt---------TACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgtaattggcagggccagggaaccaagggcaaggagataagaccagcaggc Alignment from CESAR tGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG ctcccaccagggtctaactctacacttcatttttcatttcaatcctttagt---------TACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgtaattggcagggccagggaaccaagggcaaggagataagaccagcaggc Alignment from Spaln_aa2Genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG gggtctaactctacacatagtctgtttcatttttcatttcaatcctttagT---------TACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgtaattggcagggccagggaaccaagggcaaggagataagaccagcaggc Alignment from Spaln_nt2Genome CTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG gggtctaactctacacatagtctgtttcatttttcatttcaatcctttagTTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgtaattggcagggccagggaaccaagggcaaggagataagaccagcaggc Alignment from Pairagon TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG gggtctaactctacacatagtctgtttcatttttcatttcaatcctttagT---------TACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgtaattggcagggccagggaaccaagggcaaggagataagaccagcaggc Alignment from Exonerate_protein2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG gggtctaactctacacatagtctgtttcatttttcatttcaATCCTTTAGTTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgtaattggcagggccagggaaccaagggcaaggagataagaccagcaggc Alignment from Exonerate_coding2genome TGAGCTCGACTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG gggtctaactctacacatagtctgtttcatttttcatttcaATCCTTTAGTTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgtaattggcagggccagggaaccaagggcaaggagataagaccagcaggc Alignment from GeneWise CTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTGGGTACACTGACCCAGAAGAGGAGGGACGCACTAGAG gggtctaactctacacatagtctgtttcatttttcatttcaatcctttagTTACCATGAGGCAGCCTCCGTGAACAGCCGCTGCCAAGCCATCTGTGACCAGTGGGATAACTTAGGTACACTGACCCAGAAGAGGAGAGATGCATTAGAGgtaattggcagggccagggaaccaagggcaaggagataagaccagcaggc #### Actn3_ID704_6 --> 1 - 0 Original Alignment cTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG tgcagtgaaccggggcctggactgaagacaatgcttgtgttccctcacagc---------GGCCTGGCCCTTTGTGCTCTTATCCACCGGCACCGGCCAGACCTTATTGACTATGCCAAGCTGCGCAAGgttagttgcacctctacaactcacaactctatagtctctgccctcagctg Alignment from CESAR cTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG gcacatgcctgcagtgaaccggggcagacaatgcttgtgttccctcacagc---------GGCCTGGCCCTTTGTGCTCTTATCCACCGGCACCGGCCAGACCTTATTGACTATGCCAAGCTGCGCAAGgttagttgcacctctacaactcacaactctatagtctctgccctcagctg Alignment from Spaln_aa2Genome CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG tgcagtgaaccggggcctggactgaagacaatgcttgtgttccctcacagC---------GGCCTGGCCCTTTGTGCTCTTATCCACCGGCACCGGCCAGACCTTATTGACTATGCCAAGCTGCGCAAGgttagttgcacctctacaactcacaactctatagtctctgccctcagctg Alignment from Spaln_nt2Genome TGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG tgcagtgaaccggggcctggactgaagacaatgcttgtgttccctcacagCGGCCTGGCCCTTTGTGCTCTTATCCACCGGCACCGGCCAGACCTTATTGACTATGCCAAGCTGCGCAAGgttagttgcacctctacaactcacaactctatagtctctgccctcagctg Alignment from Pairagon CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG tgcagtgaaccggggcctggactgaagacaatgcttgtgttccctcacagC---------GGCCTGGCCCTTTGTGCTCTTATCCACCGGCACCGGCCAGACCTTATTGACTATGCCAAGCTGCGCAAGgttagttgcacctctacaactcacaactctatagtctctgccctcagctg Alignment from Exonerate_protein2genome CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG tgcagtgaaccggggcctggactgaagacaatgcttgtgttccctcacagC---------GGCCTGGCCCTTTGTGCTCTTATCCACCGGCACCGGCCAGACCTTATTGACTATGCCAAGCTGCGCAAGgttagttgcacctctacaactcacaactctatagtctctgccctcagctg Alignment from Exonerate_coding2genome CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG tgcagtgaaccggggcctggactgaagacaatgcttgtgttccctcacagC---------GGCCTGGCCCTTTGTGCTCTTATCCACCGGCACCGGCCAGACCTTATTGACTATGCCAAGCTGCGCAAGgttagttgcacctctacaactcacaactctatagtctctgccctcagctg Alignment from GeneWise CTGGAAGGATGGCCTGGCCCTCTGTGCTCTCATCCACCGTCACCGGCCAGACCTCATTGACTATGCCAAGCTTCGCAAG tgcagtgaaccggggcctggactgaagacaatgcttgtgttccctcacagC---------GGCCTGGCCCTTTGTGCTCTTATCCACCGGCACCGGCCAGACCTTATTGACTATGCCAAGCTGCGCAAGgttagttgcacctctacaactcacaactctatagtctctgccctcagctg #### Actr1a_ID9872_8 --> 0 - 1 Original Alignment ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAg agtccgcacccaacctccttctctttttgctctgaccctggcgcctgcag---------TCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGTGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAggtgagtatatccacttttgaccctacaggggttagccaaccacagaaatg Alignment from CESAR ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAg gggggtctcagtccgcacccaaccttttgctctgaccctggcgcctgcag---------TCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGTGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAggtgagtatatccacttttgaccctacaggggttagccaaccacagaaatg Alignment from Spaln_aa2Genome ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG agtccgcacccaacctccttctctttttgctctgaccctggcgcctgcag---------TCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGTGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtatatccacttttgaccctacaggggttagccaaccacagaaatg Alignment from Spaln_nt2Genome TCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG agtccgcacccaacctccttctctttttgctctgaccctggcgcctgcagTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGTGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtatatccacttttgaccctacaggggttagccaaccacagaaatg Alignment from Pairagon ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG agtccgcacccaacctccttctctttttgctctgaccctggcgcctgcag---------TCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGTGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtatatccacttttgaccctacaggggttagccaaccacagaaatg Alignment from Exonerate_protein2genome ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG agtccgcacccaacctccttctctttttgctctgaccctggCGCCTGCAGTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGTGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtatatccacttttgaccctacaggggttagccaaccacagaaatg Alignment from Exonerate_coding2genome ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG agtccgcacccaacctccttctctttttgctctgaccctggCGCCTGCAGTCCCGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGTGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtatatccacttttgaccctacaggggttagccaaccacagaaatg Alignment from GeneWise ATTGGCCCTTCCCGGTTCCGGGCCCCTGAGCTGCTGTTCAGGCCGGACTTGATTGGCGAGGAGAGTGAAGGCATCCACGAGGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTCAAAG agtccgcacccaacctccttctctttttgctctgaccctggcgcctgcagTCC---------CGTTTCCGGGCCCCTGAGCTGTTGTTCAGGCCGGACTTGATTGGTGAGGAGAGTGAAGGCATCCACGAAGTGCTGGTGTTTGCTATCCAGAAGTCAGACATGGATTTACGGCGTACACTGTTTTCCAACATTGTCCTCTCAGGAGGTTCTACCCTGTTTAAAGgtgagtatatccacttttgaccctacaggggttagccaaccacagaaatg #### Acy3_ID250_4 --> 2 - 1 Original Alignment gtCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAg atagctaagcccaggctgtttgcctgtcctgtcctccttttgtttggcaggtCTGGAGATGGGCCCACAGCCTCAAGGAGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTAGTGGCATCCATTCTGGACTTCATTGAGCTCTTTAAC---ggtaactagcccttccagtggcttgtcaggaaaatcgatctgaggagaggg Alignment from CESAR gtCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAg atagctaagcccaggctgtttgcctgtcctgtcctccttttgtttggcaggtCTGGAGATGGGCCCACAGCCTCAAGGAGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTAGTGGCATCCATTCTGGACTTCATTGAGCTCTTTAAC---ggtaactagcccttccagtggcttgtcaggaaaatcgatctgaggagaggg Alignment from Spaln_aa2Genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAAC- atagctaagcccaggctgtttgcctgtcctgtcctccttttgtttggcagGTCTGGAGATGGGCCCACAGCCTCAAGGAGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTAGTGGCATCCATTCTGGACTTCATTGAGCTCTTTAACGgtaactagcccttccagtggcttgtcaggaaaatcgatctgaggagaggg Alignment from Spaln_nt2Genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atagctaagcccaggctgtttgcctgtcctgtcctccttttgtttggcagGTCTGGAGATGGGCCCACAGCCTCAAGGAGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTAGTGGCATCCATTCTGGACTTCATTGAGCTCTTTAAC---Ggtaactagcccttccagtggcttgtcaggaaaatcgatctgaggagaggg Alignment from Pairagon GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atagctaagcccaggctgtttgcctgtcctgtcctccttttgtttggcagGTCTGGAGATGGGCCCACAGCCTCAAGGAGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTAGTGGCATCCATTCTGGACTTCATTGAGCTCTTTAAC---Ggtaactagcccttccagtggcttgtcaggaaaatcgatctgaggagaggg Alignment from Exonerate_protein2genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atagctaagcccaggctgtttgcctgtcctgtcctccttttgtttggcagGTCTGGAGATGGGCCCACAGCCTCAAGGAGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTAGTGGCATCCATTCTGGACTTCATTGAGCTCTTTAAC---Ggtaactagcccttccagtggcttgtcaggaaaatcgatctgaggagaggg Alignment from Exonerate_coding2genome GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACCAAG atagctaagcccaggctgtttgcctgtcctgtcctccttttgtttggcagGTCTGGAGATGGGCCCACAGCCTCAAGGAGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTAGTGGCATCCATTCTGGACTTCATTGAGCTCTTTAAC---Ggtaactagcccttccagtggcttgtcaggaaaatcgatctgaggagaggg Alignment from GeneWise GTCTGGAGATGGGCCCACAGCCTCAGGGCGTGCTGCGGGCCGACCTGTTCTCCCGGATGCGAGCTCTGGTGGCATCCATTCTGGACTTCATCGAGCTCTTCAACC atagctaagcccaggctgtttgcctgtcctgtcctccttttgtttggcagGTCTGGAGATGGGCCCACAGCCTCAAGGAGTGCTGCGGGCTGACCTGTTCTCCCGGATGCGAGCTCTAGTGGCATCCATTCTGGACTTCATTGAGCTCTTTAACGgtaactagcccttccagtggcttgtcaggaaaatcgatctgaggagaggg #### Add3_ID11215_7 --> 0 - 0 Original Alignment GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacggttgttcaaggtagctccccttccccactatgcttgaaag------GTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagtcccaaccctaccctgttttctattgctctacatgagccactagt Alignment from CESAR GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG cattgtgagtcccacggttgttcaatccccttccccactatgcttgaaag------GTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagtcccaaccctaccctgttttctattgctctacatgagccactagt Alignment from Spaln_aa2Genome GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacggttgttcaaggtagctccccttccccactatgcttgaaag------GTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagtcccaaccctaccctgttttctattgctctacatgagccactagt Alignment from Spaln_nt2Genome GTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacggttgttcaaggtagctccccttccccactatgcttgaaagGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagtcccaaccctaccctgttttctattgctctacatgagccactagt Alignment from Pairagon -----------------------GCTC-----------------------GTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG GAGTCCCACGGTTGTTCAAGGTAGCTCCCCTTCCCCACTATGCTTGAAAGGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagtcccaaccctaccctgttttctattgctctacatgagccactagt Alignment from Exonerate_protein2genome GTG---CTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacggttgttcaaggtagctccccttccccactatGCTTGAAAGGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagtcccaaccctaccctgttttctattgctctacatgagccactagt Alignment from Exonerate_coding2genome GTG---CTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacggttgttcaaggtagctccccttccccactatGCTTGAAAGGTCCTCAGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagtcccaaccctaccctgttttctattgctctacatgagccactagt Alignment from GeneWise GTGCTCGTCCTCAGGAACCATGGCATGGTGGCTCTTGGCGAGACCCTCGAGGAGGCTTTCCATTACATCTTTAATGTACAGATGGCCTGTGAGATCCAG gagtcccacggttgttcaaggtagctccccttccccactatgcttgaaagGTCCTC------AGGAACCATGGCATGGTGGGTCTTGGTGAGACCCTCGAGGAGGCTTTCCATTACATTTTTAATGTACAGATGGCCTGTGAGATCCAGgtaagtcccaaccctaccctgttttctattgctctacatgagccactagt #### Adrbk1_ID476_19 --> 0 - 0 Original Alignment CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT------ tggaccctgggaccttccttcacagtttatctgtgtcccttcccatacagCAGAGCCTCCTGACTATGGAGGAAATACAGTCAGTCGAAGAGACACAGATCAAGGAACACAAGTGTCTACTACTTAAGATCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATCACAGAgtaagagtgagtgaggggtgagcttagggtataggtggggggtgggtgct Alignment from CESAR CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT------ tggaccctgggaccttccttcacagtttatctgtgtcccttcccatacagCAGAGCCTCCTGACTATGGAGGAAATACAGTCAGTCGAAGAGACACAGATCAAGGAACACAAGTGTCTACTACTTAAGATCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATCACAGAgtaagagtgagtgaggggtgagcttagggtataggtggggggtgggtgct Alignment from Spaln_aa2Genome CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT------ tggaccctgggaccttccttcacagtttatctgtgtcccttcccatacagCAGAGCCTCCTGACTATGGAGGAAATACAGTCAGTCGAAGAGACACAGATCAAGGAACACAAGTGTCTACTACTTAAGATCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATCACAGAgtaagagtgagtgaggggtgagcttagggtataggtggggggtgggtgct Alignment from Spaln_nt2Genome CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT------ tggaccctgggaccttccttcacagtttatctgtgtcccttcccatacagCAGAGCCTCCTGACTATGGAGGAAATACAGTCAGTCGAAGAGACACAGATCAAGGAACACAAGTGTCTACTACTTAAGATCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATCACAGAgtaagagtgagtgaggggtgagcttagggtataggtggggggtgggtgct Alignment from Pairagon CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT------------ tggaccctgggaccttccttcacagtttatctgtgtcccttcccatacagCAGAGCCTCCTGACTATGGAGGAAATACAGTCAGTCGAAGAGACACAGATCAAGGAACACAAGTGTCTACTACTTAAGATCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATCACAGAGTAAGAgtgagtgaggggtgagcttagggtataggtggggggtgggtgct Alignment from Exonerate_protein2genome CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT tggaccctgggaccttccttcacagtttatctgtgtcccttcccatacagCAGAGCCTCCTGACTATGGAGGAAATACAGTCAGTCGAAGAGACACAGATCAAGGAACACAAGTGTCTACTACTTAAGATCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATcacagagtaagagtgagtgaggggtgagcttagggtataggtggggggtgggtgct Alignment from Exonerate_coding2genome CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT tggaccctgggaccttccttcacagtttatctgtgtcccttcccatacagCAGAGCCTCCTGACTATGGAGGAAATACAGTCAGTCGAAGAGACACAGATCAAGGAACACAAGTGTCTACTACTTAAGATCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATcacagagtaagagtgagtgaggggtgagcttagggtataggtggggggtgggtgct Alignment from GeneWise CAGAGCCTCCTGACCATGGAGGAGATCCAGTCAGTGGAAGAGACACAGATCAAGGAACGCAAGTGTCTCCTGCTTAAGATCCGAGGTGGCAAGCAGTTTGTCCTGCAGTGTGAT------ tggaccctgggaccttccttcacagtttatctgtgtcccttcccatacagCAGAGCCTCCTGACTATGGAGGAAATACAGTCAGTCGAAGAGACACAGATCAAGGAACACAAGTGTCTACTACTTAAGATCCGAGGTGGCAAGCAGTTTGTATTGCAGTGTGATCACAGAgtaagagtgagtgaggggtgagcttagggtataggtggggggtgggtgct #### Adrbk1_ID477_18 --> 2 - 0 Original Alignment ac---------TATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG gagtgactgggtggggtgggcgctttgcgcgtgtctccttcatctcttagacTACTACAAGTATGCCTTGGGTAAGGACTGCATTGTAGATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCAAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTCCGgtaagtaaaaggtcaggcagagcatggtgtgggtatcagggtggaccctg Alignment from CESAR ac---------TATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG gagtgactgggtggggtgggcgctttgcgcgtgtctccttcatctcttagacTACTACAAGTATGCCTTGGGTAAGGACTGCATTGTAGATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCAAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTCCGgtaagtaaaaggtcaggcagagcatggtgtgggtatcagggtggaccctg Alignment from Spaln_aa2Genome AC---------TATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG gagtgactgggtggggtgggcgctttgcgcgtgtctccttcatctcttagACTACTACAAGTATGCCTTGGGTAAGGACTGCATTGTAGATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCAAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTCCGgtaagtaaaaggtcaggcagagcatggtgtgggtatcagggtggaccctg Alignment from Spaln_nt2Genome ACTA---------TGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG gagtgactgggtggggtgggcgctttgcgcgtgtctccttcatctcttagACTACTACAAGTATGCCTTGGGTAAGGACTGCATTGTAGATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCAAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTCCGgtaagtaaaaggtcaggcagagcatggtgtgggtatcagggtggaccctg Alignment from Pairagon AC---------TATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG gagtgactgggtggggtgggcgctttgcgcgtgtctccttcatctcttagACTACTACAAGTATGCCTTGGGTAAGGACTGCATTGTAGATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCAAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTCCGgtaagtaaaaggtcaggcagagcatggtgtgggtatcagggtggaccctg Alignment from Exonerate_protein2genome AC---------TATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG gagtgactgggtggggtgggcgctttgcgcgtgtctccttcatctcttagACTACTACAAGTATGCCTTGGGTAAGGACTGCATTGTAGATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCAAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTCCGgtaagtaaaaggtcaggcagagcatggtgtgggtatcagggtggaccctg Alignment from Exonerate_coding2genome AC---------TATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG gagtgactgggtggggtgggcgctttgcgcgtgtctccttcatctcttagACTACTACAAGTATGCCTTGGGTAAGGACTGCATTGTAGATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCAAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTCCGgtaagtaaaaggtcaggcagagcatggtgtgggtatcagggtggaccctg Alignment from GeneWise --------GACTATGCCCTGGGTAAGGACTGCATCGTGCATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCCAACCGGCTCGAGTGGAGGGGTGAAGGCGAGGCTCCG gagtgactgggtggggtgggcgctttgcgcgtgtctccttcatctcttagACTACTACAAGTATGCCTTGGGTAAGGACTGCATTGTAGATGGCTACATGTCCAAGATGGGCAACCCCTTCCTGACCCAGTGGCAGCGGCGATACTTCTACTTGTTCCCAAACCGGCTTGAATGGAGGGGTGAGGGTGAGGCTCCGgtaagtaaaaggtcaggcagagcatggtgtgggtatcagggtggaccctg #### Adrbk1_ID479_16 --> 0 - 0 Original Alignment TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG------ tctgctgcccctccctcacccataatgaattttgaatcttcctttgccagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTTCAAAgttagtcacctgctcagctctgagtcctgtgcctggatcatgaggctgag Alignment from CESAR TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG------ tctgctgcccctccctcacccataatgaattttgaatcttcctttgccagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTTCAAAgttagtcacctgctcagctctgagtcctgtgcctggatcatgaggctgag Alignment from Spaln_aa2Genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATC------AAG tctgctgcccctccctcacccataatgaattttgaatcttcctttgccagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTTCAAAgttagtcacctgctcagctctgagtcctgtgcctggatcatgaggctgag Alignment from Spaln_nt2Genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAA tctgctgcccctccctcacccataatgaattttgaatcttcctttgccagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAgttcaaagttagtcacctgctcagctctgagtcctgtgcctggatcatgaggctgag Alignment from Pairagon TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG------ tctgctgcccctccctcacccataatgaattttgaatcttcctttgccagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTTCAAAgttagtcacctgctcagctctgagtcctgtgcctggatcatgaggctgag Alignment from Exonerate_protein2genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctgctgcccctccctcacccataatgaattttgaatcttcctttgccagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGttcaaagttagtcacctgctcagctctgagtcctgtgcctggatcatgaggctgag Alignment from Exonerate_coding2genome TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAG tctgctgcccctccctcacccataatgaattttgaatcttcctttgccagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGttcaaagttagtcacctgctcagctctgagtcctgtgcctggatcatgaggctgag Alignment from GeneWise TACCCTCCTCCACTGATCCCCCCACGTGGGGAGGTGAATGCAGCTGACGCTTTCGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTTACTG tctgctgcccctccctcacccataatgaattttgaatcttcctttgccagTACCCTCCTCCACTGATCCCCCAACGTGGGGAGGTGAATGCAGCTGACGCTTTTGACATTGGCTCCTTTGATGAGGAGGACACAAAAGGAATCAAGTTCAAAgttagtcacctgctcagctctgagtcctgtgcctggatcatgaggctgag #### Adrbk1_ID480_15 --> 1 - 0 Original Alignment g---GCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaacgatccagagtccaggcgtgcccgcttgtccttttcaggTGTGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCTTACAGAAGgtcagtatataaccctccagggtgagatgtgtacctcctctgctgcccct Alignment from CESAR g---GCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaacgatccagagtccaggcgtgcccgcttgtccttttcaggTGTGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCTTACAGAAGgtcagtatataaccctccagggtgagatgtgtacctcctctgctgcccct Alignment from Spaln_aa2Genome -GGGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaacgatccagagtccaggcgtgcccgcttgtccttttcagGTGTGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCTTACAGAAGgtcagtatataaccctccagggtgagatgtgtacctcctctgctgcccct Alignment from Spaln_nt2Genome G---GCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaacgatccagagtccaggcgtgcccgcttgtccttttcagGTGTGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCTTACAGAAGgtcagtatataaccctccagggtgagatgtgtacctcctctgctgcccct Alignment from Pairagon G---GCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaacgatccagagtccaggcgtgcccgcttgtccttttcagGTGTGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCTTACAGAAGgtcagtatataaccctccagggtgagatgtgtacctcctctgctgcccct Alignment from Exonerate_protein2genome TGGGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaacgatccagagtccaggcgtgcccgcttgtccttttcagGTGTGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCTTACAGAAGgtcagtatataaccctccagggtgagatgtgtacctcctctgctgcccct Alignment from Exonerate_coding2genome TGGGGCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaacgatccagagtccaggcgtgcccgcttgtccttttcagGTGTGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCTTACAGAAGgtcagtatataaccctccagggtgagatgtgtacctcctctgctgcccct Alignment from GeneWise ----GCTCAGGAGGTAAAAGAAAGTCCTTTCTTTCGTTCCCTGGACTGGCAGATGGTCTTCTTACAGAAG actcaacttgaacgatccagagtccaggcgtgcccgcttgtccttttcagGTGTGCTCAGGAGGTAAAAGAAAGTCCCTTCTTTCATTCTCTGGATTGGCAGATGGCCTTCTTACAGAAGgtcagtatataaccctccagggtgagatgtgtacctcctctgctgcccct #### Adrbk1_ID482_13 --> 1 - 0 Original Alignment a---CACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccatccaattcttttttcccttcttaagaAAACACAGTCCCTTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACAATGgtaagactaacagtggcactgaggcctatgtggtgccagaagcatgaatc Alignment from CESAR a---CACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccatccaattcttttttcccttcttaagaAAACACAGTCCCTTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACAATGgtaagactaacagtggcactgaggcctatgtggtgccagaagcatgaatc Alignment from Spaln_aa2Genome ACACAGCCCCTTC---CGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccatccaattcttttttcccttcttaagAAAACACAGTCCCTTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACAATGgtaagactaacagtggcactgaggcctatgtggtgccagaagcatgaatc Alignment from Spaln_nt2Genome A---CACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccatccaattcttttttcccttcttaagAAAACACAGTCCCTTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACAATGgtaagactaacagtggcactgaggcctatgtggtgccagaagcatgaatc Alignment from Pairagon ---ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccatccaattcttttttcccttcttaagAAAACACAGTCCCTTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACAATGgtaagactaacagtggcactgaggcctatgtggtgccagaagcatgaatc Alignment from Exonerate_protein2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccatccaattcttttttcccttcttaagaaaACACAGTCCCTTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACAATGgtaagactaacagtggcactgaggcctatgtggtgccagaagcatgaatc Alignment from Exonerate_coding2genome ACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccatccaattcttttttcccttcttaagaaaACACAGTCCCTTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACAATGgtaagactaacagtggcactgaggcctatgtggtgccagaagcatgaatc Alignment from GeneWise -GGACACAGCCCCTTCCGGCAGCACAAGACCAAAGACAAGCATGAGATTGACCGCATGACGTTGACGATG ccttgcccatcagtctagctccccatccaattcttttttcccttcttaagAAAACACAGTCCCTTCCGGCAGCACAAGACCAAAGACACTCATGAGATTGACCGCATGACACTTACAATGgtaagactaacagtggcactgaggcctatgtggtgccagaagcatgaatc #### Adrbk1_ID486_9 --> 0 - 1 Original Alignment ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGG gaccccagccttggcctgccttccctaaagtttgttctgtcctgtttcagGCCTGGGACTGTCCCTTCACTGTGTGCATGTCATATGCATTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTCATGAACggtaccttagcttaggggatggagcagtttattgttttcttcttaggtGGG Alignment from CESAR ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACg gtGGG gaccccagccttggcctgccttccctaaagtttgttctgtcctgtttcagGCCTGGGACTGTCCCTTCACTGTGTGCATGTCATATGCATTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTCATGAACggtaccttagcttaggggatggagtaacctactctgtcccctgcaggtGGG Alignment from Spaln_aa2Genome GACTGCCCC------TTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGG gaccccagccttggcctgccttccctaaagtttgttctgtcctgtttcagGCCTGGGACTGTCCCTTCACTGTGTGCATGTCATATGCATTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTCATGAACGgtaccttagcttaggggatggagcagtttattgttttcttcttagGTGGG Alignment from Spaln_nt2Genome CCGGGGACTGCCCCTTC-ATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGG gaccccagccttggcctgccttccctaaagtttgttctgtcctgtttcagGCCTGGGACTGTCCCTTCACTGTGTGCATGTCATATGCATTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTCATGAACGgtaccttagcttaggggatggagcagtttattgttttcttcttagGTGGG Alignment from Pairagon ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGG gaccccagccttggcctgccttccctaaagtttgttctgtcctgtttcagGCCTGGGACTGTCCCTTCACTGTGTGCATGTCATATGCATTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTCATGAACGgtaccttagcttaggggatggagcagtttattgttttcttcttagGTGGG Alignment from Exonerate_protein2genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGG gaccccagccttggcctgccttccctaaagtttgttctgtcctgtttcaggcctggGACTGTCCCTTCACTGTGTGCATGTCATATGCATTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTCATGAACGgtaccttagcttaggggatggagcagtttattgttttcttcttagGTGGG Alignment from Exonerate_coding2genome GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGG gaccccagccttggcctgccttccctaaagtttgttctgtcctgtttcaggcctggGACTGTCCCTTCACTGTGTGCATGTCATATGCATTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTCATGAACGgtaccttagcttaggggatggagcagtttattgttttcttcttagGTGGG Alignment from GeneWise ------GACTGCCCCTTCATCGTGTGCATGTCATATGCATTCCACACACCAGACAAGCTCAGCTTCATCCTGGACCTCATGAACG GTGGG gaccccagccttggcctgccttccctaaagtttgttctgtcctgtttcagGCCTGGGACTGTCCCTTCACTGTGTGCATGTCATATGCATTCCACACGCCAGATAAGCTAAGCTTCATCCTGGACCTCATGAACGgtaccttagcttaggggatggagcagtttattgttttcttcttagGTGGG #### Adrbk1_ID491_4 --> 0 - 0 Original Alignment ---------CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ttaaaagggaaagaaagagccttattcagcatacacctgccttcattcagTCAATTATTCCCTTTTCAAAAAATGCTACAGAGCATGTCCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAGgtaagagttgggtgctcctcatggccccattccctacccacccagatctc Alignment from CESAR ---------CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ttaaaagggaaagaaagagccttattcagcatacacctgccttcattcagTCAATTATTCCCTTTTCAAAAAATGCTACAGAGCATGTCCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAGgtaagagttgggtgctcctcatggccccattccctacccacccagatctc Alignment from Spaln_aa2Genome CCCTTTTCAAAG---------AATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ttaaaagggaaagaaagagccttattcagcatacacctgccttcattcagTCAATTATTCCCTTTTCAAAAAATGCTACAGAGCATGTCCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAGgtaagagttgggtgctcctcatggccccattccctacccacccagatctc Alignment from Spaln_nt2Genome TCCCTTTTCA--------AAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ttaaaagggaaagaaagagccttattcagcatacacctgccttcattcagTCAATTATTCCCTTTTCAAAAAATGCTACAGAGCATGTCCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAGgtaagagttgggtgctcctcatggccccattccctacccacccagatctc Alignment from Pairagon ---------CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ttaaaagggaaagaaagagccttattcagcatacacctgccttcattcagTCAATTATTCCCTTTTCAAAAAATGCTACAGAGCATGTCCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAGgtaagagttgggtgctcctcatggccccattccctacccacccagatctc Alignment from Exonerate_protein2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ttaaaagggaaagaaagagccttattcagcatacacctgccttcattcagtcaattattCCCTTTTCAAAAAATGCTACAGAGCATGTCCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAGgtaagagttgggtgctcctcatggccccattccctacccacccagatctc Alignment from Exonerate_coding2genome CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ttaaaagggaaagaaagagccttattcagcatacacctgccttcattcagtcaattattCCCTTTTCAAAAAATGCTACAGAGCATGTCCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAGgtaagagttgggtgctcctcatggccccattccctacccacccagatctc Alignment from GeneWise ---------CCCTTTTCAAAGAATGCTACGGAGCATGTCCAGGGCCACCTGGTGAAGAAGCAGGTGCCTCCAGATCTCTTCCAG ttaaaagggaaagaaagagccttattcagcatacacctgccttcattcagTCAATTATTCCCTTTTCAAAAAATGCTACAGAGCATGTCCAGGCCCACCTTGTGAAAAAGCAGGTCCCTCCAGATCTCTTTCAGgtaagagttgggtgctcctcatggccccattccctacccacccagatctc #### Adrbk1_ID492_3 --> 0 - 0 Original Alignment ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT------ gcttcatgctgtggccacagaaagttatctcgattgtgtctgctccacagATCAAGAAATATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTCGACTCCTACATTATGAAGGAACTCCTGGCCTGCTCACATGTCTTTgtgagtgttcagtggggtgtgaatccatctgttgatcctagctatgtggg Alignment from CESAR ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT------ gcttcatgctgtggccacagaaagttatctcgattgtgtctgctccacagATCAAGAAATATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTCGACTCCTACATTATGAAGGAACTCCTGGCCTGCTCACATGTCTTTgtgagtgttcagtggggtgtgaatccatctgttgatcctagctatgtggg Alignment from Spaln_aa2Genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT gcttcatgctgtggccacagaaagttatctcgattgtgtctgctccacagATCAAGAAATATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTCGACTCCTACATTATGAAGGAACTCCTGGCCTGCTCACATgtctttgtgagtgttcagtggggtgtgaatccatctgttgatcctagctatgtggg Alignment from Spaln_nt2Genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT gcttcatgctgtggccacagaaagttatctcgattgtgtctgctccacagATCAAGAAATATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTCGACTCCTACATTATGAAGGAACTCCTGGCCTGCTCACATgtctttgtgagtgttcagtggggtgtgaatccatctgttgatcctagctatgtggg Alignment from Pairagon ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT gcttcatgctgtggccacagaaagttatctcgattgtgtctgctccacagATCAAGAAATATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTCGACTCCTACATTATGAAGGAACTCCTGGCCTGCTCACATgtctttgtgagtgttcagtggggtgtgaatccatctgttgatcctagctatgtggg Alignment from Exonerate_protein2genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT gcttcatgctgtggccacagaaagttatctcgattgtgtctgctccacagATCAAGAAATATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTCGACTCCTACATTATGAAGGAACTCCTGGCCTGCTCACATgtctttgtgagtgttcagtggggtgtgaatccatctgttgatcctagctatgtggg Alignment from Exonerate_coding2genome ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT gcttcatgctgtggccacagaaagttatctcgattgtgtctgctccacagATCAAGAAATATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTCGACTCCTACATTATGAAGGAACTCCTGGCCTGCTCACATgtctttgtgagtgttcagtggggtgtgaatccatctgttgatcctagctatgtggg Alignment from GeneWise ATCAAGAAATATGAGAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTTGACTCCTATATTATGAAAGAACTGCTGGCCTGCTCACAT gcttcatgctgtggccacagaaagttatctcgattgtgtctgctccacagATCAAGAAATATGAAAAGCTGGAGACAGAGGAGGAACGTGTGGTCCGCAGCCGAGAGATCTTCGACTCCTACATTATGAAGGAACTCCTGGCCTGCTCACATgtctttgtgagtgttcagtggggtgtgaatccatctgttgatcctagctatgtggg #### Afap1l2_ID12244_19 --> 0 - 0 Original Alignment ---------------------CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtggtattatatacataataatttgacctattttatttgtttttgcttagTATTTTGGAGAAAGCACCAGTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCGCCAGACTCTACACCGGTTAATTCTGCATCTGTACTCAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtgagtagccgctctccaattgtagatgtagccttgtggcctttgcacta Alignment from CESAR ---------------------CCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtggtattatatacataataatttgacctattttatttgtttttgcttagTATTTTGGAGAAAGCACCAGTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCGCCAGACTCTACACCGGTTAATTCTGCATCTGTACTCAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtgagtagccgctctccaattgtagatgtagccttgtggcctttgcacta Alignment from Spaln_aa2Genome CCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtggtattatatacataataatttgacctattttatttgtttttgcttagtattttggagaaagcaccagtccacagCCCAAAGCTGCCACCCCTAACCCCCCGCCAGACTCTACACCGGTTAATTCTGCATCTGTACTCAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtgagtagccgctctccaattgtagatgtagccttgtggcctttgcacta Alignment from Spaln_nt2Genome GTCCACAGCCC-----AAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtggtattatatacataataatttgacctattttatttgtttttgcttagtattttggagaaagCACCAGTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCGCCAGACTCTACACCGGTTAATTCTGCATCTGTACTCAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtgagtagccgctctccaattgtagatgtagccttgtggcctttgcacta Alignment from Pairagon TCCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtggtattatatacataataatttgacctattttatttgtttttgcttagtattttggagaaagcaccagTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCGCCAGACTCTACACCGGTTAATTCTGCATCTGTACTCAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtgagtagccgctctccaattgtagatgtagccttgtggcctttgcacta Alignment from Exonerate_protein2genome AGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtggtattatatacataataatttgacctattttatttgtttttgcttagtattttggagaaagcaccagtccacAGCCCAAAGCTGCCACCCCTAACCCCCCGCCAGACTCTACACCGGTTAATTCTGCATCTGTACTCAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtgagtagccgctctccaattgtagatgtagccttgtggcctttgcacta Alignment from Exonerate_coding2genome AGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAG gtggtattatatacataataatttgacctattttatttgtttttgcttagtattttggagaaagcaccagtccacAGCCCAAAGCTGCCACCCCTAACCCCCCGCCAGACTCTACACCGGTTAATTCTGCATCTGTACTCAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGgtgagtagccgctctccaattgtagatgtagccttgtggcctttgcacta Alignment from GeneWise --------CGTCCACAGCCCAAAGCTGCCACCCCCAACCCCCCACCAGACTCCACGCCAGTCAACTCTGCATCTGTGCTCAAGAACAGGCCTCTTTCCGTCATGGTCACAGGCAAAGGCACTGTCCTGCAGAAAGCCAAGGAATGGGAGAAGAAAGGAGCCAGT gtggtattatatacataataatttgacctattttatttgtttttgcttagtattttggagAAAGCACCAGTCCACAGCCCAAAGCTGCCACCCCTAACCCCCCGCCAGACTCTACACCGGTTAATTCTGCATCTGTACTCAAGAACAGGCCACTTTCTGTCATGGTCACAGGTAAAGGGACTGTCCTGCAGAAAGCCAAGGTGAGTAGCCGCTCTCCAATTGTAgatgtagccttgtggcctttgcacta #### Afap1l2_ID12247_16 --> 0 - 1 Original Alignment AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tcctcaccaggccctgcagccagagagttttttttctaaaccactgtcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACCCCACGAAGCACCATGGTTAAGCTACAGGCTGAACAACAGAGAATCTCCTTCCCCGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCTAGCCCACCTGTGAAAGAGAAGCTAAGAGTTACCAGT---ggtaatgcgcggactaaatctgcacttagcacttgagacataacgagtcag Alignment from CESAR AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAg tcctcaccaggccctgcagccagagagttttttttctaaaccactgtcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACCCCACGAAGCACCATGGTTAAGCTACAGGCTGAACAACAGAGAATCTCCTTCCCCGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCTAGCCCACCTGTGAAAGAGAAGCTAAGAGTTACCAGT---ggtaatgcgcggactaaatctgcacttagcacttgagacataacgagtcag Alignment from Spaln_aa2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAGAG tcctcaccaggccctgcagccagagagttttttttctaaaccactgtcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACCCCACGAAGCACCATGGTTAAGCTACAGGCTGAACAACAGAGAATCTCCTTCCCCGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCTAGCCCACCTGTGAAAGAGAAGCTAAGAGTTACCAGTGGTAATgcgcggactaaatctgcacttagcacttgagacataacgagtcag Alignment from Spaln_nt2Genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGC--AG tcctcaccaggccctgcagccagagagttttttttctaaaccactgtcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACCCCACGAAGCACCATGGTTAAGCTACAGGCTGAACAACAGAGAATCTCCTTCCCCGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCTAGCCCACCTGTGAAAGAGAAGCTAAGAGTTACCAGTGGTAATgcgcggactaaatctgcacttagcacttgagacataacgagtcag Alignment from Pairagon AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTG tcctcaccaggccctgcagccagagagttttttttctaaaccactgtcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACCCCACGAAGCACCATGGTTAAGCTACAGGCTGAACAACAGAGAATCTCCTTCCCCGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCTAGCCCACCTGTGAAAGAGAAGCTAAGAGTTACCAGTGgtaatgcgcggactaaatctgcacttagcacttgagacataacgagtcag Alignment from Exonerate_protein2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tcctcaccaggccctgcagccagagagttttttttctaaaccactgtcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACCCCACGAAGCACCATGGTTAAGCTACAGGCTGAACAACAGAGAATCTCCTTCCCCGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCTAGCCCACCTGTGAAAGAGAAGCTAAGAGTTACCAGTGGTAatgcgcggactaaatctgcacttagcacttgagacataacgagtcag Alignment from Exonerate_coding2genome AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTGCAG tcctcaccaggccctgcagccagagagttttttttctaaaccactgtcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACCCCACGAAGCACCATGGTTAAGCTACAGGCTGAACAACAGAGAATCTCCTTCCCCGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCTAGCCCACCTGTGAAAGAGAAGCTAAGAGTTACCAGTGGTAatgcgcggactaaatctgcacttagcacttgagacataacgagtcag Alignment from GeneWise AGGCAACCAGAGGTTCAAGAGTCTTCAGAGCCTATCGAGCCCACCCCGCGAATCACCATGGTTAAGCTACAGGCCGAGCAGCAGAGAATCTCCTTCCCAGCCAACTGCCCAGACACCATGGCTTCTGCCCCCATCGCTGCCAGCCCACCTGTGAAGGAGAAGCTGAGAGTGACCAGTG tcctcaccaggccctgcagccagagagttttttttctaaaccactgtcagAGGCAACCAGAAGTTCAAGAGTCCTCAGAGCCTATTGAACCCACCCCACGAAGCACCATGGTTAAGCTACAGGCTGAACAACAGAGAATCTCCTTCCCCGCTAACTGCCCAGACACCATGGCTTCCGCCCCCATTTCTGCTAGCCCACCTGTGAAAGAGAAGCTAAGAGTTACCAGTGgtaatgcgcggactaaatctgcacttagcacttgagacataacgagtcag #### Afap1l2_ID12248_15 --> 0 - 0 Original Alignment ---GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG cttacagctaagggaataagggagtaaattgttcctttggttttggacagGGGGTGGAACCGGCTGAGGAAGCAGCCCCTACTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTGTACTTGGATCTTACACCAGTCAAGTCCTTCCTGCACAGTAGTAGCGAGGCTCAGGCACAGGCCTCTCTTCCTGCTGTGCCACATCAGGATGATGTAGCCGAGACCCTCACAGTAGACCCGGAGTCAACCACCACCCAGGAGGAGCCCCACACAGAGTCACCAGGAGACCCTGAGTTGCAGCAAgtgagtgtgatttggccaacaactgtaccctgcctcctcaccaggccctg Alignment from CESAR ---GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG cttacagctaagggaataagggagtaaattgttcctttggttttggacagGGGGTGGAACCGGCTGAGGAAGCAGCCCCTACTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTGTACTTGGATCTTACACCAGTCAAGTCCTTCCTGCACAGTAGTAGCGAGGCTCAGGCACAGGCCTCTCTTCCTGCTGTGCCACATCAGGATGATGTAGCCGAGACCCTCACAGTAGACCCGGAGTCAACCACCACCCAGGAGGAGCCCCACACAGAGTCACCAGGAGACCCTGAGTTGCAGCAAgtgagtgtgatttggccaacaactgtaccctgcctcctcaccaggccctg Alignment from Spaln_aa2Genome GTGGTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG cttacagctaagggaataagggagtaaattgttcctttggttttggacagGGGGTGGAACCGGCTGAGGAAGCAGCCCCTACTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTGTACTTGGATCTTACACCAGTCAAGTCCTTCCTGCACAGTAGTAGCGAGGCTCAGGCACAGGCCTCTCTTCCTGCTGTGCCACATCAGGATGATGTAGCCGAGACCCTCACAGTAGACCCGGAGTCAACCACCACCCAGGAGGAGCCCCACACAGAGTCACCAGGAGACCCTGAGTTGCAGCAAgtgagtgtgatttggccaacaactgtaccctgcctcctcaccaggccctg Alignment from Spaln_nt2Genome GTGGTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG cttacagctaagggaataagggagtaaattgttcctttggttttggacagGGGGTGGAACCGGCTGAGGAAGCAGCCCCTACTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTGTACTTGGATCTTACACCAGTCAAGTCCTTCCTGCACAGTAGTAGCGAGGCTCAGGCACAGGCCTCTCTTCCTGCTGTGCCACATCAGGATGATGTAGCCGAGACCCTCACAGTAGACCCGGAGTCAACCACCACCCAGGAGGAGCCCCACACAGAGTCACCAGGAGACCCTGAGTTGCAGCAAgtgagtgtgatttggccaacaactgtaccctgcctcctcaccaggccctg Alignment from Pairagon ----------------------------------------------GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG cttacagCTAAGGGAATAAGGGAGTAAATTGTTCCTTTGGTTTTGGACAGGGGGTGGAACCGGCTGAGGAAGCAGCCCCTACTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTGTACTTGGATCTTACACCAGTCAAGTCCTTCCTGCACAGTAGTAGCGAGGCTCAGGCACAGGCCTCTCTTCCTGCTGTGCCACATCAGGATGATGTAGCCGAGACCCTCACAGTAGACCCGGAGTCAACCACCACCCAGGAGGAGCCCCACACAGAGTCACCAGGAGACCCTGAGTTGCAGCAAgtgagtgtgatttggccaacaactgtaccctgcctcctcaccaggccctg Alignment from Exonerate_protein2genome GTGGTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG cttacagctaagggaataagggagtaaattgttcctttggttttggacagGGGGTGGAACCGGCTGAGGAAGCAGCCCCTACTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTGTACTTGGATCTTACACCAGTCAAGTCCTTCCTGCACAGTAGTAGCGAGGCTCAGGCACAGGCCTCTCTTCCTGCTGTGCCACATCAGGATGATGTAGCCGAGACCCTCACAGTAGACCCGGAGTCAACCACCACCCAGGAGGAGCCCCACACAGAGTCACCAGGAGACCCTGAGTTGCAGCAAgtgagtgtgatttggccaacaactgtaccctgcctcctcaccaggccctg Alignment from Exonerate_coding2genome GTGGTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG cttacagctaagggaataagggagtaaattgttcctttggttttggacagGGGGTGGAACCGGCTGAGGAAGCAGCCCCTACTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTGTACTTGGATCTTACACCAGTCAAGTCCTTCCTGCACAGTAGTAGCGAGGCTCAGGCACAGGCCTCTCTTCCTGCTGTGCCACATCAGGATGATGTAGCCGAGACCCTCACAGTAGACCCGGAGTCAACCACCACCCAGGAGGAGCCCCACACAGAGTCACCAGGAGACCCTGAGTTGCAGCAAgtgagtgtgatttggccaacaactgtaccctgcctcctcaccaggccctg Alignment from GeneWise ---GTGGAGCCTGCCGAGGAAGCCGCCCCTGCTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTCTACCTGGATCTCACACCGGTCAAGTCCTTCCTGCACAGTAGCAGTGAGGCTCAGGCGCAGGCCTCTCTCCCAGCAGTGCCACATCAGGACGATGTAGCTGAGACCCTCACAGTAGACCCAAAGCCAGGCACCACCCCAGAGGAGCCCCACACAGAGTCTCCAGGAGACCCAGAGGTGCAGCAG cttacagctaagggaataagggagtaaattgttcctttggttttggacagGGGGTGGAACCGGCTGAGGAAGCAGCCCCTACTGTCGATGCTAACAGTGGTAGTGAGCCAGACAGAGTGTACTTGGATCTTACACCAGTCAAGTCCTTCCTGCACAGTAGTAGCGAGGCTCAGGCACAGGCCTCTCTTCCTGCTGTGCCACATCAGGATGATGTAGCCGAGACCCTCACAGTAGACCCGGAGTCAACCACCACCCAGGAGGAGCCCCACACAGAGTCACCAGGAGACCCTGAGTTGCAGCAAgtgagtgtgatttggccaacaactgtaccctgcctcctcaccaggccctg #### Aldh3b1_ID204_3 --> 0 - 1 Original Alignment GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg cccgctccctgtgaggccccacagaaccctcttcccttgcactctgacagGCTACACAGTTGGACTCAGCCTTCATCAGGAAGGAGCCCTTTGGTCTGGTGCTAATCATTGTGCCTTGGAATTATCCCATTAACTTGACACTTGTGCCACTGGTGGGG------------ggtaacaagttcttctagaaactgctaaccctccaacagccctccacatgg Alignment from CESAR GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCATAGCTGCAg cccgctccctgtgaggccccacagaaccctcttcccttgcactctgacagGCTACACAGTTGGACTCAGCCTTCATCAGGAAGGAGCCCTTTGGTCTGGTGCTAATCATTGTGCCTTGGAATTATCCCATTAACTTGACACTTGTGCCACTGGTGGGG------------ggtaacaagttcttctagaaactgctaaccctccaacagccctccacatgg Alignment from Spaln_aa2Genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGG- cccgctccctgtgaggccccacagaaccctcttcccttgcactctgacagGCTACACAGTTGGACTCAGCCTTCATCAGGAAGGAGCCCTTTGGTCTGGTGCTAATCATTGTGCCTTGGAATTATCCCATTAACTTGACACTTGTGCCACTGGTGGGGGgtaacaagttcttctagaaactgctaaccctccaacagccctccacatgg Alignment from Spaln_nt2Genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGG cccgctccctgtgaggccccacagaaccctcttcccttgcactctgacagGCTACACAGTTGGACTCAGCCTTCATCAGGAAGGAGCCCTTTGGTCTGGTGCTAATCATTGTGCCTTGGAATTATCCCATTAACTTGACACTTGTGCCACTGGTGGGGGgtaacaagttcttctagaaactgctaaccctccaacagccctccacatgg Alignment from Pairagon GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGG cccgctccctgtgaggccccacagaaccctcttcccttgcactctgacagGCTACACAGTTGGACTCAGCCTTCATCAGGAAGGAGCCCTTTGGTCTGGTGCTAATCATTGTGCCTTGGAATTATCCCATTAACTTGACACTTGTGCCACTGGTGGGGGgtaacaagttcttctagaaactgctaaccctccaacagccctccacatgg Alignment from Exonerate_protein2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCA cccgctccctgtgaggccccacagaaccctcttcccttgcactctgacagGCTACACAGTTGGACTCAGCCTTCATCAGGAAGGAGCCCTTTGGTCTGGTGCTAATCATTGTGCCTTGGAATTATCCCATTAACTTGACACTTGTGCCACTGGTGGGGGGTAacaagttcttctagaaactgctaaccctccaacagccctccacatgg Alignment from Exonerate_coding2genome GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGGCCA cccgctccctgtgaggccccacagaaccctcttcccttgcactctgacagGCTACACAGTTGGACTCAGCCTTCATCAGGAAGGAGCCCTTTGGTCTGGTGCTAATCATTGTGCCTTGGAATTATCCCATTAACTTGACACTTGTGCCACTGGTGGGGGGTAacaagttcttctagaaactgctaaccctccaacagccctccacatgg Alignment from GeneWise GCTACACAGCTGGACTCAGCCTTCATCCGGAAGGAGCCCTTCGGTCTGGTGCTTATCATCGTGCCCTGGAATTATCCCATTAACCTGACACTCGTGCCGCTGGTGGGGG cccgctccctgtgaggccccacagaaccctcttcccttgcactctgacagGCTACACAGTTGGACTCAGCCTTCATCAGGAAGGAGCCCTTTGGTCTGGTGCTAATCATTGTGCCTTGGAATTATCCCATTAACTTGACACTTGTGCCACTGGTGGGGGgtaacaagttcttctagaaactgctaaccctccaacagccctccacatgg #### Aldh3b2_ID239_5 --> 2 - 0 Original Alignment ga---AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtatgcaagcaccaacctcccctcactagaactctagccttgtgttgcaggaGAGAACTGTGTGGTATTGAAGCCATCTGAAATTAGTAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCACAGCATCTGGACCAGgtaatgatggcttttcttgttcagcagttgatacacccacacctgtgtgc Alignment from CESAR ga---AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtatgcaagcaccaacctcccctcactagaactctagccttgtgttgcaggaGAGAACTGTGTGGTATTGAAGCCATCTGAAATTAGTAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCACAGCATCTGGACCAGgtaatgatggcttttcttgttcagcagttgatacacccacacctgtgtgc Alignment from Spaln_aa2Genome GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtatgcaagcaccaacctcccctcactagaactctagccttgtgttgcaggagAGAACTGTGTGGTATTGAAGCCATCTGAAATTAGTAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCACAGCATCTGGACCAGgtaatgatggcttttcttgttcagcagttgatacacccacacctgtgtgc Alignment from Spaln_nt2Genome GAAACTGTGTG---GTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtatgcaagcaccaacctcccctcactagaactctagccttgtgttgcagGAGAGAACTGTGTGGTATTGAAGCCATCTGAAATTAGTAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCACAGCATCTGGACCAGgtaatgatggcttttcttgttcagcagttgatacacccacacctgtgtgc Alignment from Pairagon GA---AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtatgcaagcaccaacctcccctcactagaactctagccttgtgttgcagGAGAGAACTGTGTGGTATTGAAGCCATCTGAAATTAGTAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCACAGCATCTGGACCAGgtaatgatggcttttcttgttcagcagttgatacacccacacctgtgtgc Alignment from Exonerate_protein2genome GA---AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtatgcaagcaccaacctcccctcactagaactctagccttgtgttgcagGAGAGAACTGTGTGGTATTGAAGCCATCTGAAATTAGTAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCACAGCATCTGGACCAGgtaatgatggcttttcttgttcagcagttgatacacccacacctgtgtgc Alignment from Exonerate_coding2genome GA---AACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtatgcaagcaccaacctcccctcactagaactctagccttgtgttgcagGAGAGAACTGTGTGGTATTGAAGCCATCTGAAATTAGTAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCACAGCATCTGGACCAGgtaatgatggcttttcttgttcagcagttgatacacccacacctgtgtgc Alignment from GeneWise GAAACTGTGTGGTGCTGAAGCCATCAGAAATTAGCAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCCCAGTATCTGGACCAG gtatgcaagcaccaacctcccctcactagaactctagccttgtgttgcaggagAGAACTGTGTGGTATTGAAGCCATCTGAAATTAGTAAGAACACAGAGAAGGTGCTGGCAGAGCTGCTGCCACAGCATCTGGACCAGgtaatgatggcttttcttgttcagcagttgatacacccacacctgtgtgc #### Aldh3b2_ID240_6 --> 0 - 1 Original Alignment ---------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg tagttgccctgccctgtgtctgactactgactcccctcttttcctcacagGAACGGGTGAGCTGCTTTGCTGTGATGTTGGGAGGACCTGAGGAGACCAGGCAGCTGCTGGAACACAAATTCGACTATATCTTCTTCACAggtgagcagagccctgaggatatgggggccctgtccaggacctggggtaga Alignment from CESAR ---------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAg tagttgccctgccctgtgtctgactactgactcccctcttttcctcacagGAACGGGTGAGCTGCTTTGCTGTGATGTTGGGAGGACCTGAGGAGACCAGGCAGCTGCTGGAACACAAATTCGACTATATCTTCTTCACAggtgagcagagccctgaggatatgggggccctgtccaggacctggggtaga Alignment from Spaln_aa2Genome AGCTGCTTT---------GCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG tagttgccctgccctgtgtctgactactgactcccctcttttcctcacagGAACGGGTGAGCTGCTTTGCTGTGATGTTGGGAGGACCTGAGGAGACCAGGCAGCTGCTGGAACACAAATTCGACTATATCTTCTTCACAGgtgagcagagccctgaggatatgggggccctgtccaggacctggggtaga Alignment from Spaln_nt2Genome GAGCTGCTTT--------GCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG tagttgccctgccctgtgtctgactactgactcccctcttttcctcacagGAACGGGTGAGCTGCTTTGCTGTGATGTTGGGAGGACCTGAGGAGACCAGGCAGCTGCTGGAACACAAATTCGACTATATCTTCTTCACAGgtgagcagagccctgaggatatgggggccctgtccaggacctggggtaga Alignment from Pairagon ---------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG tagttgccctgccctgtgtctgactactgactcccctcttttcctcacagGAACGGGTGAGCTGCTTTGCTGTGATGTTGGGAGGACCTGAGGAGACCAGGCAGCTGCTGGAACACAAATTCGACTATATCTTCTTCACAGgtgagcagagccctgaggatatgggggccctgtccaggacctggggtaga Alignment from Exonerate_protein2genome ---------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG tagttgccctgccctgtgtctgactactgactcccctcttttcctcacagGAACGGGTGAGCTGCTTTGCTGTGATGTTGGGAGGACCTGAGGAGACCAGGCAGCTGCTGGAACACAAATTCGACTATATCTTCTTCACAGgtgagcagagccctgaggatatgggggccctgtccaggacctggggtaga Alignment from Exonerate_coding2genome ---------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG tagttgccctgccctgtgtctgactactgactcccctcttttcctcacagGAACGGGTGAGCTGCTTTGCTGTGATGTTGGGAGGACCTGAGGAGACCAGGCAGCTGCTGGAACACAAATTCGACTATATCTTCTTCACAGgtgagcagagccctgaggatatgggggccctgtccaggacctggggtaga Alignment from GeneWise ---------AGCTGCTTTGCTGTGATGTTGGGAGGACCCGAGGAGACCAGGCAGCTGCTGGAACACAAATTTGACTATATCTTCTTCACAG tagttgccctgccctgtgtctgactactgactcccctcttttcctcacagGAACGGGTGAGCTGCTTTGCTGTGATGTTGGGAGGACCTGAGGAGACCAGGCAGCTGCTGGAACACAAATTCGACTATATCTTCTTCACAGgtgagcagagccctgaggatatgggggccctgtccaggacctggggtaga #### Ankrd13d_ID460_13 --> 2 - 0 Original Alignment gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG------ tctctgatctgcctttgggctaaatgcacaacccctttccccttccccaggaAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGCATCTTgtgagctgtgggatggtgggttatggcccccacagtctcaggcccaaggt Alignment from CESAR gaAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG------ tctctgatctgcctttgggctaaatgcacaacccctttccccttccccaggaAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGCATCTTgtgagctgtgggatggtgggttatggcccccacagtctcaggcccaaggt Alignment from Spaln_aa2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG------ tctctgatctgcctttgggctaaatgcacaacccctttccccttccccagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGCATCTTgtgagctgtgggatggtgggttatggcccccacagtctcaggcccaaggt Alignment from Spaln_nt2Genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG------ tctctgatctgcctttgggctaaatgcacaacccctttccccttccccagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGCATCTTgtgagctgtgggatggtgggttatggcccccacagtctcaggcccaaggt Alignment from Pairagon GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAG----------------------------------------------------------- tctctgatctgcctttgggctaaatgcacaacccctttccccttccccagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGCATCTTGTGAGCTGTGGGATGGTGGGTTATGGCCCCCACAGTCTCAGGCCCAAGGT Alignment from Exonerate_protein2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG tctctgatctgcctttgggctaaatgcacaacccctttccccttccccagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGcatcttgtgagctgtgggatggtgggttatggcccccacagtctcaggcccaaggt Alignment from Exonerate_coding2genome GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG tctctgatctgcctttgggctaaatgcacaacccctttccccttccccagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGcatcttgtgagctgtgggatggtgggttatggcccccacagtctcaggcccaaggt Alignment from GeneWise GAAGCCCTTTTCCATGTGAGGTGGACCCCACTGTATTCGAGGTGCCCGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGCGAGCCCCTTCGGGATGAGGATGACGACCTGCTGCAGTTTGCCATCCAGCAGAGCCTGCTTGAGGCAGGCACAGAGGCAGAGCAG------ tctctgatctgcctttgggctaaatgcacaacccctttccccttccccagGAAGCCTTTATCCATGTGAGGTAGACTCCACTGTGTTTGAGGCACCTGAGGGATACAGTGTGCTGGGTGCTGAGCGCAGTGAGCCCCTCCAGGATGAAGATGATGAGCTGCTGCAATTTGCCATCCAGCAGAGCCTGCTGGAGGCAGGCACAGAGGCAGAGCAGCATCTTgtgagctgtgggatggtgggttatggcccccacagtctcaggcccaaggt #### Ankrd13d_ID461_12 --> 2 - 1 Original Alignment ag---------------ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAg aggggttactggggtgtgccggcaaccttctacttcctttcttcctgcagagTTAACTCCCCAAGCCATTCCCCTCTTTCATGTGCTTAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGCGTCCCCAACTCCAGTTCAGCCATTTCTGCTTCAggtaaggctatagctacatatgatattaccagctggcaactctctgatctg Alignment from CESAR ag---------------ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAg aggggttactggggtgtgccggcaaccttctacttcctttcttcctgcagagTTAACTCCCCAAGCCATTCCCCTCTTTCATGTGCTTAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGCGTCCCCAACTCCAGTTCAGCCATTTCTGCTTCAggtaaggctatagctacatatgatattaccagctggcaactctctgatctg Alignment from Spaln_aa2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aggggttactggggtgtgccggcaaccttctacttcctttcttcctgcagagttaactccccaagCCATTCCCCTCTTTCATGTGCTTAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGCGTCCCCAACTCCAGTTCAGCCATTTCTGCTTCAGgtaaggctatagctacatatgatattaccagctggcaactctctgatctg Alignment from Spaln_nt2Genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aggggttactggggtgtgccggcaaccttctacttcctttcttcctgcagagttaactccccaagCCATTCCCCTCTTTCATGTGCTTAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGCGTCCCCAACTCCAGTTCAGCCATTTCTGCTTCAGgtaaggctatagctacatatgatattaccagctggcaactctctgatctg Alignment from Pairagon AG---------------ATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aggggttactggggtgtgccggcaaccttctacttcctttcttcctgcagAGTTAACTCCCCAAGCCATTCCCCTCTTTCATGTGCTTAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGCGTCCCCAACTCCAGTTCAGCCATTTCTGCTTCAGgtaaggctatagctacatatgatattaccagctggcaactctctgatctg Alignment from Exonerate_protein2genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aggggttactggggtgtgccggcaaccttctacttcctttcttcctgcagagttaactccccaagCCATTCCCCTCTTTCATGTGCTTAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGCGTCCCCAACTCCAGTTCAGCCATTTCTGCTTCAGgtaaggctatagctacatatgatattaccagctggcaactctctgatctg Alignment from Exonerate_coding2genome AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aggggttactggggtgtgccggcaaccttctacttcctttcttcctgcagagttaactccccaagCCATTCCCCTCTTTCATGTGCTTAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGCGTCCCCAACTCCAGTTCAGCCATTTCTGCTTCAGgtaaggctatagctacatatgatattaccagctggcaactctctgatctg Alignment from GeneWise AGATTCCCCTCTTCCATGTGCTCAATGCCCGCATCACCTTCAGTAACCTTTGCGGCTGTGATGAGCCTGTGAGCTCGGTGTGCGTCCCCAACTCCAGTTCTGCCATTTCTGCTTCAG aggggttactggggtgtgccggcaaccttctacttcctttcttcctgcagagttaactccccaagCCATTCCCCTCTTTCATGTGCTTAATGCCCGCATCACCTTCAGTAACCTTTGTGGCTGTGATGAACCTGTGAGCTCAGTGTGCGTCCCCAACTCCAGTTCAGCCATTTCTGCTTCAGgtaaggctatagctacatatgatattaccagctggcaactctctgatctg #### Ankrd13d_ID464_9 --> 2 - 0 Original Alignment ggGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG--- ttacttaagtaggcaagaatttcctcatctgtgtgcccccttcctcccagggGGGAAGACTCCATTCCAGTCCTTCTTGGGTATGGCCCAGCAGCACTCTTCCCACACTTTGTCAgtaagcttggcgaggggagggctgggacaagcctgggtgggtggggccct Alignment from CESAR ggGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG--- ttacttaagtaggcaagaatttcctcatctgtgtgcccccttcctcccagggGGGAAGACTCCATTCCAGTCCTTCTTGGGTATGGCCCAGCAGCACTCTTCCCACACTTTGTCAgtaagcttggcgaggggagggctgggacaagcctgggtgggtggggccct Alignment from Spaln_aa2Genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG--- ttacttaagtaggcaagaatttcctcatctgtgtgcccccttcctcccagGGGGGAAGACTCCATTCCAGTCCTTCTTGGGTATGGCCCAGCAGCACTCTTCCCACACTTTGTCAgtaagcttggcgaggggagggctgggacaagcctgggtgggtggggccct Alignment from Spaln_nt2Genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG--- ttacttaagtaggcaagaatttcctcatctgtgtgcccccttcctcccagGGGGGAAGACTCCATTCCAGTCCTTCTTGGGTATGGCCCAGCAGCACTCTTCCCACACTTTGTCAgtaagcttggcgaggggagggctgggacaagcctgggtgggtggggccct Alignment from Pairagon GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG--- ttacttaagtaggcaagaatttcctcatctgtgtgcccccttcctcccagGGGGGAAGACTCCATTCCAGTCCTTCTTGGGTATGGCCCAGCAGCACTCTTCCCACACTTTGTCAgtaagcttggcgaggggagggctgggacaagcctgggtgggtggggccct Alignment from Exonerate_protein2genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG--- ttacttaagtaggcaagaatttcctcatctgtgtgcccccttcctcccagGGGGGAAGACTCCATTCCAGTCCTTCTTGGGTATGGCCCAGCAGCACTCTTCCCACACTTTGTCAgtaagcttggcgaggggagggctgggacaagcctgggtgggtggggccct Alignment from Exonerate_coding2genome GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTG--- ttacttaagtaggcaagaatttcctcatctgtgtgcccccttcctcccagGGGGGAAGACTCCATTCCAGTCCTTCTTGGGTATGGCCCAGCAGCACTCTTCCCACACTTTGTCAgtaagcttggcgaggggagggctgggacaagcctgggtgggtggggccct Alignment from GeneWise GGGGGAAGACTCCATTCCAGTCCTTCCTGGGCATGGCCCAGCAGCACTCCTCCCACACTTTGGCT ttacttaagtaggcaagaatttcctcatctgtgtgcccccttcctcccagGGGGGAAGACTCCATTCCAGTCCTTCTTGGGTATGGCCCAGCAGCACTCTTCCCACACTTTGTCAgtaagcttggcgaggggagggctgggacaagcctgggtgggtggggccct #### Ankrd13d_ID471_2 --> 0 - 1 Original Alignment ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg gctttggtcctcttttcccatgtattaaatcttactttttgggatatcagGACCTTCATGACATTGAGCAGGAGGACCCCCAAGGGCGGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCAACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCTggtgagttactgggcagtgggtttccctttgagtttatcttccatgttggt Alignment from CESAR ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAg gctttggtcctcttttcccatgtattaaatcttactttttgggatatcagGACCTTCATGACATTGAGCAGGAGGACCCCCAAGGGCGGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCAACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCTggtgagttactgggcagtgggtttccctttgagtttatcttccatgttggt Alignment from Spaln_aa2Genome CACGACATT------GAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gctttggtcctcttttcccatgtattaaatcttactttttgggatatcagGACCTTCATGACATTGAGCAGGAGGACCCCCAAGGGCGGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCAACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCTGgtgagttactgggcagtgggtttccctttgagtttatcttccatgttggt Alignment from Spaln_nt2Genome CACGACATTGA------GCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gctttggtcctcttttcccatgtattaaatcttactttttgggatatcagGACCTTCATGACATTGAGCAGGAGGACCCCCAAGGGCGGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCAACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCTGgtgagttactgggcagtgggtttccctttgagtttatcttccatgttggt Alignment from Pairagon ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gctttggtcctcttttcccatgtattaaatcttactttttgggatatcagGACCTTCATGACATTGAGCAGGAGGACCCCCAAGGGCGGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCAACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCTGgtgagttactgggcagtgggtttccctttgagtttatcttccatgttggt Alignment from Exonerate_protein2genome ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gctttggtcctcttttcccatgtattaaatcttactttttgggatatcagGACCTTCATGACATTGAGCAGGAGGACCCCCAAGGGCGGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCAACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCTGgtgagttactgggcagtgggtttccctttgagtttatcttccatgttggt Alignment from Exonerate_coding2genome ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gctttggtcctcttttcccatgtattaaatcttactttttgggatatcagGACCTTCATGACATTGAGCAGGAGGACCCCCAAGGGCGGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCAACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCTGgtgagttactgggcagtgggtttccctttgagtttatcttccatgttggt Alignment from GeneWise ------CACGACATTGAGCAGGAGGACCCCCAAGGGCGAACCCCCCTGGAGCTTGCTGTGACCTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCGACATAATGCCAACGTGGGCAAAGAGAGCCACCAGGGCTGGGCAG gctttggtcctcttttcccatgtattaaatcttactttttgggatatcagGACCTTCATGACATTGAGCAGGAGGACCCCCAAGGGCGGACCCCCCTGGAGCTTGCTGTGACTTTGGGGAACTTGGAGTCTGTGAGAGTCCTCCTCCAACATAATGCCAATGTGGGCAAAGAAAGCCACCAAGGCTGGGCTGgtgagttactgggcagtgggtttccctttgagtttatcttccatgttggt #### Ankrd2_ID8374_8 --> 0 - 0 Original Alignment GAAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCTAAGAACCTG ctctacccacccattgacctcaaggttggaagccctagctctgtccacag---GGGGACAGTGCCCTACATGATGCTGTGAGGCTCAACCGCTACAAAATCATCAAACTGCTGCTCTTACATGGGGCAGACATGATGGCTAAGAACCTGgtaagtctgttccttggggcttgatggttcggggtgcccttgcatggcgg Alignment from CESAR GAAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCTAAGAACCTG tcactctacccacccattgacctcattggaagccctagctctgtccacag---GGGGACAGTGCCCTACATGATGCTGTGAGGCTCAACCGCTACAAAATCATCAAACTGCTGCTCTTACATGGGGCAGACATGATGGCTAAGAACCTGgtaagtctgttccttggggcttgatggttcggggtgcccttgcatggcgg Alignment from Spaln_aa2Genome GAAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCTAAGAACCTG ctctacccacccattgacctcaaggttggaagccctagctctgtccacag---GGGGACAGTGCCCTACATGATGCTGTGAGGCTCAACCGCTACAAAATCATCAAACTGCTGCTCTTACATGGGGCAGACATGATGGCTAAGAACCTGgtaagtctgttccttggggcttgatggttcggggtgcccttgcatggcgg Alignment from Spaln_nt2Genome GGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCTAAGAACCTG ctctacccacccattgacctcaaggttggaagccctagctctgtccacagGGGGACAGTGCCCTACATGATGCTGTGAGGCTCAACCGCTACAAAATCATCAAACTGCTGCTCTTACATGGGGCAGACATGATGGCTAAGAACCTGgtaagtctgttccttggggcttgatggttcggggtgcccttgcatggcgg Alignment from Pairagon GAAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCTAAGAACCTG ctctacccacccattgacctcaaggttggaagccctagctctgtccacag---GGGGACAGTGCCCTACATGATGCTGTGAGGCTCAACCGCTACAAAATCATCAAACTGCTGCTCTTACATGGGGCAGACATGATGGCTAAGAACCTGgtaagtctgttccttggggcttgatggttcggggtgcccttgcatggcgg Alignment from Exonerate_protein2genome AAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCTAAGAACCTG ctctacccacccattgacctcaaggttggaagccctagctctgtccacAGGGGGACAGTGCCCTACATGATGCTGTGAGGCTCAACCGCTACAAAATCATCAAACTGCTGCTCTTACATGGGGCAGACATGATGGCTAAGAACCTGgtaagtctgttccttggggcttgatggttcggggtgcccttgcatggcgg Alignment from Exonerate_coding2genome AAGGGGACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCTAAGAACCTG ctctacccacccattgacctcaaggttggaagccctagctctgtccacAGGGGGACAGTGCCCTACATGATGCTGTGAGGCTCAACCGCTACAAAATCATCAAACTGCTGCTCTTACATGGGGCAGACATGATGGCTAAGAACCTGgtaagtctgttccttggggcttgatggttcggggtgcccttgcatggcgg Alignment from GeneWise ---GACAGTGCCCTACATGATGCCGTGAGACTCAACCGCTACAAAATCATCAAACTGCTGCTCTTGCATGGGGCGGACATGATGGCTAAGAACCTG ctctacccacccattgacctcaaggttggaagccctagctctgtccacagGGGGACAGTGCCCTACATGATGCTGTGAGGCTCAACCGCTACAAAATCATCAAACTGCTGCTCTTACATGGGGCAGACATGATGGCTAAGAACCTGgtaagtctgttccttggggcttgatggttcggggtgcccttgcatggcgg #### Atg2a_ID1518_7 --> 2 - 1 Original Alignment acCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---g gtgggtgaaaccaggacagccaggcaggttttgacactggtcttttgcagacCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGACCTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAAGCGGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGCTggtaagtcccagccattttcaatcgaagggacattggcatcagtgaaaaag Alignment from CESAR acCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---g gtgggtgaaaccaggacagccaggcaggttttgacactggtcttttgcagacCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGACCTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAAGCGGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGCTggtaagtcccagccattttcaatcgaagggacattggcatcagtgaaaaag Alignment from Spaln_aa2Genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---G gtgggtgaaaccaggacagccaggcaggttttgacactggtcttttgcagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGACCTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAAGCGGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGCTGgtaagtcccagccattttcaatcgaagggacattggcatcagtgaaaaag Alignment from Spaln_nt2Genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGG--- gtgggtgaaaccaggacagccaggcaggttttgacactggtcttttgcagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGACCTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAAGCGGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGCTGgtaagtcccagccattttcaatcgaagggacattggcatcagtgaaaaag Alignment from Pairagon ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGG--- gtgggtgaaaccaggacagccaggcaggttttgacactggtcttttgcagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGACCTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAAGCGGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGCTGgtaagtcccagccattttcaatcgaagggacattggcatcagtgaaaaag Alignment from Exonerate_protein2genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---G gtgggtgaaaccaggacagccaggcaggttttgacactggtcttttgcagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGACCTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAAGCGGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGCTGgtaagtcccagccattttcaatcgaagggacattggcatcagtgaaaaag Alignment from Exonerate_coding2genome ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACG---G gtgggtgaaaccaggacagccaggcaggttttgacactggtcttttgcagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGACCTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAAGCGGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGCTGgtaagtcccagccattttcaatcgaagggacattggcatcagtgaaaaag Alignment from GeneWise ACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAGGACTTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAGGCGGGTGCTGTGGCTGAGTCCCTCAGCCTGTACCCCATCACCAACCCCCTCAATTTGGACAGCACGGAC- gtgggtgaaaccaggacagccaggcaggttttgacactggtcttttgcagACCCTGCAGGCCTGGCCGACAAGCTGAACAAGAGCCGTCCACTGGGTGCTGAAGACCTGTGGCTCATTGAGCAAGATCTGAACCAGCAGCTGCAAGCGGGTGCTGTGGCAGAGTCCCTCAGCTTGTACCCCACAACCAACCCCCTCAATTTGGACAGCACGGCTGgtaagtcccagccattttcaatcgaagggacattggcatcagtgaaaaag #### Atg2a_ID1525_14 --> 2 - 2 Original Alignment gaATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTca aaccacatcataccctatacgaaaggccagccattctgccttttccttagga---------------------------GTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTcagtatgcgaattgtcagtaggggtggctatagagggcaaaacttttggtgg Alignment from CESAR gaATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTca ggagcagggaagagccagctatgaggccagccattctgccttttccttagga---------------------------GTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTcagtatgcgaattgtcagtaggggtggctatagagggcaaaacttttggtgg Alignment from Spaln_aa2Genome CAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA aaccacatcataccctatacgaaaggccagccattctgccttttccttagGAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtatgcgaattgtcagtaggggtggctatagagggcaaaacttttggtgg Alignment from Spaln_nt2Genome -AGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA aaccacatcataccctatacgaaaggccagccattctgccttttccttagGAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtatgcgaattgtcagtaggggtggctatagagggcaaaacttttggtgg Alignment from Pairagon GAATCTACGAAGATGGAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA aaccacatcataccctatacgaaaggccagccattctgccttttccttagG---------------------------AGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtatgcgaattgtcagtaggggtggctatagagggcaaaacttttggtgg Alignment from Exonerate_protein2genome GAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA aaccacatcataccctatacgaaaggccagccattctgCCTTTTCCTTAGGAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtatgcgaattgtcagtaggggtggctatagagggcaaaacttttggtgg Alignment from Exonerate_coding2genome GAGAGAAGCCACCAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA aaccacatcataccctatacgaaaggccagccattctgCCTTTTCCTTAGGAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtatgcgaattgtcagtaggggtggctatagagggcaaaacttttggtgg Alignment from GeneWise CAGTCCCCTGCCTGCGGGTCTCCAAAGCTCTGAATCCCAGGAGCACTGAGGCCAAGTACTTTCTACCTCA aaccacatcataccctatacgaaaggccagccattctgccttttccttagGAGTCCCCTGCCTGCGAGTATCCAAAGCTCTGAACCCCAGGAGCACTGAGGCCAAGTACTTCCTACCTCAgtatgcgaattgtcagtaggggtggctatagagggcaaaacttttggtgg #### Atg2a_ID1527_16 --> 0 - 2 Original Alignment ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAAC---------ag aagctttcaattctgaaagaaacaggccggcctttgttctgtctttgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGAACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTATACAAAAGTATCTACAACTCTGACCTCaggtaagagcagggagccaggctggtctggtccaggcagggccaggatggag Alignment from CESAR ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAAC---------ag aagctttcaattctgaaagaaacaggccggcctttgttctgtctttgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGAACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTATACAAAAGTATCTACAACTCTGACCTCaggtaagagcagggagccaggctggtctggtccaggcagggccaggatggag Alignment from Spaln_aa2Genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAGG-------- aagctttcaattctgaaagaaacaggccggcctttgttctgtctttgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGAACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTATACAAAAGTATCTACAACTCTGACCTCAGgtaagagcagggagccaggctggtctggtccaggcagggccaggatggag Alignment from Spaln_nt2Genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAAC---------AG aagctttcaattctgaaagaaacaggccggcctttgttctgtctttgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGAACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTATACAAAAGTATCTACAACTCTGACCTCAGgtaagagcagggagccaggctggtctggtccaggcagggccaggatggag Alignment from Pairagon ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAAC------------------------------------------------------------- aagctttcaattctgaaagaaacaggccggcctttgttctgtctttgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGAACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTATACAAAAGTATCTACAACTCTGACCTCAGGTAAGAGCAGGGAGCCAGGCTGGTCTGGTCCAGGCAGGGCCAGGATGGAG Alignment from Exonerate_protein2genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG aagctttcaattctgaaagaaacaggccggcctttgttctgtctttgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGAACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTATACAAAAGTATCTACAACTCtgacctcaggtaagagcagggagccaggctggtctggtccaggcagggccaggatggag Alignment from Exonerate_coding2genome ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAACAG aagctttcaattctgaaagaaacaggccggcctttgttctgtctttgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGAACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTATACAAAAGTATCTACAACTCtgacctcaggtaagagcagggagccaggctggtctggtccaggcagggccaggatggag Alignment from GeneWise ATGGTGATCCCTGGAGACCCTGAAGAGATGAGGACATTCCAGAGCCGGACACTGGCACTGTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTCTACGAAAGTATCTACAAC---------AG aagctttcaattctgaaagaaacaggccggcctttgttctgtctttgcagATGGTGATCCCTGGAGACCCAGAAGAGATGAGGACATTCCAGAGCCGAACACTGGCACTCTCCCGCTGTACTCTGGATGTGATCATGCCCAGTGCCCACATCTTCCTGCCCAGTAAGGAGGTATACAAAAGTATCTACAACTCTGACCTCAGgtaagagcagggagccaggctggtctggtccaggcagggccaggatggag #### Atg2a_ID1528_17 --> 1 - 1 Original Alignment gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAg aggatggaggttctgacttctgaccactcatttgttcttttttatggtaggATCAATAATGACCTGCTTATGTGGGAGCCTGCAGATCTGCTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCC---------ggtaagtgaatacttctttggacactggctggacaggaagggggattgcag Alignment from CESAR gATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAg aggatggaggttctgacttctgaccactcatttgttcttttttatggtaggATCAATAATGACCTGCTTATGTGGGAGCCTGCAGATCTGCTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCC---------ggtaagtgaatacttctttggacactggctggacaggaagggggattgcag Alignment from Spaln_aa2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCC- aggatggaggttctgacttctgaccactcatttgttcttttttatggtagGATCAATAATGACCTGCTTATGTGGGAGCCTGCAGATCTGCTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCGgtaagtgaatacttctttggacactggctggacaggaagggggattgcag Alignment from Spaln_nt2Genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCT aggatggaggttctgacttctgaccactcatttgttcttttttatggtagGATCAATAATGACCTGCTTATGTGGGAGCCTGCAGATCTGCTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCGgtaagtgaatacttctttggacactggctggacaggaagggggattgcag Alignment from Pairagon GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG aggatggaggttctgacttctgaccactcatttgttcttttttatggtagGATCAATAATGACCTGCTTATGTGGGAGCCTGCAGATCTGCTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCC---------Ggtaagtgaatacttctttggacactggctggacaggaagggggattgcag Alignment from Exonerate_protein2genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG aggatggaggttctgacttctgaccactcatttgttcttttttatggtagGATCAATAATGACCTGCTTATGTGGGAGCCTGCAGATCTGCTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCC---------Ggtaagtgaatacttctttggacactggctggacaggaagggggattgcag Alignment from Exonerate_coding2genome GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCCTTCAAGCTAG aggatggaggttctgacttctgaccactcatttgttcttttttatggtagGATCAATAATGACCTGCTTATGTGGGAGCCTGCAGATCTGCTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCC---------Ggtaagtgaatacttctttggacactggctggacaggaagggggattgcag Alignment from GeneWise GATCAATAACGACCTGCTCATGTGGGAGCCTGCAGACCTGCTTCCCACATCCAGCGCTGCTGCTCGGCCGCCTGGCTCTTCGGGGTTCAAGATGTGCAAGTCAGCC- aggatggaggttctgacttctgaccactcatttgttcttttttatggtagGATCAATAATGACCTGCTTATGTGGGAGCCTGCAGATCTGCTTCCCACATCCAGTGCTGCTGCTCGGCCACCTGGCTCTTCAGGGTTCAAGATGTGCAAGTCAGCCGgtaagtgaatacttctttggacactggctggacaggaagggggattgcag #### Atg2a_ID1530_19 --> 0 - 1 Original Alignment GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAg catagatcccaagctccaatcccagcaacctgcctttttctttccccaagGATGAGACAGGGAAACGGCTGGATGTCACTCATGGGGAGCTGGTACTAGATGTGAAGCAAGGTACGATCTTCAGTGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTACCAT---ggtacagagtgagtcactaagacaaacattgaactgggctggggacctcag Alignment from CESAR GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAg catagatcccaagctccaatcccagcaacctgcctttttctttccccaagGATGAGACAGGGAAACGGCTGGATGTCACTCATGGGGAGCTGGTACTAGATGTGAAGCAAGGTACGATCTTCAGTGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTACCAT---ggtacagagtgagtcactaagacaaacattgaactgggctggggacctcag Alignment from Spaln_aa2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCAT- catagatcccaagctccaatcccagcaacctgcctttttctttccccaagGATGAGACAGGGAAACGGCTGGATGTCACTCATGGGGAGCTGGTACTAGATGTGAAGCAAGGTACGATCTTCAGTGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTACCATGgtacagagtgagtcactaagacaaacattgaactgggctggggacctcag Alignment from Spaln_nt2Genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCGAG catagatcccaagctccaatcccagcaacctgcctttttctttccccaagGATGAGACAGGGAAACGGCTGGATGTCACTCATGGGGAGCTGGTACTAGATGTGAAGCAAGGTACGATCTTCAGTGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTACCAT---Ggtacagagtgagtcactaagacaaacattgaactgggctggggacctcag Alignment from Pairagon GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATCG------------------------------------------------- catagatcccaagctccaatcccagcaacctgcctttttctttccccaagGATGAGACAGGGAAACGGCTGGATGTCACTCATGGGGAGCTGGTACTAGATGTGAAGCAAGGTACGATCTTCAGTGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTACCATGGTACAGAGTGAGTCACTAAGACAAACATTGAACTGGGCTGGGGACCTCAG Alignment from Exonerate_protein2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATC catagatcccaagctccaatcccagcaacctgcctttttctttccccaagGATGAGACAGGGAAACGGCTGGATGTCACTCATGGGGAGCTGGTACTAGATGTGAAGCAAGGTACGATCTTCAGTGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTACCATGgtacagagtgagtcactaagacaaacattgaactgggctggggacctcag Alignment from Exonerate_coding2genome GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATC catagatcccaagctccaatcccagcaacctgcctttttctttccccaagGATGAGACAGGGAAACGGCTGGATGTCACTCATGGGGAGCTGGTACTAGATGTGAAGCAAGGTACGATCTTCAGTGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTACCATGgtacagagtgagtcactaagacaaacattgaactgggctggggacctcag Alignment from GeneWise GATGAGACAGGGAAGCGGCTGGATGTCACTCACGGGGAGCTGGTACTAGATGTGGAGCAAGGCACCATCTTCAGCGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAAAAGGCCAAACTCTACCATC catagatcccaagctccaatcccagcaacctgcctttttctttccccaagGATGAGACAGGGAAACGGCTGGATGTCACTCATGGGGAGCTGGTACTAGATGTGAAGCAAGGTACGATCTTCAGTGTAGCCCAGTACCGTGGCCAACCAGGGCTTGGCTACTTCTGCCTGGAAGCTGAGAAGGCCAAACTCTACCATGgtacagagtgagtcactaagacaaacattgaactgggctggggacctcag #### Atg2a_ID1532_21 --> 0 - 0 Original Alignment GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG cactggagccagcatctcaaattcctgcacattgtcttctgtcattacagGAATTTTTGGTGACAGTACGGCTGCACAAAGCAACCCTTCGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCC---gtaaggaggaaaggcacctcagaagtcatgttgccctggaactacaaact Alignment from CESAR GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG cactggagccagcatctcaaattcctgcacattgtcttctgtcattacagGAATTTTTGGTGACAGTACGGCTGCACAAAGCAACCCTTCGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCC---gtaaggaggaaaggcacctcagaagtcatgttgccctggaactacaa Alignment from Spaln_aa2Genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCC cactggagccagcatctcaaattcctgcacattgtcttctgtcattacagGAATTTTTGGTGACAGTACGGCTGCACAAAGCAACCCTTCGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCgtaaggaggaaaggcacctcagaagtcatgttgccctggaactacaaact Alignment from Spaln_nt2Genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCC----------AG cactggagccagcatctcaaattcctgcacattgtcttctgtcattacagGAATTTTTGGTGACAGTACGGCTGCACAAAGCAACCCTTCGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCGTAAGGAGGAAAGgcacctcagaagtcatgttgccctggaactacaaact Alignment from Pairagon GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCC cactggagccagcatctcaaattcctgcacattgtcttctgtcattacagGAATTTTTGGTGACAGTACGGCTGCACAAAGCAACCCTTCGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCCgtaaggaggaaaggcacctcagaagtcatgttgccctggaactacaaact Alignment from Exonerate_protein2genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG cactggagccagcatctcaaattcctgcacattgtcttctgtcattacagGAATTTTTGGTGACAGTACGGCTGCACAAAGCAACCCTTCGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCC---gtaaggaggaaaggcacctcagaagtcatgttgccctggaactacaa Alignment from Exonerate_coding2genome GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG cactggagccagcatctcaaattcctgcacattgtcttctgtcattacagGAATTTTTGGTGACAGTACGGCTGCACAAAGCAACCCTTCGCCACTACATGGCCCCACCTGAACAGAGCTGGCATTCC---gtaaggaggaaaggcacctcagaagtcatgttgccctggaactacaa Alignment from GeneWise GAATTTTTGGTGACAGTACGGCTGCACAAAGCCACTCTACGCCACTACATGGCCCCACCTGAACAGAGCTGGCACTCCCAG cactggagccagcatctcaaattcctgcacattgtcttctgtcattacagGAATTTTTGGTGACAGTACGGCTGCACAAAGCAACCCTTCGCCACTACATGGCCCCACCTGAACAGAGCTGGCAT---TCCgtaaggaggaaaggcacctcagaagtcatgttgccctggaactacaaact #### Atg2a_ID1534_23 --> 1 - 2 Original Alignment gCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCag gaagaagcctgcttgcttgtctacccgcgcactcttttccttctgaacaga---------------GTGCGTGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACGTTCTTGCTAaggtaggctagctgcccctatgcctggtccattctactcccaaataacttcc Alignment from CESAR gCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCag ggcaagccttacagggaagaagcctcgcgcactcttttccttctgaacaga---------------GTGCGTGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACGTTCTTGCTAaggtaggctagctgcccctatgcctggtccattctactcccaaataacttcc Alignment from Spaln_aa2Genome GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG gaagaagcctgcttgcttgtctacccgcgcactcttttccttctgaacagA---------------GTGCGTGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACGTTCTTGCTAAGgtaggctagctgcccctatgcctggtccattctactcccaaataacttcc Alignment from Spaln_nt2Genome TGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG gaagaagcctgcttgcttgtctacccgcgcactcttttccttctgaacagAGTGCGTGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACGTTCTTGCTAAGgtaggctagctgcccctatgcctggtccattctactcccaaataacttcc Alignment from Pairagon GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG gaagaagcctgcttgcttgtctacccgcgcactcttttccttctgaacag---------------AGTGCGTGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACGTTCTTGCTAAGgtaggctagctgcccctatgcctggtccattctactcccaaataacttcc Alignment from Exonerate_protein2genome CCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG gaagaagcctgcttgcttgtctacccgcgcactcttttccttctgaacAGAGTGCGTGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACGTTCTTGCTAAGgtaggctagctgcccctatgcctggtccattctactcccaaataacttcc Alignment from Exonerate_coding2genome CCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG gaagaagcctgcttgcttgtctacccgcgcactcttttccttctgaacAGAGTGCGTGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACGTTCTTGCTAAGgtaggctagctgcccctatgcctggtccattctactcccaaataacttcc Alignment from GeneWise GCCCCTCTACCTCCCTGTGCGTGTCCTGGTCACTGCTGAGACCTTCACCCTCTCCAGCAACATTGTCATGGACACGTCCACCTTCCTGCTCAG gaagaagcctgcttgcttgtctacccgcgcactcttttccttctgaacagA---------------GTGCGTGTCCTGGTCACTGCAGAGACTTTCACTCTCTCCAGCAACATTGTCATGTACACATCTACGTTCTTGCTAAGgtaggctagctgcccctatgcctggtccattctactcccaaataacttcc #### Atg2a_ID1536_25 --> 2 - 0 Original Alignment atTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tacaagggcagggtgaacatagagtgtgcttcccgactcttctcctctagatTATGTATGTGTGCTGGATATTGACCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGA---gtatgtggaatggggccaataaaagttcagacgattatagttattgttat Alignment from CESAR atTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tacaagggcagggtgaacatagagtgtgcttcccgactcttctcctctagatTATGTATGTGTGCTGGATATTGACCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGA---gtatgtggaatggggccaataaaagttcagacgattatagttattgt Alignment from Spaln_aa2Genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGA tacaagggcagggtgaacatagagtgtgcttcccgactcttctcctctagATTATGTATGTGTGCTGGATATTGACCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGAgtatgtggaatggggccaataaaagttcagacgattatagttattgttat Alignment from Spaln_nt2Genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG- tacaagggcagggtgaacatagagtgtgcttcccgactcttctcctctagATTATGTATGTGTGCTGGATATTGACCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGAGTATgtggaatggggccaataaaagttcagacgattatagttattgttat Alignment from Pairagon ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGA tacaagggcagggtgaacatagagtgtgcttcccgactcttctcctctagATTATGTATGTGTGCTGGATATTGACCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGAgtatgtggaatggggccaataaaagttcagacgattatagttattgttat Alignment from Exonerate_protein2genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tacaagggcagggtgaacatagagtgtgcttcccgactcttctcctctagATTATGTATGTGTGCTGGATATTGACCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGA---gtatgtggaatggggccaataaaagttcagacgattatagttattgt Alignment from Exonerate_coding2genome ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGACTG tacaagggcagggtgaacatagagtgtgcttcccgactcttctcctctagATTATGTATGTGTGCTGGATATTGACCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGA---gtatgtggaatggggccaataaaagttcagacgattatagttattgt Alignment from GeneWise ATTATGTCTGTGTCCTGGATATTGACCTCCTGGAACTTGTCATCAAAACCTGGAAGGGCAGCACTGAGGGCAGA tacaagggcagggtgaacatagagtgtgcttcccgactcttctcctctagATTATGTATGTGTGCTGGATATTGACCTCCTGGAGCTTATCATCAGGACCTGGAAGGGCAGCACTGAGGGCAGAgtatgtggaatggggccaataaaagttcagacgattatagttattgttat #### Atg2a_ID1538_27 --> 0 - 1 Original Alignment ---CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGg ctacccctgcccccgttgctaaatcctgcatgtttcatatccccttacagAAACTTTCAGAAAGCCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAggtaagagagagcaccccaagggcatcaagctaatcaggtcccctcagcca Alignment from CESAR ---CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGg ctacccctgcccccgttgctaaatcctgcatgtttcatatccccttacagAAACTTTCAGAAAGCCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAggtaagagagagcaccccaagggcatcaagctaatcaggtcccctcagcca Alignment from Spaln_aa2Genome AAGCTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG ctacccctgcccccgttgctaaatcctgcatgtttcatatccccttacagAAACTTTCAGAAAGCCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtaagagagagcaccccaagggcatcaagctaatcaggtcccctcagcca Alignment from Spaln_nt2Genome ---CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG ctacccctgcccccgttgctaaatcctgcatgtttcatatccccttacagAAACTTTCAGAAAGCCCTGCCTCTCTGCCTTCGTGCCTAC---TGGAGACAGCCCTCATCAACCAACGAGACCTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtaagagagagcaccccaagggcatcaagctaatcaggtcccctcagcca Alignment from Pairagon ---CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG ctacccctgcccccgttgctaaatcctgcatgtttcatatccccttacagAAACTTTCAGAAAGCCCTGCCTCTCTGCCTTCGTGCCTAC---TGGAGACAGCCCTCATCAACCAACGAGACCTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtaagagagagcaccccaagggcatcaagctaatcaggtcccctcagcca Alignment from Exonerate_protein2genome AAGCTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG ctacccctgcccccgttgctaaatcctgcatgtttcatatccccttacagAAACTTTCAGAAAGCCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtaagagagagcaccccaagggcatcaagctaatcaggtcccctcagcca Alignment from Exonerate_coding2genome AAGCTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG ctacccctgcccccgttgctaaatcctgcatgtttcatatccccttacagAAACTTTCAGAAAGCCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtaagagagagcaccccaagggcatcaagctaatcaggtcccctcagcca Alignment from GeneWise ---CTTTCGGAGAGCCCTGCCTCCCTGCCCTCATGCCTACCTGTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGACGCCCTTCTGGATACTGAACGGCGCGGCCTGCAGGAGCTGGCCCAGTCATCGG ctacccctgcccccgttgctaaatcctgcatgtttcatatccccttacagAAACTTTCAGAAAGCCCTGCCTCTCTGCCTTCGTGCCTA---CTGGAGACAGCCCTCATCAACCAACGAGACCTGACTGATGCCCTTCTAGATACTGAACGGCGTGGCCTACAGGAGCTTGCCGAGTCATCAGgtaagagagagcaccccaagggcatcaagctaatcaggtcccctcagcca #### Atg2a_ID1539_28 --> 2 - 0 Original Alignment gtGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG--------------------- caagctaatcaggtcccctcagccatatctgtctctggctgtccatgcaggtGGTCCACTTCCTCAGGCCTCTCCCATCTCGGTCTAT---TTCCCAGGTGAGCGGAGTGGGGCCCAGGCACCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCGAAGGAGCATGAAAACGAAGAGGAAGGCGATGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGATGCCCCTGGCCTAGGCATTGCATTGAGCATAGTTCTCTGTTGCgtgagtatattgggatgggggctcttgggtaggaggagcaacctcagctt Alignment from CESAR gtGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG--------------------- caagctaatcaggtcccctcagccatatctgtctctggctgtccatgcaggtGGTCCACTTCCTCAGGCCTCTCCCATCTCGGTCTAT---TTCCCAGGTGAGCGGAGTGGGGCCCAGGCACCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCGAAGGAGCATGAAAACGAAGAGGAAGGCGATGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGATGCCCCTGGCCTAGGCATTGCATTGAGCATAGTTCTCTGTTGCgtgagtatattgggatgggggctcttgggtaggaggagcaacctcagctt Alignment from Spaln_aa2Genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATT caagctaatcaggtcccctcagccatatctgtctctggctgtccatgcagGTGGTCCACTTCCTCAGGCCTCTCCCATCTCGGTCTAT---TTCCCAGGTGAGCGGAGTGGGGCCCAGGCACCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCGAAGGAGCATGAAAACGAAGAGGAAGGCGATGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGATGCCCCTGGCCTAGGCATTgcattgagcatagttctctgttgcgtgagtatattgggatgggggctcttgggtaggaggagcaacctcagctt Alignment from Spaln_nt2Genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG---- caagctaatcaggtcccctcagccatatctgtctctggctgtccatgcagGTGGTCCACTTCCTCAGGCCTCTCCCATCTCGGTCTAT---TTCCCAGGTGAGCGGAGTGGGGCCCAGGCACCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGG---TAAGGCGAAGGAGCATGAAAACGAAGAGGAAGGCGATGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGATGCCCCTGGCCTAGGCATTGCATTGAgcatagttctctgttgcgtgagtatattgggatgggggctcttgggtaggaggagcaacctcagctt Alignment from Pairagon GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG--------------------- caagctaatcaggtcccctcagccatatctgtctctggctgtccatgcagGTGGTCCACTTCCTCAGGCCTCTCCCATCTCGGTCTAT---TTCCCAGGTGAGCGGAGTGGGGCCCAGGCACCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGG---TAAGGCGAAGGAGCATGAAAACGAAGAGGAAGGCGATGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGATGCCCCTGGCCTAGGCATTGCATTGAGCATAGTTCTCTGTTGCgtgagtatattgggatgggggctcttgggtaggaggagcaacctcagctt Alignment from Exonerate_protein2genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG caagctaatcaggtcccctcagccatatctgtctctggctgtccatgcagGTGGTCCACTTCCTCAGGCCTCTCCCATCTCGGTCTAT---TTCCCAGGTGAGCGGAGTGGGGCCCAGGCACCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCGAAGGAGCATGAAAACGAAGAGGAAGGCGATGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGATGCCCCTGGCCTAGGCATTGCAttgagcatagttctctgttgcgtgagtatattgggatgggggctcttgggtaggaggagcaacctcagctt Alignment from Exonerate_coding2genome GTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG caagctaatcaggtcccctcagccatatctgtctctggctgtccatgcagGTGGTCCACTTCCTCAGGCCTCTCCCATCTCGGTCTAT---TTCCCAGGTGAGCGGAGTGGGGCCCAGGCACCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCGAAGGAGCATGAAAACGAAGAGGAAGGCGATGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGATGCCCCTGGCCTAGGCATTGCAttgagcatagttctctgttgcgtgagtatattgggatgggggctcttgggtaggaggagcaacctcagctt Alignment from GeneWise -------------------------------------------------GGTGGCCCACTTCCTCAGGCCTCTCCCGTCTCCGTCTATCTGTTCCCAGGTGAACGGAGTGGGGCCCAGGCCCCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGTTCTAAGGCAAAGGAACATGAAAACGAAGAGGAAGGGGACGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGACGCCCCTGGCCTAGGCATTGCG--------- CAAGCTAATCAGGTCCCCTCAGCCATATCTGTCTCTGGCTGTCCATGCAGGTGGTCCACTTCCTCAGGCCTCTCCCATCTCGGTCTAT---TTCCCAGGTGAGCGGAGTGGGGCCCAGGCACCTTTGCCTCCTCCTGGGGCCTCTTCTCATACCTTGGGT---AAGGCGAAGGAGCATGAAAACGAAGAGGAAGGCGATGGAGACACCCTGGACAGTGATGAGTTCTGCATCCTTGATGCCCCTGGCCTAGGCATTGCATTGAGCATAgttctctgttgcgtgagtatattgggatgggggctcttgggtaggaggagcaacctcagctt #### Atg2a_ID1540_29 --> 0 - 2 Original Alignment CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------ag tgcatggctaaatatgttgtcaccacctgatgtagaccttgttcccacagCCTCGAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGCGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACGGTTTTaggttagtggcatgtagacagcagctggttgtgttggactgcaggcatagct Alignment from CESAR CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------ag tgcatggctaaatatgttgtcaccacctgatgtagaccttgttcccacagCCTCGAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGCGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACGGTTTTaggttagtggcatgtagacagcagctggttgtgttggactgcaggcatagct Alignment from Spaln_aa2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAGA----- tgcatggctaaatatgttgtcaccacctgatgtagaccttgttcccacagCCTCGAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGCGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACGGTTTTAGgttagtggcatgtagacagcagctggttgtgttggactgcaggcatagct Alignment from Spaln_nt2Genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------AG tgcatggctaaatatgttgtcaccacctgatgtagaccttgttcccacagCCTCGAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGCGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACGGTTTTAGgttagtggcatgtagacagcagctggttgtgttggactgcaggcatagct Alignment from Pairagon CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------AG tgcatggctaaatatgttgtcaccacctgatgtagaccttgttcccacagCCTCGAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGCGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACGGTTTTAGgttagtggcatgtagacagcagctggttgtgttggactgcaggcatagct Alignment from Exonerate_protein2genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAGAGCAAG tgcatggctaaatatgttgtcaccacctgatgtagaccttgttcccacagCCTCGAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGCGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACGGTTTTAGgttagtggcatgtagacagcagctggttgtgttggactgcaggcatagct Alignment from Exonerate_coding2genome CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTACAGAGCAAG tgcatggctaaatatgttgtcaccacctgatgtagaccttgttcccacagCCTCGAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGCGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACGGTTTTAGgttagtggcatgtagacagcagctggttgtgttggactgcaggcatagct Alignment from GeneWise CCTCGAGACGGGGAGCCCATCGTGACACAGCTGCATCCAGGCCCCATCATCGTGCACGACGGTCACTTCTCCCAGCCCCTGGGAAGCACTGACCTGCTGCGCGCTCCTGCCCACTTCCCAGTGCCCAGCAGCCGTGTGGTACTACGGGAGGTCTCCTTCATCTGGCACCTCTATGGGGGTAGAGACTTTGGCCTTCACCCCACTTAC------AG tgcatggctaaatatgttgtcaccacctgatgtagaccttgttcccacagCCTCGAGATGGGGAGCCCATTGTGACACAGCTGCACCCAGGACCCATCATTGTGCATGACAGTCACTTCTCCCAGCCCCTGGGGAGCACTGACCTACTGCGTGCACCTGCTCACTTCCCAGTACCCAGCAGCCGCGTGGTACTATGGGAGGTTTCCTTCATCTGGCACCTCTATGGTGGCAGAGACTTTGGCCTTCACCCTACTTACGGTTTTAGgttagtggcatgtagacagcagctggttgtgttggactgcaggcatagct #### Atg2a_ID1543_32 --> 0 - 0 Original Alignment ---------CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcttaaggcccaccagacactcaatattgttcatttccacagAATCTGTCTCTTACCATAAAGGCACTGCATGTGGCTCCCACCAGCAGTGTTGGAGGGCCAGAGTGTTGTCTTCGAGTGTCCATGATGCCTCTGAGGCTCAACGTGGACCAAgtaagaatattattaaaggcagaggccagtgagggcccttccccacagct Alignment from CESAR ---------CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcttaaggcccaccagacactcaatattgttcatttccacagAATCTGTCTCTTACCATAAAGGCACTGCATGTGGCTCCCACCAGCAGTGTTGGAGGGCCAGAGTGTTGTCTTCGAGTGTCCATGATGCCTCTGAGGCTCAACGTGGACCAAgtaagaatattattaaaggcagaggccagtgagggcccttccccacagct Alignment from Spaln_aa2Genome CTTACCATCAAGGCACTGCAT---------GTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcttaaggcccaccagacactcaatattgttcatttccacagAATCTGTCTCTTACCATAAAGGCACTGCATGTGGCTCCCACCAGCAGTGTTGGAGGGCCAGAGTGTTGTCTTCGAGTGTCCATGATGCCTCTGAGGCTCAACGTGGACCAAgtaagaatattattaaaggcagaggccagtgagggcccttccccacagct Alignment from Spaln_nt2Genome CTTACCATCAA---------GGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcttaaggcccaccagacactcaatattgttcatttccacagAATCTGTCTCTTACCATAAAGGCACTGCATGTGGCTCCCACCAGCAGTGTTGGAGGGCCAGAGTGTTGTCTTCGAGTGTCCATGATGCCTCTGAGGCTCAACGTGGACCAAgtaagaatattattaaaggcagaggccagtgagggcccttccccacagct Alignment from Pairagon ---------CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcttaaggcccaccagacactcaatattgttcatttccacagAATCTGTCTCTTACCATAAAGGCACTGCATGTGGCTCCCACCAGCAGTGTTGGAGGGCCAGAGTGTTGTCTTCGAGTGTCCATGATGCCTCTGAGGCTCAACGTGGACCAAgtaagaatattattaaaggcagaggccagtgagggcccttccccacagct Alignment from Exonerate_protein2genome CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcttaaggcccaccagacactcaatattgttcatttccacagaatctgtctCTTACCATAAAGGCACTGCATGTGGCTCCCACCAGCAGTGTTGGAGGGCCAGAGTGTTGTCTTCGAGTGTCCATGATGCCTCTGAGGCTCAACGTGGACCAAgtaagaatattattaaaggcagaggccagtgagggcccttccccacagct Alignment from Exonerate_coding2genome CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcttaaggcccaccagacactcaatattgttcatttccacagaatctgtctCTTACCATAAAGGCACTGCATGTGGCTCCCACCAGCAGTGTTGGAGGGCCAGAGTGTTGTCTTCGAGTGTCCATGATGCCTCTGAGGCTCAACGTGGACCAAgtaagaatattattaaaggcagaggccagtgagggcccttccccacagct Alignment from GeneWise ---------CTTACCATCAAGGCACTGCATGTGGCTCCCACCAGCAGCGTCGGAGGGCCGGAGTGCTGTCTTCGAGTCTCCATGATGCCTCTGAGGCTCAATGTGGACCAG aatggggctcttaaggcccaccagacactcaatattgttcatttccacagAATCTGTCTCTTACCATAAAGGCACTGCATGTGGCTCCCACCAGCAGTGTTGGAGGGCCAGAGTGTTGTCTTCGAGTGTCCATGATGCCTCTGAGGCTCAACGTGGACCAAgtaagaatattattaaaggcagaggccagtgagggcccttccccacagct #### Atg2a_ID1544_33 --> 0 - 1 Original Alignment GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGg tgagggcccttccccacagctttggatcacagtgtgctgctttctttcagGATGCCCTCTTCTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCCAGCATCAACCCCATGGTTCCAGGTGACACT------ggtaagtaccctagaccactccagagaagggagcctagatccactgcccta Alignment from CESAR GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGg tgagggcccttccccacagctttggatcacagtgtgctgctttctttcagGATGCCCTCTTCTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCCAGCATCAACCCCATGGTTCCAGGTGACACT------ggtaagtaccctagaccactccagagaagggagcctagatccactgcccta Alignment from Spaln_aa2Genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACT- tgagggcccttccccacagctttggatcacagtgtgctgctttctttcagGATGCCCTCTTCTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCCAGCATCAACCCCATGGTTCCAGGTGACACTGgtaagtaccctagaccactccagagaagggagcctagatccactgcccta Alignment from Spaln_nt2Genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG tgagggcccttccccacagctttggatcacagtgtgctgctttctttcagGATGCCCTCTTCTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCCAGCATCAACCCCATGGTTCCAGGTGACACT------Ggtaagtaccctagaccactccagagaagggagcctagatccactgcccta Alignment from Pairagon GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG tgagggcccttccccacagctttggatcacagtgtgctgctttctttcagGATGCCCTCTTCTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCCAGCATCAACCCCATGGTTCCAGGTGACACT------Ggtaagtaccctagaccactccagagaagggagcctagatccactgcccta Alignment from Exonerate_protein2genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG tgagggcccttccccacagctttggatcacagtgtgctgctttctttcagGATGCCCTCTTCTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCCAGCATCAACCCCATGGTTCCAGGTGACACT------Ggtaagtaccctagaccactccagagaagggagcctagatccactgcccta Alignment from Exonerate_coding2genome GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAGG tgagggcccttccccacagctttggatcacagtgtgctgctttctttcagGATGCCCTCTTCTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCCAGCATCAACCCCATGGTTCCAGGTGACACT------Ggtaagtaccctagaccactccagagaagggagcctagatccactgcccta Alignment from GeneWise GATGCCCTCTTCTTCCTCAAGGACTTTTTCACCAGCCTAGCAGCCAGTATCAACCCCATGGTCCCAGGGGACACTTCTGAG--------------------------------------------- tgagggcccttccccacagctttggatcacagtgtgctgctttctttcagGATGCCCTCTTCTTCCTAAAAGACTTTTTCACCAGCCTAGCAGCCAGCATCAACCCCATGGTTCCAGGTGACACTGGTAAGTACCCTAGACCACTCCAGAGAAGGGAGCCTAGATCCACTGCCCTA #### Atg2a_ID1546_35 --> 1 - 0 Original Alignment gGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG------ gatggccagttagaggccagggggtctaaagtgcttcttgatcaccacaggGAGTTCCGGTTCACATCTGAGGTGCCTATCTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGCTAACTgtgagcgtttctattgggcgggctgtgttagctgttgtcagtgtccagtg Alignment from CESAR gGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG------ gatggccagttagaggccagggggtctaaagtgcttcttgatcaccacaggGAGTTCCGGTTCACATCTGAGGTGCCTATCTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGCTAACTgtgagcgtttctattgggcgggctgtgttagctgttgtcagtgtccagtg Alignment from Spaln_aa2Genome GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG------ gatggccagttagaggccagggggtctaaagtgcttcttgatcaccacagGGAGTTCCGGTTCACATCTGAGGTGCCTATCTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGCTAACTgtgagcgtttctattgggcgggctgtgttagctgttgtcagtgtccagtg Alignment from Spaln_nt2Genome GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG------ gatggccagttagaggccagggggtctaaagtgcttcttgatcaccacagGGAGTTCCGGTTCACATCTGAGGTGCCTATCTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGCTAACTgtgagcgtttctattgggcgggctgtgttagctgttgtcagtgtccagtg Alignment from Pairagon GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG------ gatggccagttagaggccagggggtctaaagtgcttcttgatcaccacagGGAGTTCCGGTTCACATCTGAGGTGCCTATCTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGCTAACTgtgagcgtttctattgggcgggctgtgttagctgttgtcagtgtccagtg Alignment from Exonerate_protein2genome GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gatggccagttagaggccagggggtctaaagtgcttcttgatcaccacagGGAGTTCCGGTTCACATCTGAGGTGCCTATCTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGctaactgtgagcgtttctattgggcgggctgtgttagctgttgtcagtgtccagtg Alignment from Exonerate_coding2genome GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG gatggccagttagaggccagggggtctaaagtgcttcttgatcaccacagGGAGTTCCGGTTCACATCTGAGGTGCCTATCTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGctaactgtgagcgtttctattgggcgggctgtgttagctgttgtcagtgtccagtg Alignment from GeneWise GGAGTTCCGCTTCACATCTGAGGTGCCCATCTGCCTGGATTACCATGGCAAGCATGTCACTGTGGACCAGGTG------ gatggccagttagaggccagggggtctaaagtgcttcttgatcaccacagGGAGTTCCGGTTCACATCTGAGGTGCCTATCTGCCTGGCTTACCATGGTAAGCATGTCACTGTGGACCAGGTGCTAACTgtgagcgtttctattgggcgggctgtgttagctgttgtcagtgtccagtg #### Atg2a_ID1547_36 --> 0 - 2 Original Alignment GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---------gg ctcagcgattgtcctgacacatggccacggcacaccctctgctgtctcagGGCACTTTCACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATATTGGGGACgggtaccgtcccaggccctgcaggaagagtcaactgccttccctctgcctct Alignment from CESAR GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---------gg ctcagcgattgtcctgacacatggccacggcacaccctctgctgtctcagGGCACTTTCACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATATTGGGGACgggtaccgtcccaggccctgcaggaagagtcaactgccttccctctgcctct Alignment from Spaln_aa2Genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGGG-------- ctcagcgattgtcctgacacatggccacggcacaccctctgctgtctcagGGCACTTTCACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATATTGGGGACGGgtaccgtcccaggccctgcaggaagagtcaactgccttccctctgcctct Alignment from Spaln_nt2Genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---------GG ctcagcgattgtcctgacacatggccacggcacaccctctgctgtctcagGGCACTTTCACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATATTGGGGACGGgtaccgtcccaggccctgcaggaagagtcaactgccttccctctgcctct Alignment from Pairagon GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---------GG ctcagcgattgtcctgacacatggccacggcacaccctctgctgtctcagGGCACTTTCACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATATTGGGGACGGgtaccgtcccaggccctgcaggaagagtcaactgccttccctctgcctct Alignment from Exonerate_protein2genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGG ctcagcgattgtcctgacacatggccacggcacaccctctgctgtctcagGGCACTTTCACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATATtggggacgggtaccgtcccaggccctgcaggaagagtcaactgccttccctctgcctct Alignment from Exonerate_coding2genome GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCATGG ctcagcgattgtcctgacacatggccacggcacaccctctgctgtctcagGGCACTTTCACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATATtggggacgggtaccgtcccaggccctgcaggaagagtcaactgccttccctctgcctct Alignment from GeneWise GGCACTTTCATGGGACTCCTAATCGGCCTGGCCCAGCTCAACTGCTCAGAGCTGAAGCTCAAGAGGCTCTGCTGCCGGCAT---------GG ctcagcgattgtcctgacacatggccacggcacaccctctgctgtctcagGGCACTTTCACAGGACTTCTAATTGGCCTGGCCCAACTCACCTGCTCAGAGCTCAAGCTCAAGAGGCTCTGCTGTCGGCATATTGGGGACGGgtaccgtcccaggccctgcaggaagagtcaactgccttccctctgcctct #### BC049760_ID1437_2 --> 0 - 2 Original Alignment CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGac atttggatgcctcatgctgttcggggttgaattttcttttttcttcctagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTGAACACACCAGTGCCAATAGATGATGAG---acgtatggagtctgactgaaaagttgcccgaataatgcatattagtgaggaa Alignment from CESAR CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGACGac atttggatgcctcatgctgttcggggttgaattttcttttttcttcctagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTGAACACACCAGTGCCAATAGATGATGAG---acgtatggagtctgactgaaaagttgcccgaataatgcatattagtgaggaa Alignment from Spaln_aa2Genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC atttggatgcctcatgctgttcggggttgaattttcttttttcttcctagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTGAACACACCAGTGCCAATAGATGATGAGACgtatggagtctgactgaaaagttgcccgaataatgcatattagtgaggaa Alignment from Spaln_nt2Genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC atttggatgcctcatgctgttcggggttgaattttcttttttcttcctagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTGAACACACCAGTGCCAATAGATGATGAGACgtatggagtctgactgaaaagttgcccgaataatgcatattagtgaggaa Alignment from Pairagon CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC atttggatgcctcatgctgttcggggttgaattttcttttttcttcctagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTGAACACACCAGTGCCAATAGATGATGAGACgtatggagtctgactgaaaagttgcccgaataatgcatattagtgaggaa Alignment from Exonerate_protein2genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC atttggatgcctcatgctgttcggggttgaattttcttttttcttcctagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTGAACACACCAGTGCCAATAGATGATGAGACgtatggagtctgactgaaaagttgcccgaataatgcatattagtgaggaa Alignment from Exonerate_coding2genome CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC atttggatgcctcatgctgttcggggttgaattttcttttttcttcctagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTGAACACACCAGTGCCAATAGATGATGAGACgtatggagtctgactgaaaagttgcccgaataatgcatattagtgaggaa Alignment from GeneWise CCATCTTCAGAGCCAGCATTGGATGAGCAGCCGGAACCTACTGTCACATTCCTGTTCACACTCCTGAACACTCCGGTGCCCATAGACGATGAGAC atttggatgcctcatgctgttcggggttgaattttcttttttcttcctagCCATCTTCCGAGCCAGCATTGGATGAACAGCCGGAACCTACTGTTACATTCCTGTTCACACTCCTGAACACACCAGTGCCAATAGATGATGAGACgtatggagtctgactgaaaagttgcccgaataatgcatattagtgaggaa #### Bbs1_ID718_16 --> 0 - 0 Original Alignment ------------------------------------------------GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggcgtgtgggcttttaggggtggtttttgtttttgtttttttcagCCTGGCATAATGCAGCCACTGCCAAGTACCTGGGAAACCTTGAACTACGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtaagaggctacttcaagggtaaatgggactctggggaagcagtagggtg Alignment from CESAR cttgctcaactagaagaggggctccactttctaccctgaagcccaggagtt Alignment from Spaln_aa2Genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggcgtgtgggcttttaggggtggtttttgtttttgtttttttcagcctggcataatgcagccactgccaagtacctgggaaaccttgaactacGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtaagaggctacttcaagggtaaatgggactctggggaagcagtagggtg Alignment from Spaln_nt2Genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggcgtgtgggcttttaggggtggtttttgtttttgtttttttcagcctggcataatgcagccactgccaagtacctgggaaaccttgaactacGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtaagaggctacttcaagggtaaatgggactctggggaagcagtagggtg Alignment from Pairagon ------------------------------------------------GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggcgtgtgggcttttaggggtggtttttgtttttgtttttttcagCCTGGCATAATGCAGCCACTGCCAAGTACCTGGGAAACCTTGAACTACGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtaagaggctacttcaagggtaaatgggactctggggaagcagtagggtg Alignment from Exonerate_protein2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggcgtgtgggcttttaggggtggtttttgtttttgtttttttcagcctggcataatgcagccactgccaagtacctgggaaaccttgaactacGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtaagaggctacttcaagggtaaatgggactctggggaagcagtagggtg Alignment from Exonerate_coding2genome GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggcgtgtgggcttttaggggtggtttttgtttttgtttttttcagcctggcataatgcagccactgccaagtacctgggaaaccttgaactacGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtaagaggctacttcaagggtaaatgggactctggggaagcagtagggtg Alignment from GeneWise ---------------------------------GTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAG gcctaggcgtgtgggcttttaggggtggtttttgtttttgtttttttcagcctggcataatgcagCCACTGCCAAGTACCTGGGAAACCTTGAACTACGTTCCCTTGCTGGTACCAGGACTCAGTTACCCACTGGAAACCTTTGTGGAGAGTCTCAGTAGCAAGGGCATCTCAGACATGATCAAGgtaagaggctacttcaagggtaaatgggactctggggaagcagtagggtg #### Bbs1_ID729_5 --> 0 - 2 Original Alignment GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC---ag ccatggctgccagtgctcccagactcacattgcttctcactttattttagGATCAGATTGACCCCTTGACCCTGAAAGATATGCTGGAGGATATCAAAaggtaagagttcacctttcctccttggtgccccttcatcccaaaactctcct Alignment from CESAR GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC---ag ccatggctgccagtgctcccagactcacattgcttctcactttattttagGATCAGATTGACCCCTTGACCCTGAAAGATATGCTGGAGGATATCAAAaggtaagagttcacctttcctccttggtgccccttcatcccaaaactctcct Alignment from Spaln_aa2Genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAGG-- ccatggctgccagtgctcccagactcacattgcttctcactttattttagGATCAGATTGACCCCTTGACCCTGAAAGATATGCTGGAGGATATCAAAAGgtaagagttcacctttcctccttggtgccccttcatcccaaaactctcct Alignment from Spaln_nt2Genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCA---G ccatggctgccagtgctcccagactcacattgcttctcactttattttagGATCAGATTGACCCCTTGACCCTGAAAGATATGCTGGAGGATATCAAAAGgtaagagttcacctttcctccttggtgccccttcatcccaaaactctcct Alignment from Pairagon GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC---AG ccatggctgccagtgctcccagactcacattgcttctcactttattttagGATCAGATTGACCCCTTGACCCTGAAAGATATGCTGGAGGATATCAAAAGgtaagagttcacctttcctccttggtgccccttcatcccaaaactctcct Alignment from Exonerate_protein2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC---AG ccatggctgccagtgctcccagactcacattgcttctcactttattttagGATCAGATTGACCCCTTGACCCTGAAAGATATGCTGGAGGATATCAAAAGgtaagagttcacctttcctccttggtgccccttcatcccaaaactctcct Alignment from Exonerate_coding2genome GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATC---AG ccatggctgccagtgctcccagactcacattgcttctcactttattttagGATCAGATTGACCCCTTGACCCTGAAAGATATGCTGGAGGATATCAAAAGgtaagagttcacctttcctccttggtgccccttcatcccaaaactctcct Alignment from GeneWise GACCAGATTGACCCCTTAACCCTGAAGGAGATGCTGGAGGACATCAGG-- ccatggctgccagtgctcccagactcacattgcttctcactttattttagGATCAGATTGACCCCTTGACCCTGAAAGATATGCTGGAGGATATCAAAAGgtaagagttcacctttcctccttggtgccccttcatcccaaaactctcct #### Bbs1_ID732_2 --> 1 - 1 Original Alignment c------------------------AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt atttatttcatcatggggcatatcttctgttctcttccctcctttcccagcGGACCTCCGCTGCTCATCCCTATGAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACCTTCTCCTCCTGTCTGtgtaaggctccatgcatgacttgggacatccagattctaaggggatgggag Alignment from CESAR c------------------------AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGt atttatttcatcatggggcatatcttctgttctcttccctcctttcccagcGGACCTCCGCTGCTCATCCCTATGAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACCTTCTCCTCCTGTCTGtgtaaggctccatgcatgacttgggacatccagattctaaggggatgggag Alignment from Spaln_aa2Genome C------------------------AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT atttatttcatcatggggcatatcttctgttctcttccctcctttcccagCGGACCTCCGCTGCTCATCCCTATGAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACCTTCTCCTCCTGTCTGTgtaaggctccatgcatgacttgggacatccagattctaaggggatgggag Alignment from Spaln_nt2Genome CCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT atttatttcatcatggggcatatcttctgttctcttccctcctttcccagcggacctccgctgctcatccctatgaatgaagCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACCTTCTCCTCCTGTCTGTgtaaggctccatgcatgacttgggacatccagattctaaggggatgggag Alignment from Pairagon C------------------------AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT atttatttcatcatggggcatatcttctgttctcttccctcctttcccagCGGACCTCCGCTGCTCATCCCTATGAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACCTTCTCCTCCTGTCTGTgtaaggctccatgcatgacttgggacatccagattctaaggggatgggag Alignment from Exonerate_protein2genome CAACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT atttatttcatcatggggcatatcttctgttctcttccctcctttcccagcggacctccgctgctcatccctatGAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACCTTCTCCTCCTGTCTGTgtaaggctccatgcatgacttgggacatccagattctaaggggatgggag Alignment from Exonerate_coding2genome AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT atttatttcatcatggggcatatcttctgttctcttccctcctttcccagcggacctccgctgctcatccctatgAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACCTTCTCCTCCTGTCTGTgtaaggctccatgcatgacttgggacatccagattctaaggggatgggag Alignment from GeneWise AACGAAGCCAATTCTAAATGGCTGGACGCACACTACGACCCCATGGCCAACATCCACACCTTCTCCTCCTGCCTGT atttatttcatcatggggcatatcttctgttctcttccctcctttcccagcggacctccgctgctcatccctatgAATGAAGCCAATTCTAAATGGCTGGACGCACACTATGACCCTATGGCCAACATCCACACCTTCTCCTCCTGTCTGTgtaaggctccatgcatgacttgggacatccagattctaaggggatgggag #### Bscl2_ID2422_5 --> 0 - 0 Original Alignment GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG gcaagcataggaaaatggcagcacctgtctcccctttggctcttctccagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGCTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTGAACAAAAGCAGCTCCTGGAAGGCATGAGGCCGCCCCTAGAAATCTATACTGACTATAGGGAGAAT---gtaagttccggctgacagagttgggaaacaactcttcaatgagccgtaat Alignment from CESAR GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG gcaagcataggaaaatggcagcacctgtctcccctttggctcttctccagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGCTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTGAACAAAAGCAGCTCCTGGAAGGCATGAGGCCGCCCCTAGAAATCTATACTGACTATAGGGAGAAT---gtaagttccggctgacagagttgggaaacaactcttcaatgagccgt Alignment from Spaln_aa2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAAT gcaagcataggaaaatggcagcacctgtctcccctttggctcttctccagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGCTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTGAACAAAAGCAGCTCCTGGAAGGCATGAGGCCGCCCCTAGAAATCTATACTGACTATAGGGAGAATgtaagttccggctgacagagttgggaaacaactcttcaatgagccgtaat Alignment from Spaln_nt2Genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAGAAT gcaagcataggaaaatggcagcacctgtctcccctttggctcttctccagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGCTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTGAACAAAAGCAGCTCCTGGAAGGCATGAGGCCGCCCCTAGAAATCTATACTGACTATAGGGAGAATgtaagttccggctgacagagttgggaaacaactcttcaatgagccgtaat Alignment from Pairagon GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAAG---------------TAGAACTCTACTCTGACTATAGGGAGAAT gcaagcataggaaaatggcagcacctgtctcccctttggctcttctccagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGCTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTGAACAAAAGCAGCTCCTGGAAGGCATGAGGCCGCCCCTAGAAATCTATACTGACTATAGGGAGAATgtaagttccggctgacagagttgggaaacaactcttcaatgagccgtaat Alignment from Exonerate_protein2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG gcaagcataggaaaatggcagcacctgtctcccctttggctcttctccagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGCTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTGAACAAAAGCAGCTCCTGGAAGGCATGAGGCCGCCCCTAGAAATCTATACTGACTATAGGGAGAAT---gtaagttccggctgacagagttgggaaacaactcttcaatgagccgt Alignment from Exonerate_coding2genome GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG gcaagcataggaaaatggcagcacctgtctcccctttggctcttctccagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGCTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTGAACAAAAGCAGCTCCTGGAAGGCATGAGGCCGCCCCTAGAAATCTATACTGACTATAGGGAGAAT---gtaagttccggctgacagagttgggaaacaactcttcaatgagccgt Alignment from GeneWise GTGATGCTGCATTACCGCTCGCAGCTGCTCCAGGTGCTCGACACGCTGCTGTTCTCCAGCCTCCTGCTGTTTGGCTTCGCTGAACAGAAGCAGCTCCTGGAA---------------GTAGAACTCTACTCTGACTATAGGGAGAATTCG gcaagcataggaaaatggcagcacctgtctcccctttggctcttctccagGTAATGCTGCATTATTGCTCACAGCTGCTCCAAGTGCTTGACATACTGCTATTCTCCAGCCTCCTGCTGTTTGGCTTTGCTGAACAAAAGCAGCTCCTGGAAGGCATGAGGCCGCCCCTAGAAATCTATACTGACTATAGGGAG---AATgtaagttccggctgacagagttgggaaacaactcttcaatgagccgtaat #### Bscl2_ID2425_8 --> 0 - 1 Original Alignment GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCA---g tcctacggaggggagtcatgcctcactgtaacctctctcctacctcatagGTTAATACCCGACAAAGGGATAACTCACACCATGGAGCCCCGCACCGCATCTCACACCATCAGCCAGCTggtgaggtagttggttgatagaagtgtaggctggctgggcatgagggttgg Alignment from CESAR GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCA---g tcctacggaggggagtcatgcctcactgtaacctctctcctacctcatagGTTAATACCCGACAAAGGGATAACTCACACCATGGAGCCCCGCACCGCATCTCACACCATCAGCCAGCTggtgaggtagttggttgatagaagtgtaggctggctgggcatgagggttgg Alignment from Spaln_aa2Genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCA---G tcctacggaggggagtcatgcctcactgtaacctctctcctacctcatagGTTAATACCCGACAAAGGGATAACTCACACCATGGAGCCCCGCACCGCATCTCACACCATCAGCCAGCTGgtgaggtagttggttgatagaagtgtaggctggctgggcatgagggttgg Alignment from Spaln_nt2Genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG--- tcctacggaggggagtcatgcctcactgtaacctctctcctacctcatagGTTAATACCCGACAAAGGGATAACTCACACCATGGAGCCCCGCACCGCATCTCACACCATCAGCCAGCTGgtgaggtagttggttgatagaagtgtaggctggctgggcatgagggttgg Alignment from Pairagon GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG--- tcctacggaggggagtcatgcctcactgtaacctctctcctacctcatagGTTAATACCCGACAAAGGGATAACTCACACCATGGAGCCCCGCACCGCATCTCACACCATCAGCCAGCTGgtgaggtagttggttgatagaagtgtaggctggctgggcatgagggttgg Alignment from Exonerate_protein2genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG tcctacggaggggagtcatgcctcactgtaacctctctcctacctcatagGTTAATACCCGACAAAGGGATAACTCACACCATGGAGCCCCGCACCGCATCTCACACCATCAGCCAGctggtgaggtagttggttgatagaagtgtaggctggctgggcatgagggttgg Alignment from Exonerate_coding2genome GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAG tcctacggaggggagtcatgcctcactgtaacctctctcctacctcatagGTTAATACCCGACAAAGGGATAACTCACACCATGGAGCCCCGCACCGCATCTCACACCATCAGCCAGctggtgaggtagttggttgatagaagtgtaggctggctgggcatgagggttgg Alignment from GeneWise GTTAATATCCGACAAAGGGATAACTCACACCACGGGGCCCCGCGTCGGATCTCGCGCCATCAGCCAGGT- tcctacggaggggagtcatgcctcactgtaacctctctcctacctcatagGTTAATACCCGACAAAGGGATAACTCACACCATGGAGCCCCGCACCGCATCTCACACCATCAGCCAGCTGgtgaggtagttggttgatagaagtgtaggctggctgggcatgagggttgg #### Bscl2_ID2426_9 --> 2 - 1 Original Alignment gtCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAg gtgaggactaacaacttccactaactgttgctttcttctgttccctctaggtCAGGAATCTACCCAGCAGTCAGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCC---------ggtaagctcacgtgggtcggttcctctacctcgcgtctcattcctgacata Alignment from CESAR gtCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAg gtgaggactaacaacttccactaactgttgctttcttctgttccctctaggtCAGGAATCTACCCAGCAGTCAGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCC---------ggtaagctcacgtgggtcggttcctctacctcgcgtctcattcctgacata Alignment from Spaln_aa2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCC- gtgaggactaacaacttccactaactgttgctttcttctgttccctctagGTCAGGAATCTACCCAGCAGTCAGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCGgtaagctcacgtgggtcggttcctctacctcgcgtctcattcctgacata Alignment from Spaln_nt2Genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTC-AGGAACAG gtgaggactaacaacttccactaactgttgctttcttctgttccctctagGTCAGGAATCTACCCAGCAGTCAGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCGGTAAGCTCACgtgggtcggttcctctacctcgcgtctcattcctgacata Alignment from Pairagon GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAG gtgaggactaacaacttccactaactgttgctttcttctgttccctctagGTCAGGAATCTACCCAGCAGTCAGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCC---------Ggtaagctcacgtgggtcggttcctctacctcgcgtctcattcctgacata Alignment from Exonerate_protein2genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCT gtgaggactaacaacttccactaactgttgctttcttctgttccctctagGTCAGGAATCTACCCAGCAGTCAGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCGgtaagctcacgtgggtcggttcctctacctcgcgtctcattcctgacata Alignment from Exonerate_coding2genome GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCT gtgaggactaacaacttccactaactgttgctttcttctgttccctctagGTCAGGAATCTACCCAGCAGTCAGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCGgtaagctcacgtgggtcggttcctctacctcgcgtctcattcctgacata Alignment from GeneWise GTCAGGAATCTACCCAGCAGTCGGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCTCAGGAACAGAGGGC gtgaggactaacaacttccactaactgttgctttcttctgttccctctagGTCAGGAATCTACCCAGCAGTCAGATGTGACGGAGGATGGTGAGAGCCCTGAAGATCCCGGTAAGCTCACGTGGgtcggttcctctacctcgcgtctcattcctgacata #### Cabp2_ID290_5 --> 2 - 0 Original Alignment gt------GGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG atgtaagtcagacactaacctaggctctctcacatctttatcctgggcaggtAACCCCGGTGGGAAGGTCGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTAGTAGAGACGGCAGACATGATTGGTGAGAGGGAGCTTCGAGATGCTTTCAGGGAGgtgagccttgggtgatgagtggcagtggttggtgagattgtggctcagca Alignment from CESAR gt------GGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG atgtaagtcagacactaacctaggctctctcacatctttatcctgggcaggtAACCCCGGTGGGAAGGTCGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTAGTAGAGACGGCAGACATGATTGGTGAGAGGGAGCTTCGAGATGCTTTCAGGGAGgtgagccttgggtgatgagtggcagtggttggtgagattgtggctcagca Alignment from Spaln_aa2Genome GTGGTGGGAAGGTG------GATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG atgtaagtcagacactaacctaggctctctcacatctttatcctgggcagGTAACCCCGGTGGGAAGGTCGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTAGTAGAGACGGCAGACATGATTGGTGAGAGGGAGCTTCGAGATGCTTTCAGGGAGgtgagccttgggtgatgagtggcagtggttggtgagattgtggctcagca Alignment from Spaln_nt2Genome GTGGTGGGAAG------GTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG atgtaagtcagacactaacctaggctctctcacatctttatcctgggcagGTAACCCCGGTGGGAAGGTCGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTAGTAGAGACGGCAGACATGATTGGTGAGAGGGAGCTTCGAGATGCTTTCAGGGAGgtgagccttgggtgatgagtggcagtggttggtgagattgtggctcagca Alignment from Pairagon GT------GGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG atgtaagtcagacactaacctaggctctctcacatctttatcctgggcagGTAACCCCGGTGGGAAGGTCGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTAGTAGAGACGGCAGACATGATTGGTGAGAGGGAGCTTCGAGATGCTTTCAGGGAGgtgagccttgggtgatgagtggcagtggttggtgagattgtggctcagca Alignment from Exonerate_protein2genome GT------GGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG atgtaagtcagacactaacctaggctctctcacatctttatcctgggcagGTAACCCCGGTGGGAAGGTCGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTAGTAGAGACGGCAGACATGATTGGTGAGAGGGAGCTTCGAGATGCTTTCAGGGAGgtgagccttgggtgatgagtggcagtggttggtgagattgtggctcagca Alignment from Exonerate_coding2genome GT------GGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG atgtaagtcagacactaacctaggctctctcacatctttatcctgggcagGTAACCCCGGTGGGAAGGTCGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTAGTAGAGACGGCAGACATGATTGGTGAGAGGGAGCTTCGAGATGCTTTCAGGGAGgtgagccttgggtgatgagtggcagtggttggtgagattgtggctcagca Alignment from GeneWise -----AGTGGTGGGAAGGTGGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTGCTGGCAGAGACGGCAGACATGATTGGCGTGAGGGAGCTTCGAGACGCCTTCCGGGAG atgtaagtcagacactaacctaggctctctcacatctttatcctgggcagGTAACCCCGGTGGGAAGGTCGATTTTGAAGATTTTGTGGAGCTGATGGGTCCCAAGCTACTAGTAGAGACGGCAGACATGATTGGTGAGAGGGAGCTTCGAGATGCTTTCAGGGAGgtgagccttgggtgatgagtggcagtggttggtgagattgtggctcagca #### Cabp4_ID339_5 --> 0 - 1 Original Alignment TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACg aggtggtgtaaaggacatgtgtggtgtttgttttttgttatattatttag---------GATAGGGATGGATGGATCATGGTGGCAGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGGGAAATGGACCTCAATGGGGATGGGACCATAGAAGAGTTTGATggtaagaaaccctacagacacctcacccatgcctctattactgtgaagctc Alignment from CESAR TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACg tgcaaggtgaggtggtgtaaaggacgtttgttttttgttatattatttag---------GATAGGGATGGATGGATCATGGTGGCAGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGGGAAATGGACCTCAATGGGGATGGGACCATAGAAGAGTTTGATggtaagaaaccctacagacacctcacccatgcctctattactgtgaagctc Alignment from Spaln_aa2Genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACG aggtggtgtaaaggacatgtgtggtgtttgttttttgttatattatttag---------GATAGGGATGGATGGATCATGGTGGCAGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGGGAAATGGACCTCAATGGGGATGGGACCATAGAAGAGTTTGATGgtaagaaaccctacagacacctcacccatgcctctattactgtgaagctc Alignment from Spaln_nt2Genome GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGAC---TTTGACG aggtggtgtaaaggacatgtgtggtgtttgttttttgttatattatttagGATAGGGATGGATGGATCATGGTGGCAGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGGGAAATGGACCTCAATGGGGATGGGACCATAGAAGAGTTTGATGgtaagaaaccctacagacacctcacccatgcctctattactgtgaagctc Alignment from Pairagon TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCAT---AGACTTTGACG aggtggtgtaaaggacatgtgtggtgtttgttttttgttatattatttag---------GATAGGGATGGATGGATCATGGTGGCAGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGGGAAATGGACCTCAATGGGGATGGGACCATAGAAGAGTTTGATGgtaagaaaccctacagacacctcacccatgcctctattactgtgaagctc Alignment from Exonerate_protein2genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACG aggtggtgtaaaggacatgtgtggtgtttgttttttgttatATTATTTAGGATAGGGATGGATGGATCATGGTGGCAGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGGGAAATGGACCTCAATGGGGATGGGACCATAGAAGAGTTTGATGgtaagaaaccctacagacacctcacccatgcctctattactgtgaagctc Alignment from Exonerate_coding2genome TTTGACAAGGACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATA---GACTTTGACG aggtggtgtaaaggacatgtgtggtgtttgttttttgttatATTATTTAGGATAGGGATGGATGGATCATGGTGGCAGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGGGAAATGGACCTCAATGGGGATGGGACCATAGAAGAGTTTGATGgtaagaaaccctacagacacctcacccatgcctctattactgtgaagctc Alignment from GeneWise GACAGGGATGGACGGATCACGGTGGCGGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGCACTGAACTGGATGAGATGTTGCGAGAAATGGACCTCAATGGGGATGGCACCATAGAC---TTTGAC aggtggtgtaaaggacatgtgtggtgtttgttttttgttatattatttagGATAGGGATGGATGGATCATGGTGGCAGAGCTGCGGCAGGCAGCACCAGCTCTGCTGGGGGAACCACTAGAGGGTACTGAACTGGATGAAATGTTACGGGAAATGGACCTCAATGGGGATGGGACCATAGAAGAGTTTGATggtaagaaaccctacagacacctcacccatgcctctattactgtgaagctc #### Capn1_ID1359_17 --> 0 - 0 Original Alignment ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacataagtactttaggccaagtagtttctgtgttctgttctcaatagCACCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTATGGAACCACATCCGAAATTATCTGgcaagtggcaggatgttccctgggaccacatgtggaaacaaagctccatt Alignment from CESAR ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacataagtactttaggccaagtagtttctgtgttctgttctcaatagCACCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTATGGAACCACATCCGAAATTATCTGgcaagtggcaggatgttccctgggaccacatgtggaaacaaagctccatt Alignment from Spaln_aa2Genome CGAGATGGCAAC---GGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacataagtactttaggccaagtagtttctgtgttctgttctcaatagCACCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTATGGAACCACATCCGAAATTATCTGgcaagtggcaggatgttccctgggaccacatgtggaaacaaagctccatt Alignment from Spaln_nt2Genome CGAGATGGCAA---CGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacataagtactttaggccaagtagtttctgtgttctgttctcaatagCACCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTATGGAACCACATCCGAAATTATCTGgcaagtggcaggatgttccctgggaccacatgtggaaacaaagctccatt Alignment from Pairagon ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacataagtactttaggccaagtagtttctgtgttctgttctcaatagCACCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTATGGAACCACATCCGAAATTATCTGgcaagtggcaggatgttccctgggaccacatgtggaaacaaagctccatt Alignment from Exonerate_protein2genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacataagtactttaggccaagtagtttctgtgttctgttctcaatagcacCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTATGGAACCACATCCGAAATTATCTGgcaagtggcaggatgttccctgggaccacatgtggaaacaaagctccatt Alignment from Exonerate_coding2genome CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTG ctcacataagtactttaggccaagtagtttctgtgttctgttctcaatagcacCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTATGGAACCACATCCGAAATTATCTGgcaagtggcaggatgttccctgggaccacatgtggaaacaaagctccatt Alignment from GeneWise ---CGAGATGGCAACGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTGTGGAACCGCATCCGAAATTACCTGACCATCTTCCGG-- ctcacataagtactttaggccaagtagtttctgtgttctgttctcaatagCACCGAGATGGAAATGGGAAGCTGGGTCTGGTGGAGTTCAACATCCTATGGAACCACATCCGAAATTATCTGGCAAGTGGCAGGATgttccctgggaccacatgtggaaacaaagctccatt #### Capn1_ID1362_14 --> 0 - 0 Original Alignment AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT caatagccttatccttaacctatattgttccttgtcacattgctcctcag------CTCTCTGAAGAAGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATgtagaacaaggcttggtaagtatgataaaatggagatcccaagtggggga Alignment from CESAR AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT aggcctcaatagccttatccttaactgttccttgtcacattgctcctcag------CTCTCTGAAGAAGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATgtagaacaaggcttggtaagtatgataaaatggagatcccaagtggggga Alignment from Spaln_aa2Genome CTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT caatagccttatccttaacctatattgttccttgtcacattgctcctcagCTCTCTGAAGAAGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATgtagaacaaggcttggtaagtatgataaaatggagatcccaagtggggga Alignment from Spaln_nt2Genome CTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT caatagccttatccttaacctatattgttccttgtcacattgctcctcagCTCTCTGAAGAAGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATgtagaacaaggcttggtaagtatgataaaatggagatcccaagtggggga Alignment from Pairagon AAAGTTCTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT caatagccttatccttaacctatattgttccttgtcacattgctcctcag------CTCTCTGAAGAAGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATgtagaacaaggcttggtaagtatgataaaatggagatcccaagtggggga Alignment from Exonerate_protein2genome CTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT caatagccttatccttaacctatattgttccttgtcacattgctcctcagCTCTCTGAAGAAGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATgtagaacaaggcttggtaagtatgataaaatggagatcccaagtggggga Alignment from Exonerate_coding2genome CTCTCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT caatagccttatccttaacctatattgttccttgtcacattgctcctcagCTCTCTGAAGAAGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATgtagaacaaggcttggtaagtatgataaaatggagatcccaagtggggga Alignment from GeneWise ---TCTGAAGAGGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGAT caatagccttatccttaacctatattgttccttgtcacattgctcctcagCTCTCTGAAGAAGAGATTGATGACAACTTCAAGACCTTGTTCAGCAAGTTGGCAGGGGATgtagaacaaggcttggtaagtatgataaaatggagatcccaagtggggga #### Capn1_ID1376_2 --> 0 - 1 Original Alignment GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTG---------g ttctggggcacctcaaataaggtcccagccacctactgtgttttctgtagGAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGCTCATGTTTggtaagtccccaggggtggggtgctgggtgtttgctctatgttctctgttc Alignment from CESAR GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTG---------g ttctggggcacctcaaataaggtcccagccacctactgtgttttctgtagGAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGCTCATGTTTggtaagtccccaggggtggggtgctgggtgtttgctctatgttctctgttc Alignment from Spaln_aa2Genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTG---------G ttctggggcacctcaaataaggtcccagccacctactgtgttttctgtagGAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGCTCATGTTTGgtaagtccccaggggtggggtgctgggtgtttgctctatgttctctgttc Alignment from Spaln_nt2Genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTG---------G ttctggggcacctcaaataaggtcccagccacctactgtgttttctgtagGAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGCTCATGTTTGgtaagtccccaggggtggggtgctgggtgtttgctctatgttctctgttc Alignment from Pairagon GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTG---------G ttctggggcacctcaaataaggtcccagccacctactgtgttttctgtagGAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGCTCATGTTTGgtaagtccccaggggtggggtgctgggtgtttgctctatgttctctgttc Alignment from Exonerate_protein2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ttctggggcacctcaaataaggtcccagccacctactgtgttttctgtagGAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGCtcatgtttggtaagtccccaggggtggggtgctgggtgtttgctctatgttctctgttc Alignment from Exonerate_coding2genome GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGG ttctggggcacctcaaataaggtcccagccacctactgtgttttctgtagGAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGCtcatgtttggtaagtccccaggggtggggtgctgggtgtttgctctatgttctctgttc Alignment from GeneWise GAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTG---------G ttctggggcacctcaaataaggtcccagccacctactgtgttttctgtagGAACTGATGTCAAACCCCCAGTTCATCGTGGATGGAGCCACCCGGACAGACATCTGCCAGGGAGCACTGCTCATGTTTGgtaagtccccaggggtggggtgctgggtgtttgctctatgttctctgttc #### Carns1_ID385_7 --> 0 - 1 Original Alignment GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCg cttggacggcttcttccaggccagcccctgactaattacatgggatttagGTGGTGTGTGGCGTGGGCCATGGGGACCGA---GTACGGCACCACTACACTGTCCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGACGGGGCACAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCTGAAGGCACACTGGCTGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAACATGGTGGC---CAAGTGCACACTGACTTC---ggtgagtagtatggacaggaggcatggctcagtctgggtggcttggaggct Alignment from CESAR GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCg cttggacggcttcttccaggccagcccctgactaattacatgggatttagGTGGTGTGTGGCGTGGGCCATGGGGACCGA---GTACGGCACCACTACACTGTCCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGACGGGGCACAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCTGAAGGCACACTGGCTGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAACATGGTGGC---CAAGTGCACACTGACTTC---ggtgagtagtatggacaggaggcatggctcagtctgggtggcttggaggct Alignment from Spaln_aa2Genome GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTC- cttggacggcttcttccaggccagcccctgactaattacatgggatttagGTGGTGTGTGGCGTGGGCCATGGGGACCGA---GTACGGCACCACTACACTGTCCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGACGGGGCACAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCTGAAGGCACACTGGCTGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAACATGGTGGC---CAAGTGCACACTGACTTCGgtgagtagtatggacaggaggcatggctcagtctgggtggcttggaggct Alignment from Spaln_nt2Genome GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCG- cttggacggcttcttccaggccagcccctgactaattacatgggatttagGTGGTGTGTGGCGTGGGCCATGGGGACCGA---GTACGGCACCACTACACTGTCCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGACGGGGCACAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCTGAAGGCACACTGGCTGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAACATGGTGG---CCAAGTGCACACTGACTTCGGTGAgtagtatggacaggaggcatggctcagtctgggtggcttggaggct Alignment from Pairagon GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTC--------------------------------------------------- cttggacggcttcttccaggccagcccctgactaattacatgggatttagGTGGTGTGTGGCGTGGGCCATGGGGACCGA---GTACGGCACCACTACACTGTCCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGACGGGGCACAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCTGAAGGCACACTGGCTGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAACATGGTG---GCCAAGTGCACACTGACTTCGGTGAGTAGTATGGACAGGAGGCATGGCTCAGTCTGGGTGGCTTGGAGGCT Alignment from Exonerate_protein2genome GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCG cttggacggcttcttccaggccagcccctgactaattacatgggatttagGTGGTGTGTGGCGTGGGCCATGGGGACCGA---GTACGGCACCACTACACTGTCCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGACGGGGCACAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCTGAAGGCACACTGGCTGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAACATGGTGGC---CAAGTGCACACTGACTTC---Ggtgagtagtatggacaggaggcatggctcagtctgggtggcttggaggct Alignment from Exonerate_coding2genome GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCCTCG cttggacggcttcttccaggccagcccctgactaattacatgggatttagGTGGTGTGTGGCGTGGGCCATGGGGACCGA---GTACGGCACCACTACACTGTCCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGACGGGGCACAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCTGAAGGCACACTGGCTGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAACATGGTGGC---CAAGTGCACACTGACTTC---Ggtgagtagtatggacaggaggcatggctcagtctgggtggcttggaggct Alignment from GeneWise GTGGTGTGTGGCGTGGGCCGTGGGGATCGACCCGTGCGGCACCACTATACCCTGCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGAGGAGGCGCAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCCGAAGGCGCGTTGGCCGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAGCGTGGTGGACGCCAAGTGCACACCGACTTCC cttggacggcttcttccaggccagcccctgactaattacatgggatttagGTGGTGTGTGGCGTGGGCCATGGGGACCGA---GTACGGCACCACTACACTGTCCCAAGGACACTGAGGGTGGCGCTGGCTCAGTGTGGCCTGGAAGACGGGGCACAGGTGGCGCTTCTGGAGCAGGGCATCAAAGAAGCAGCTGAAGGCACACTGGCTGCTGTGCTGGCCCTGGAGGCTGGACTGAGTGTGGAGCAACATGGTGGC---CAAGTGCACACTGACTTCGgtgagtagtatggacaggaggcatggctcagtctgggtggcttggaggct #### Carns1_ID388_4 --> 2 - 0 Original Alignment gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG--------- ggcacaaatcagcatttgctggccagaccctggcatcctgtctctctcaggaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCACGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCTACAGGAACCTCATCAGAGCTGTCCCAGCTGTTGGAGAACCGGCTGCTCATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGAGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTTGTGAAAGAGGAAGTAGAGGCCTTTGTACACTCTGAGGCCTTGGGTGATGCTTCACAGGACACGGACgtaggtgcaggcctgggtacccatgggagggaaccccagattgtccttac Alignment from CESAR gaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG--------- ggcacaaatcagcatttgctggccagaccctggcatcctgtctctctcaggaAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCACGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCTACAGGAACCTCATCAGAGCTGTCCCAGCTGTTGGAGAACCGGCTGCTCATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGAGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTTGTGAAAGAGGAAGTAGAGGCCTTTGTACACTCTGAGGCCTTGGGTGATGCTTCACAGGACACGGACgtaggtgcaggcctgggtacccatgggagggaaccccagattgtccttac Alignment from Spaln_aa2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG--------- ggcacaaatcagcatttgctggccagaccctggcatcctgtctctctcagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCACGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCTACAGGAACCTCATCAGAGCTGTCCCAGCTGTTGGAGAACCGGCTGCTCATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGAGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTTGTGAAAGAGGAAGTAGAGGCCTTTGTACACTCTGAGGCCTTGGGTGATGCTTCACAGGACACGGACgtaggtgcaggcctgggtacccatgggagggaaccccagattgtccttac Alignment from Spaln_nt2Genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG--------- ggcacaaatcagcatttgctggccagaccctggcatcctgtctctctcagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCACGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCTACAGGAACCTCATCAGAGCTGTCCCAGCTGTTGGAGAACCGGCTGCTCATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGAGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTTGTGAAAGAGGAAGTAGAGGCCTTTGTACACTCTGAGGCCTTGGGTGATGCTTCACAGGACACGGACgtaggtgcaggcctgggtacccatgggagggaaccccagattgtccttac Alignment from Pairagon GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG--------- ggcacaaatcagcatttgctggccagaccctggcatcctgtctctctcagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCACGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCTACAGGAACCTCATCAGAGCTGTCCCAGCTGTTGGAGAACCGGCTGCTCATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGAGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTTGTGAAAGAGGAAGTAGAGGCCTTTGTACACTCTGAGGCCTTGGGTGATGCTTCACAGGACACGGACgtaggtgcaggcctgggtacccatgggagggaaccccagattgtccttac Alignment from Exonerate_protein2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG ggcacaaatcagcatttgctggccagaccctggcatcctgtctctctcagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCACGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCTACAGGAACCTCATCAGAGCTGTCCCAGCTGTTGGAGAACCGGCTGCTCATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGAGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTTGTGAAAGAGGAAGTAGAGGCCTTTGTACACTCTGAGGCCTTGGGTGATGCTTCACAGgacacggacgtaggtgcaggcctgggtacccatgggagggaaccccagattgtccttac Alignment from Exonerate_coding2genome GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG ggcacaaatcagcatttgctggccagaccctggcatcctgtctctctcagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCACGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCTACAGGAACCTCATCAGAGCTGTCCCAGCTGTTGGAGAACCGGCTGCTCATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGAGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTTGTGAAAGAGGAAGTAGAGGCCTTTGTACACTCTGAGGCCTTGGGTGATGCTTCACAGgacacggacgtaggtgcaggcctgggtacccatgggagggaaccccagattgtccttac Alignment from GeneWise GAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTGATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCCTGACATTCCTGGATGACTTTGTTCCCCCTCGGCATGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCCACAGGAACCTCATCGGAGCTGTCCCAGCTGCTGGAGAACCGGCTGCTGATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCGGGGCTGCTTCGGGGAGGGGATGCCAGCCCTGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTGGTGAAAGAGGAAGTAGAGGCCTTTGTGCACTCCGAGGCCTTGGGTGATGCTTCACAG--------- ggcacaaatcagcatttgctggccagaccctggcatcctgtctctctcagGAAACATGCTCCTTTGCCTGTCCCCTGCTTGGCTAATGAAGGTGGCAACTCCAGGCCAAGAGGGTGAGGCAGTCCTGCTGGTCTCTAAGGCTGTGAGCTTCTATCCAGGGGGCTTGACATTCCTGGATGACTTTGTTCCCCCTCGGCACGCTACTTACTTCCTGGCAGGCCTGGGGCCAGAATCTGGCCGTGGCAAGGAGGCAGCAGAGCTGGCTCGGAATCTCACTTGCCCTACAGGAACCTCATCAGAGCTGTCCCAGCTGTTGGAGAACCGGCTGCTCATGAGGTGGTTGCTGTCCCAGCAGAGTGGTGTGGCCGTGCCAGCTACCCTGGCTTTCACTTATAGGCCTCCAGGACTGCTTCGGGGAGGGGATCCCAGCCCAGGACTCCGGCTGGTGGAACTCAGTGGGAAGGAGGGCCAGGAAACACTTGTGAAAGAGGAAGTAGAGGCCTTTGTACACTCTGAGGCCTTGGGTGATGCTTCACAGGACACGGACgtaggtgcaggcctgggtacccatgggagggaaccccagattgtccttac #### Carns1_ID389_3 --> 2 - 1 Original Alignment gcTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg cccttgattaatgttgtctaagaagacatatgcatttgcattttatttaggc---------------GTGACCTTGTGCATTCTTGGTTCTCTCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTggtaggtgtgtgctctaataccccaccttctcctacaaaaggggaagccct Alignment from CESAR gcTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTg gacccatggacaagacccttgattaacatatgcatttgcattttatttaggc---------------GTGACCTTGTGCATTCTTGGTTCTCTCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTggtaggtgtgtgctctaataccccaccttctcctacaaaaggggaagccct Alignment from Spaln_aa2Genome AGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cccttgattaatgttgtctaagaagacatatgcatttgcattttatttagGCGTGACCTTGTGCATTCTTGGTTCTCTCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaggtgtgtgctctaataccccaccttctcctacaaaaggggaagccct Alignment from Spaln_nt2Genome G--TGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cccttgattaatgttgtctaagaagacatatgcatttgcattttatttagGCGTGACCTTGTGCATTCTTGGTTCTCTCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaggtgtgtgctctaataccccaccttctcctacaaaaggggaagccct Alignment from Pairagon GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cccttgattaatgttgtctaagaagacatatgcatttgcattttatttagGC---------------GTGACCTTGTGCATTCTTGGTTCTCTCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaggtgtgtgctctaataccccaccttctcctacaaaaggggaagccct Alignment from Exonerate_protein2genome AGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cccttgattaatgttgtctaagaagacatatgcatttgcattttatttagGCGTGACCTTGTGCATTCTTGGTTCTCTCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaggtgtgtgctctaataccccaccttctcctacaaaaggggaagccct Alignment from Exonerate_coding2genome AGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cccttgattaatgttgtctaagaagacatatgcatttgcattttatttagGCGTGACCTTGTGCATTCTTGGTTCTCTCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaggtgtgtgctctaataccccaccttctcctacaaaaggggaagccct Alignment from GeneWise GCTGCCCTGGGGCAGAGGTGACCTTGTGCATTCTGGGTTCTCCCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTCCAGAGCCCTG cccttgattaatgttgtctaagaagacatatgcatttgcattttatttagGC---------------GTGACCTTGTGCATTCTTGGTTCTCTCAGCACCTTCCTATCTCTGTTGCTGGAGGGTGGGGTTCAAAGCCCTGgtaggtgtgtgctctaataccccaccttctcctacaaaaggggaagccct #### Catsper1_ID927_4 --> 2 - 2 Original Alignment acTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCag tttctttcgtttgacatcatcctaaattcgggccactccctgtgctccagacTTTTTCATTATGGTCATGGCA---CTGGACTTTGTACTACTCCAGATAAATTCGCTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTT---------aggtatgtagctaataaaggaccacccctactcatgtttttggagagctctc Alignment from CESAR acTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCag tttctttcgtttgacatcatcctaaattcgggccactccctgtgctccagacTTTTTCATTATGGTCATGGCA---CTGGACTTTGTACTACTCCAGATAAATTCGCTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTT---------aggtatgtagctaataaaggaccacccctactcatgtttttggagagctctc Alignment from Spaln_aa2Genome ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG tttctttcgtttgacatcatcctaaattcgggccactccctgtgctccagACTTTTTCATTATGGTCATGGCA---CTGGACTTTGTACTACTCCAGATAAATTCGCTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTT---------CTTAGgtatgtagctaataaaggaccacccctactcatgtttttggagagctctc Alignment from Spaln_nt2Genome ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCG tttctttcgtttgacatcatcctaaattcgggccactccctgtgctccagACTTTTTCATTATGGTCATGGCA---CTGGACTTTGTACTACTCCAGATAAATTCGCTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTAGgtatgtagctaataaaggaccacccctactcatgtttttggagagctctc Alignment from Pairagon ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG tttctttcgtttgacatcatcctaaattcgggccactccctgtgctccagACTTTTTCATTATGGTCATGGCA---CTGGACTTTGTACTACTCCAGATAAATTCGCTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTT---------AGgtatgtagctaataaaggaccacccctactcatgtttttggagagctctc Alignment from Exonerate_protein2genome ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCG tttctttcgtttgacatcatcctaaattcgggccactccctgtgctccagACTTTTTCATTATGGTCATGGCA---CTGGACTTTGTACTACTCCAGATAAATTCGCTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTAGgtatgtagctaataaaggaccacccctactcatgtttttggagagctctc Alignment from Exonerate_coding2genome ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCG tttctttcgtttgacatcatcctaaattcgggccactccctgtgctccagACTTTTTCATTATGGTCATGGCA---CTGGACTTTGTACTACTCCAGATAAATTCGCTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTTCTTAGgtatgtagctaataaaggaccacccctactcatgtttttggagagctctc Alignment from GeneWise ACTTCTTCATCATGGTCATGGCAGTGCTGGACTTTGTGCTCCTTCAGATAAACTCGCTCTCATATTCATTCTACAACCACAGCCTGTTCCGGATTCTCAAAGTCTTCAAAAGTATGCGGGCCCTGAGGGCCATCCGGGTTCTTCGGAGGCTCAG tttctttcgtttgacatcatcctaaattcgggccactccctgtgctccagACTTTTTCATTATGGTCATGGCA---CTGGACTTTGTACTACTCCAGATAAATTCGCTCTCATACTCATTTTACAACCACAGCCTGTTCCACATTCTCAAAGTCTTCAAAAGTATGAGGGCCCTGAGGGCCATTCGGGTT---------CTTAGgtatgtagctaataaaggaccacccctactcatgtttttggagagctctc #### Ccdc88b_ID1824_25 --> 2 - 1 Original Alignment ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg ccctgtgtttggatgacccttctccgcctccaccctgtgttttgttccaggg---TCATCACCAGCACCCATGCACCGCATCCAGAGCTCTCTCTGCTTGGGAGACGAGACCCTGGCTGGTGGGCAGCGGCGAAGTCTCAGTTCCCAGTTCCCTGGGGGACGAAGCCCTGCATCATTCAGTCCAGGCGACACCCCACGGCAATGGTTCAGACAGCAAAGGCCAGGCCCCCTCGGGGCACCGAGTACCTACAGCAAAggtaaggcatagagtccttgaattgaagctcccattattttgtgtgagtgg Alignment from CESAR ggTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAg cctccctgtgtttggatgacccttcgcctccaccctgtgttttgttccaggg---TCATCACCAGCACCCATGCACCGCATCCAGAGCTCTCTCTGCTTGGGAGACGAGACCCTGGCTGGTGGGCAGCGGCGAAGTCTCAGTTCCCAGTTCCCTGGGGGACGAAGCCCTGCATCATTCAGTCCAGGCGACACCCCACGGCAATGGTTCAGACAGCAAAGGCCAGGCCCCCTCGGGGCACCGAGTACCTACAGCAAAggtaaggcatagagtccttgaattgaagctcccattattttgtgtgagtgg Alignment from Spaln_aa2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG ccctgtgtttggatgacccttctccgcctccaccctgtgttttgttccagGG---TCATCACCAGCACCCATGCACCGCATCCAGAGCTCTCTCTGCTTGGGAGACGAGACCCTGGCTGGTGGGCAGCGGCGAAGTCTCAGTTCCCAGTTCCCTGGGGGACGAAGCCCTGCATCATTCAGTCCAGGCGACACCCCACGGCAATGGTTCAGACAGCAAAGGCCAGGCCCCCTCGGGGCACCGAGTACCTACAGCAAAGgtaaggcatagagtccttgaattgaagctcccattattttgtgtgagtgg Alignment from Spaln_nt2Genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG ccctgtgtttggatgacccttctccgcctccaccctgtgttttgttccagGG---TCATCACCAGCACCCATGCACCGCATCCAGAGCTCTCTCTGCTTGGGAGACGAGACCCTGGCTGGTGGGCAGCGGCGAAGTCTCAGTTCCCAGTTCCCTGGGGGACGAAGCCCTGCATCATTCAGTCCAGGCGACACCCCACGGCAATGGTTCAGACAGCAAAGGCCAGGCCCCCTCGGGGCACCGAGTACCTACAGCAAAGgtaaggcatagagtccttgaattgaagctcccattattttgtgtgagtgg Alignment from Pairagon GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG ccctgtgtttggatgacccttctccgcctccaccctgtgttttgttccagGG---TCATCACCAGCACCCATGCACCGCATCCAGAGCTCTCTCTGCTTGGGAGACGAGACCCTGGCTGGTGGGCAGCGGCGAAGTCTCAGTTCCCAGTTCCCTGGGGGACGAAGCCCTGCATCATTCAGTCCAGGCGACACCCCACGGCAATGGTTCAGACAGCAAAGGCCAGGCCCCCTCGGGGCACCGAGTACCTACAGCAAAGgtaaggcatagagtccttgaattgaagctcccattattttgtgtgagtgg Alignment from Exonerate_protein2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG ccctgtgtttggatgacccttctccgcctccaccctgtgttttgttccagGG---TCATCACCAGCACCCATGCACCGCATCCAGAGCTCTCTCTGCTTGGGAGACGAGACCCTGGCTGGTGGGCAGCGGCGAAGTCTCAGTTCCCAGTTCCCTGGGGGACGAAGCCCTGCATCATTCAGTCCAGGCGACACCCCACGGCAATGGTTCAGACAGCAAAGGCCAGGCCCCCTCGGGGCACCGAGTACCTACAGCAAAGgtaaggcatagagtccttgaattgaagctcccattattttgtgtgagtgg Alignment from Exonerate_coding2genome GGTCCTCGTCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG ccctgtgtttggatgacccttctccgcctccaccctgtgttttgttccagGG---TCATCACCAGCACCCATGCACCGCATCCAGAGCTCTCTCTGCTTGGGAGACGAGACCCTGGCTGGTGGGCAGCGGCGAAGTCTCAGTTCCCAGTTCCCTGGGGGACGAAGCCCTGCATCATTCAGTCCAGGCGACACCCCACGGCAATGGTTCAGACAGCAAAGGCCAGGCCCCCTCGGGGCACCGAGTACCTACAGCAAAGgtaaggcatagagtccttgaattgaagctcccattattttgtgtgagtgg Alignment from GeneWise -----TCACCAGCACCCATGCGCCGCGTCCAGAGCTCTCTCTGCTTGGGAGATGAGACCCTGGCAGGTGGGCAGCGGCGGAGACTCAGTTCCCGGTTCCCTGGGGGGCGAAGCTCTGCGTCATTTAGTCCAGGGGACACCCCAAGGCAACGGTTCAGACAGCGAAGACCCGGCCCCCTGGGGGCACCCAGTACCCACAGCAAAG ccctgtgtttggatgacccttctccgcctccaccctgtgttttgttccagGGTCATCACCAGCACCCATGCACCGCATCCAGAGCTCTCTCTGCTTGGGAGACGAGACCCTGGCTGGTGGGCAGCGGCGAAGTCTCAGTTCCCAGTTCCCTGGGGGACGAAGCCCTGCATCATTCAGTCCAGGCGACACCCCACGGCAATGGTTCAGACAGCAAAGGCCAGGCCCCCTCGGGGCACCGAGTACCTACAGCAAAGgtaaggcatagagtccttgaattgaagctcccattattttgtgtgagtgg #### Ccdc88b_ID1828_21 --> 1 - 0 Original Alignment aGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG--- tcaccacccttatgattgaccttgggcattcgctcctctgactcctgcagaGCTCAAATGCTACTGGCAGAGGTGTCACGGGGGTGTGGGGAGATCCAAGGTGAACGTGGGGAGCTGCGGGGCCGCCTGGCAAGGCTGGAACTGGAGCGTGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAACAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAAATCgtaagttacagtgtgcatgtggcctggcgcagctaagggaggcaagccaa Alignment from CESAR aGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG--- tcaccacccttatgattgaccttgggcattcgctcctctgactcctgcagaGCTCAAATGCTACTGGCAGAGGTGTCACGGGGGTGTGGGGAGATCCAAGGTGAACGTGGGGAGCTGCGGGGCCGCCTGGCAAGGCTGGAACTGGAGCGTGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAACAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAAATCgtaagttacagtgtgcatgtggcctggcgcagctaagggaggcaagccaa Alignment from Spaln_aa2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG--- tcaccacccttatgattgaccttgggcattcgctcctctgactcctgcagAGCTCAAATGCTACTGGCAGAGGTGTCACGGGGGTGTGGGGAGATCCAAGGTGAACGTGGGGAGCTGCGGGGCCGCCTGGCAAGGCTGGAACTGGAGCGTGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAACAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAAATCgtaagttacagtgtgcatgtggcctggcgcagctaagggaggcaagccaa Alignment from Spaln_nt2Genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG--- tcaccacccttatgattgaccttgggcattcgctcctctgactcctgcagAGCTCAAATGCTACTGGCAGAGGTGTCACGGGGGTGTGGGGAGATCCAAGGTGAACGTGGGGAGCTGCGGGGCCGCCTGGCAAGGCTGGAACTGGAGCGTGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAACAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAAATCgtaagttacagtgtgcatgtggcctggcgcagctaagggaggcaagccaa Alignment from Pairagon AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTG------------------------------------------------------- tcaccacccttatgattgaccttgggcattcgctcctctgactcctgcagAGCTCAAATGCTACTGGCAGAGGTGTCACGGGGGTGTGGGGAGATCCAAGGTGAACGTGGGGAGCTGCGGGGCCGCCTGGCAAGGCTGGAACTGGAGCGTGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAACAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAAATCGTAAGTTACAGTGTGCATGTGGCCTGGCGCAGCTAAGGGAGGCAAGCCAA Alignment from Exonerate_protein2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG--- tcaccacccttatgattgaccttgggcattcgctcctctgactcctgcagAGCTCAAATGCTACTGGCAGAGGTGTCACGGGGGTGTGGGGAGATCCAAGGTGAACGTGGGGAGCTGCGGGGCCGCCTGGCAAGGCTGGAACTGGAGCGTGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAACAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAAATCgtaagttacagtgtgcatgtggcctggcgcagctaagggaggcaagccaa Alignment from Exonerate_coding2genome AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAG--- tcaccacccttatgattgaccttgggcattcgctcctctgactcctgcagAGCTCAAATGCTACTGGCAGAGGTGTCACGGGGGTGTGGGGAGATCCAAGGTGAACGTGGGGAGCTGCGGGGCCGCCTGGCAAGGCTGGAACTGGAGCGTGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAACAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAAATCgtaagttacagtgtgcatgtggcctggcgcagctaagggaggcaagccaa Alignment from GeneWise AGCTCAGATGCTACTGGCCGAGGTGTCCCGGGAGCGAGGGGAGCTCCAAGGTGAACGCGGGGAGCTGCGGAGCCGCCTGGCGAGGCTGGAGCTGGAGCGCGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAGCAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAGCTT tcaccacccttatgattgaccttgggcattcgctcctctgactcctgcagAGCTCAAATGCTACTGGCAGAGGTGTCACGGGGGTGTGGGGAGATCCAAGGTGAACGTGGGGAGCTGCGGGGCCGCCTGGCAAGGCTGGAACTGGAGCGTGCACAACTTGAGATCCAGAGCCAGCAGCTGCGTGAGTCCAACCAACAGTTGGACCTGAGTGCCTGTCGTCTGACCACACAGTGTGAAATCgtaagttacagtgtgcatgtggcctggcgcagctaagggaggcaagccaa #### Ccdc88b_ID1832_17 --> 0 - 0 Original Alignment CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT caaaaccttaggacaacaccaatttgtgactatacaaattattttcccag------------------------------GGGGCACGGGCTGGGCCTTGGACTGTGGAGACACAGAATGGACGGCTCATTGAAGTGGAGCAAAATgtgagtgaaaaaatgggggattgcccaagggatggcagggctaacaactt Alignment from CESAR CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT gcagctgcttcaactactgcaatttgtgactatacaaattattttcccag------------------------------GGGGCACGGGCTGGGCCTTGGACTGTGGAGACACAGAATGGACGGCTCATTGAAGTGGAGCAAAATgtgagtgaaaaaatgggggattgcccaagggatggcagggctaacaactt Alignment from Spaln_aa2Genome GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT caaaaccttaggacaacaccaatttgtgactatacaaattattttcccagGGGGCACGGGCTGGGCCTTGGACTGTGGAGACACAGAATGGACGGCTCATTGAAGTGGAGCAAAATgtgagtgaaaaaatgggggattgcccaagggatggcagggctaacaactt Alignment from Spaln_nt2Genome GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT caaaaccttaggacaacaccaatttgtgactatacaaattattttcccagGGGGCACGGGCTGGGCCTTGGACTGTGGAGACACAGAATGGACGGCTCATTGAAGTGGAGCAAAATgtgagtgaaaaaatgggggattgcccaagggatggcagggctaacaactt Alignment from Pairagon CTGCGCCAGTACCCGGTGGACCTGGCAACTGGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT caaaaccttaggacaacaccaatttgtgactatacaaattattttcccag------------------------------GGGGCACGGGCTGGGCCTTGGACTGTGGAGACACAGAATGGACGGCTCATTGAAGTGGAGCAAAATgtgagtgaaaaaatgggggattgcccaagggatggcagggctaacaactt Alignment from Exonerate_protein2genome GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT caaaaccttaggacaacaccaatttgtgactatacaaattattttcccagGGGGCACGGGCTGGGCCTTGGACTGTGGAGACACAGAATGGACGGCTCATTGAAGTGGAGCAAAATgtgagtgaaaaaatgggggattgcccaagggatggcagggctaacaactt Alignment from Exonerate_coding2genome GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT caaaaccttaggacaacaccaatttgtgactatacaaattattttcccagGGGGCACGGGCTGGGCCTTGGACTGTGGAGACACAGAATGGACGGCTCATTGAAGTGGAGCAAAATgtgagtgaaaaaatgggggattgcccaagggatggcagggctaacaactt Alignment from GeneWise GGGGCGCGAGCTGGGCCTCGGACTGTGGAGACCCAGAATGGACGGCTCATCGAAGTGGAGCGAAAT-------------------------------------------------- caaaaccttaggacaacaccaatttgtgactatacaaattattttcccagGGGGCACGGGCTGGGCCTTGGACTGTGGAGACACAGAATGGACGGCTCATTGAAGTGGAGCAAAATGTGAGTGAAAAAATGGGGGATTGCCCAAGGGATGGCAGGGCTAACAACTT #### Ccdc88b_ID1836_13 --> 2 - 0 Original Alignment ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG caggagtgggagaggatgaacagaatagtacgtcctgttctgaattgcagcc---CTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGACTGAGGGCAGTGGAACGGGAAAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgtgaggtcctccagtattcttattttccatattttcattgtttcccaccc Alignment from CESAR ccTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG gggcaggagtgggagaggatgaacatagtacgtcctgttctgaattgcagcc---CTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGACTGAGGGCAGTGGAACGGGAAAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgtgaggtcctccagtattcttattttccatattttcattgtttcccaccc Alignment from Spaln_aa2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG caggagtgggagaggatgaacagaatagtacgtcctgttctgaattgcagCC---CTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGACTGAGGGCAGTGGAACGGGAAAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgtgaggtcctccagtattcttattttccatattttcattgtttcccaccc Alignment from Spaln_nt2Genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG caggagtgggagaggatgaacagaatagtacgtcctgttctgaattgcag---CCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGACTGAGGGCAGTGGAACGGGAAAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgtgaggtcctccagtattcttattttccatattttcattgtttcccaccc Alignment from Pairagon CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG caggagtgggagaggatgaacagaatagtacgtcctgttctgaattgcag---CCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGACTGAGGGCAGTGGAACGGGAAAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgtgaggtcctccagtattcttattttccatattttcattgtttcccaccc Alignment from Exonerate_protein2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG caggagtgggagaggatgaacagaatagtacgtcctgttctgaattgCAGCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGACTGAGGGCAGTGGAACGGGAAAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgtgaggtcctccagtattcttattttccatattttcattgtttcccaccc Alignment from Exonerate_coding2genome CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG caggagtgggagaggatgaacagaatagtacgtcctgttctgaattgCAGCCCTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGACTGAGGGCAGTGGAACGGGAAAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgtgaggtcctccagtattcttattttccatattttcattgtttcccaccc Alignment from GeneWise CCTCCCTACCCGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGCTGGGAGGCTAAGGGCAGTGGAACGGGAGAACCGGGAGCTTCGAGGCCAACTACAGATGCTTCAGGCACAGCTTGGCAGCCAG caggagtgggagaggatgaacagaatagtacgtcctgttctgaattgcagCC---CTACCTGGAGCAGCACCCTCACTGCAAGATGAGGTGAGGGAAGCAGAGGGTGGGAGACTGAGGGCAGTGGAACGGGAAAACCGGGAGCTTCGAGGTCAACTACGTATGCTTCAGGCACAGCTTGGCAGCCAGgtgaggtcctccagtattcttattttccatattttcattgtttcccaccc #### Ccdc88b_ID1837_12 --> 0 - 1 Original Alignment ---------GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg ggataagcaagcttgatgaacaggatgcgccctgcccattgttccgccagGCAGATCTAGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCACCCCCAGGTTCCCCTGGGGAGggtaaggtaggcctagggtaagggcaaggatctgggggggaaggcagcccg Alignment from CESAR ---------GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGg ggataagcaagcttgatgaacaggatgcgccctgcccattgttccgccagGCAGATCTAGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCACCCCCAGGTTCCCCTGGGGAGggtaaggtaggcctagggtaagggcaaggatctgggggggaaggcagcccg Alignment from Spaln_aa2Genome GCCCATGCGGACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggataagcaagcttgatgaacaggatgcgccctgcccattgttccgccagGCAGATCTAGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCACCCCCAGGTTCCCCTGGGGAGGgtaaggtaggcctagggtaagggcaaggatctgggggggaaggcagcccg Alignment from Spaln_nt2Genome -----GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggataagcaagcttgatgaacaggatgcgccctgcccattgttccgccaggcagATCTAGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCACCCCCAGGTTCCCCTGGGGAGGgtaaggtaggcctagggtaagggcaaggatctgggggggaaggcagcccg Alignment from Pairagon ACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggataagcaagcttgatgaacaggatgcgccctgcccattgttccgccaggcagatctagACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCACCCCCAGGTTCCCCTGGGGAGGgtaaggtaggcctagggtaagggcaaggatctgggggggaaggcagcccg Alignment from Exonerate_protein2genome ATGCGGACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggataagcaagcttgatgaacaggatgcgccctgcccattgttccgccaggcagATCTAGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCACCCCCAGGTTCCCCTGGGGAGGgtaaggtaggcctagggtaagggcaaggatctgggggggaaggcagcccg Alignment from Exonerate_coding2genome ATGCGGACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggataagcaagcttgatgaacaggatgcgccctgcccattgttccgccaggcagATCTAGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCACCCCCAGGTTCCCCTGGGGAGGgtaaggtaggcctagggtaagggcaaggatctgggggggaaggcagcccg Alignment from GeneWise ---------GACCTGGACTCTCTGCGGCATCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGGAGTCTGGAGCCACCCCCAGGCTCCCCTGGGGAGG ggataagcaagcttgatgaacaggatgcgccctgcccattgttccgccagGCAGATCTAGACCTGGACTCTCTGCGGCACCAGCTGGAGCAGCTGGTGGAAGAGAATGTGGAGCTGGAGCTGGAACTTCAGAGAAGTCTGGAGCCACCCCCAGGTTCCCCTGGGGAGGgtaaggtaggcctagggtaagggcaaggatctgggggggaaggcagcccg #### Ccdc88b_ID1838_11 --> 0 - 0 Original Alignment GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taaagaattgatcccaccaaggaaaaacctttaacctatcttcctttcag------CGGGTCCTGTCTGAAGCTGTGGAGGCCTCAACAGTCCTACTGGAAGAGCAGCTGGAGGTTGCCCGAAAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACACGATTGGGTGAGGCCCATGTGgtacgataggctaacctctccatctttgtccctggttcttcatgatgcta Alignment from CESAR GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG agagcataaagaattgatcccaccaaacctttaacctatcttcctttcag------CGGGTCCTGTCTGAAGCTGTGGAGGCCTCAACAGTCCTACTGGAAGAGCAGCTGGAGGTTGCCCGAAAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACACGATTGGGTGAGGCCCATGTGgtacgataggctaacctctccatctttgtccctggttcttcatgatgcta Alignment from Spaln_aa2Genome GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taaagaattgatcccaccaaggaaaaacctttaacctatcttcctttcag------CGGGTCCTGTCTGAAGCTGTGGAGGCCTCAACAGTCCTACTGGAAGAGCAGCTGGAGGTTGCCCGAAAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACACGATTGGGTGAGGCCCATGTGgtacgataggctaacctctccatctttgtccctggttcttcatgatgcta Alignment from Spaln_nt2Genome CGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taaagaattgatcccaccaaggaaaaacctttaacctatcttcctttcagCGGGTCCTGTCTGAAGCTGTGGAGGCCTCAACAGTCCTACTGGAAGAGCAGCTGGAGGTTGCCCGAAAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACACGATTGGGTGAGGCCCATGTGgtacgataggctaacctctccatctttgtccctggttcttcatgatgcta Alignment from Pairagon GAGGAGCGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taaagaattgatcccaccaaggaaaaacctttaacctatcttcctttcag------CGGGTCCTGTCTGAAGCTGTGGAGGCCTCAACAGTCCTACTGGAAGAGCAGCTGGAGGTTGCCCGAAAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACACGATTGGGTGAGGCCCATGTGgtacgataggctaacctctccatctttgtccctggttcttcatgatgcta Alignment from Exonerate_protein2genome CGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taaagaattgatcccaccaaggaaaaacctttaacctatcttcctttcagCGGGTCCTGTCTGAAGCTGTGGAGGCCTCAACAGTCCTACTGGAAGAGCAGCTGGAGGTTGCCCGAAAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACACGATTGGGTGAGGCCCATGTGgtacgataggctaacctctccatctttgtccctggttcttcatgatgcta Alignment from Exonerate_coding2genome CGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taaagaattgatcccaccaaggaaaaacctttaacctatcttcctttcagCGGGTCCTGTCTGAAGCTGTGGAGGCCTCAACAGTCCTACTGGAAGAGCAGCTGGAGGTTGCCCGAAAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACACGATTGGGTGAGGCCCATGTGgtacgataggctaacctctccatctttgtccctggttcttcatgatgcta Alignment from GeneWise CGGGTCCTTTCCGAGGCCCTGGAGGCCTCGAAGGTCCTGCTAGAGGAACAGCTGGAGGTTGCCCGAGAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACGCGGTTGGGCGAGGCCCATGCG taaagaattgatcccaccaaggaaaaacctttaacctatcttcctttcagCGGGTCCTGTCTGAAGCTGTGGAGGCCTCAACAGTCCTACTGGAAGAGCAGCTGGAGGTTGCCCGAAAGCGCTCAGCCAGGCTGCATGAGACCCAGAGGGAGAACCTCCTGCTGCGCACACGATTGGGTGAGGCCCATGTGgtacgataggctaacctctccatctttgtccctggttcttcatgatgcta #### Ccdc88b_ID1839_10 --> 0 - 0 Original Alignment ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ctttgtcccatggctcactaatcttatatacccttgtcttggggaagtag---CAGGCACTGTCCGCCCAAGCAAAGCGTGCAGAGCTCTGCCGTGAGGAAGCAGAGGCACTGCAG---GAGGCTGGTCACCTGCCACGCCTGCAGGAAGAACTCCGGCGCTGTCGTGAGAAGCTTCAGGCTGCGGAGGTCTTCAAGGGTCATTTGGAGgtttgttgggccatgacagagccagagacagagtatttggtgggtgtagt Alignment from CESAR ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG cccctttgtcccatggctcactaatatatacccttgtcttggggaagtag---CAGGCACTGTCCGCCCAAGCAAAGCGTGCAGAGCTCTGCCGTGAGGAAGCAGAGGCACTGCAGGAG---GCTGGTCACCTGCCACGCCTGCAGGAAGAACTCCGGCGCTGTCGTGAGAAGCTTCAGGCTGCGGAGGTCTTCAAGGGTCATTTGGAGgtttgttgggccatgacagagccagagacagagtatttggtgggtgtagt Alignment from Spaln_aa2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ctttgtcccatggctcactaatcttatatacccttgtcttggggaagtag---CAGGCACTGTCCGCCCAAGCAAAGCGTGCAGAGCTCTGCCGTGAGGAAGCAGAGGCACTGCAGGAG---GCTGGTCACCTGCCACGCCTGCAGGAAGAACTCCGGCGCTGTCGTGAGAAGCTTCAGGCTGCGGAGGTCTTCAAGGGTCATTTGGAGgtttgttgggccatgacagagccagagacagagtatttggtgggtgtagt Alignment from Spaln_nt2Genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ctttgtcccatggctcactaatcttatatacccttgtcttggggaagTAGCAGGCACTGTCCGCCCAAGCAAAGCGTGCAGAGCTCTGCCGTGAGGAAGCAGAGGCACTGCAGGA---GGCTGGTCACCTGCCACGCCTGCAGGAAGAACTCCGGCGCTGTCGTGAGAAGCTTCAGGCTGCGGAGGTCTTCAAGGGTCATTTGGAGgtttgttgggccatgacagagccagagacagagtatttggtgggtgtagt Alignment from Pairagon ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ctttgtcccatggctcactaatcttatatacccttgtcttggggaagtag---CAGGCACTGTCCGCCCAAGCAAAGCGTGCAGAGCTCTGCCGTGAGGAAGCAGAGGCACTGCAGGA---GGCTGGTCACCTGCCACGCCTGCAGGAAGAACTCCGGCGCTGTCGTGAGAAGCTTCAGGCTGCGGAGGTCTTCAAGGGTCATTTGGAGgtttgttgggccatgacagagccagagacagagtatttggtgggtgtagt Alignment from Exonerate_protein2genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ctttgtcccatggctcactaatcttatatacccttgtcttggggaagTAGCAGGCACTGTCCGCCCAAGCAAAGCGTGCAGAGCTCTGCCGTGAGGAAGCAGAGGCACTGCAGGAG---GCTGGTCACCTGCCACGCCTGCAGGAAGAACTCCGGCGCTGTCGTGAGAAGCTTCAGGCTGCGGAGGTCTTCAAGGGTCATTTGGAGgtttgttgggccatgacagagccagagacagagtatttggtgggtgtagt Alignment from Exonerate_coding2genome ACTCAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ctttgtcccatggctcactaatcttatatacccttgtcttggggaagTAGCAGGCACTGTCCGCCCAAGCAAAGCGTGCAGAGCTCTGCCGTGAGGAAGCAGAGGCACTGCAGGAG---GCTGGTCACCTGCCACGCCTGCAGGAAGAACTCCGGCGCTGTCGTGAGAAGCTTCAGGCTGCGGAGGTCTTCAAGGGTCATTTGGAGgtttgttgggccatgacagagccagagacagagtatttggtgggtgtagt Alignment from GeneWise CAGGCGCTGTCCGCACAAGCCAAGCGCGCAGAGCTCTACCGCGAGGAGGCAGAGGCACTGCGGGAGCGGGCCGGCCGCCTGCCACGCCTGCAGGAAGAACTGCGGCGCTGTCGCGAGAAGCTTCAAGCTGCAGAGGTCTTCAAGGGTCAGCTGGAG ctttgtcccatggctcactaatcttatatacccttgtcttggggaagtagCAGGCACTGTCCGCCCAAGCAAAGCGTGCAGAGCTCTGCCGTGAGGAAGCAGAGGCACTGCAGGAG---GCTGGTCACCTGCCACGCCTGCAGGAAGAACTCCGGCGCTGTCGTGAGAAGCTTCAGGCTGCGGAGGTCTTCAAGGGTCATTTGGAGgtttgttgggccatgacagagccagagacagagtatttggtgggtgtagt #### Ccdc88b_ID1841_8 --> 0 - 2 Original Alignment CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAG---------------------gt tgcaaagggggtttgtaacatgcttcttacctgccaacctcttcccacagCGGTTGGCTGAACTGCTGCTGGAGCGGGAGCCAGCCCACTTGCTGCTGCCTGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGACCTCATTTGGGCTGCTAGTgtgtaggggtctgaaggctcattaaggggtcagtgagatcctgacaggtcct Alignment from CESAR CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAG---------------------gt tgcaaagggggtttgtaacatgcttcttacctgccaacctcttcccacagCGGTTGGCTGAACTGCTGCTGGAGCGGGAGCCAGCCCACTTGCTGCTGCCTGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGACCTCATTTGGGCTGCTAGTgtgtaggggtctgaaggctcattaaggggtcagtgagatcctgacaggtcct Alignment from Spaln_aa2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAG tgcaaagggggtttgtaacatgcttcttacctgccaacctcttcccacagCGGTTGGCTGAACTGCTGCTGGAGCGGGAGCCAGCCCACTTGCTGCTGCCTGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGgcaggaggacctcatttgggctgctagtgtgtaggggtctgaaggctcattaaggggtcagtgagatcctgacaggtcct Alignment from Spaln_nt2Genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGG-------------T tgcaaagggggtttgtaacatgcttcttacctgccaacctcttcccacagCGGTTGGCTGAACTGCTGCTGGAGCGGGAGCCAGCCCACTTGCTGCTGCCTGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGACCTCATTTGGGCTgctagtgtgtaggggtctgaaggctcattaaggggtcagtgagatcctgacaggtcct Alignment from Pairagon CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAG---------------------GT tgcaaagggggtttgtaacatgcttcttacctgccaacctcttcccacagCGGTTGGCTGAACTGCTGCTGGAGCGGGAGCCAGCCCACTTGCTGCTGCCTGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGACCTCATTTGGGCTGCTAGTGTgtaggggtctgaaggctcattaaggggtcagtgagatcctgacaggtcct Alignment from Exonerate_protein2genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGA tgcaaagggggtttgtaacatgcttcttacctgccaacctcttcccacagCGGTTGGCTGAACTGCTGCTGGAGCGGGAGCCAGCCCACTTGCTGCTGCCTGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAggacctcatttgggctgctagtgtgtaggggtctgaaggctcattaaggggtcagtgagatcctgacaggtcct Alignment from Exonerate_coding2genome CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGA tgcaaagggggtttgtaacatgcttcttacctgccaacctcttcccacagCGGTTGGCTGAACTGCTGCTGGAGCGGGAGCCAGCCCACTTGCTGCTGCCTGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAggacctcatttgggctgctagtgtgtaggggtctgaaggctcattaaggggtcagtgagatcctgacaggtcct Alignment from GeneWise CGGTTGGCTGAACTGCTGCTAGAGCGGGAGCCAGCCCACTTGCTGCTGCCAGAGGCTCCTGCTAATGCGTCTGCGGAGGGTGTCTCGCACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAG---------------------GT tgcaaagggggtttgtaacatgcttcttacctgccaacctcttcccacagCGGTTGGCTGAACTGCTGCTGGAGCGGGAGCCAGCCCACTTGCTGCTGCCTGAGGCTCCTGCTAATGCATCTGCGGAGGGTGTCTCACACCATCTGGCTCTGCAGCTGACCAATGCCAAGGCCCAGCTGAGACGCCTGAGGCAGGAGGACCTCATTTGGGCTGCTAGTGTgtaggggtctgaaggctcattaaggggtcagtgagatcctgacaggtcct #### Ccdc88b_ID1845_4 --> 0 - 1 Original Alignment ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg ggcccagcagcacctgttaggatgtcttagagacccctgtctcccaacagACAGAGGAGCTACAGCTGCTAATCCTATCACCACCTCCAGACCTCCAGACTACAGGGTGCGAGCCCTTCTCAggtcagtcttcctaccctccttctgtcatcggtcactgccctatatcctta Alignment from CESAR ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAg ggcccagcagcacctgttaggatgtcttagagacccctgtctcccaacagACAGAGGAGCTACAGCTGCTAATCCTATCACCACCTCCAGACCTCCAGACTACAGGGTGCGAGCCCTTCTCAggtcagtcttcctaccctccttctgtcatcggtcactgccctatatcctta Alignment from Spaln_aa2Genome GAGGAGCTACAG---CTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagcacctgttaggatgtcttagagacccctgtctcccaacagACAGAGGAGCTACAGCTGCTAATCCTATCACCACCTCCAGACCTCCAGACTACAGGGTGCGAGCCCTTCTCAGgtcagtcttcctaccctccttctgtcatcggtcactgccctatatcctta Alignment from Spaln_nt2Genome GAGGAGCTAC---AGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagcacctgttaggatgtcttagagacccctgtctcccaacagACAGAGGAGCTACAGCTGCTAATCCTATCACCACCTCCAGACCTCCAGACTACAGGGTGCGAGCCCTTCTCAGgtcagtcttcctaccctccttctgtcatcggtcactgccctatatcctta Alignment from Pairagon -----------------------------------------------------GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG GGCCCAGCAGCACCTGTTAGGATGTCTTAGAGACCCCTGTCTCCCAACAGACAGAGGAGCTACAGCTGCTAATCCTATCACCACCTCCAGACCTCCAGACTACAGGGTGCGAGCCCTTCTCAGgtcagtcttcctaccctccttctgtcatcggtcactgccctatatcctta Alignment from Exonerate_protein2genome ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagcacctgttaggatgtcttagagacccctgtctcccaacagACAGAGGAGCTACAGCTGCTAATCCTATCACCACCTCCAGACCTCCAGACTACAGGGTGCGAGCCCTTCTCAGgtcagtcttcctaccctccttctgtcatcggtcactgccctatatcctta Alignment from Exonerate_coding2genome ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagcacctgttaggatgtcttagagacccctgtctcccaacagACAGAGGAGCTACAGCTGCTAATCCTATCACCACCTCCAGACCTCCAGACTACAGGGTGCGAGCCCTTCTCAGgtcagtcttcctaccctccttctgtcatcggtcactgccctatatcctta Alignment from GeneWise ---GAGGAGCTACAGCTGCTGATCCTATCACCACCTCCAGACCTCCAGACAATGGGGTGTGACCCCTTCTCAG ggcccagcagcacctgttaggatgtcttagagacccctgtctcccaacagACAGAGGAGCTACAGCTGCTAATCCTATCACCACCTCCAGACCTCCAGACTACAGGGTGCGAGCCCTTCTCAGgtcagtcttcctaccctccttctgtcatcggtcactgccctatatcctta #### Ccdc88b_ID1846_3 --> 1 - 0 Original Alignment tGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG--------- aaagtctgtctggatccaggcttacacccagagctctctctctcctgcagtGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTACCAGTTTGAGATTgtaacatatcaggagggtgaagcgtgaggcccagcagcacctgttaggat Alignment from CESAR tGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG--------- aaagtctgtctggatccaggcttacacccagagctctctctctcctgcagtGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTACCAGTTTGAGATTgtaacatatcaggagggtgaagcgtgaggcccagcagcacctgttaggat Alignment from Spaln_aa2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG--------- aaagtctgtctggatccaggcttacacccagagctctctctctcctgcagTGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTACCAGTTTGAGATTgtaacatatcaggagggtgaagcgtgaggcccagcagcacctgttaggat Alignment from Spaln_nt2Genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCA aaagtctgtctggatccaggcttacacccagagctctctctctcctgcagTGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTACCAgtttgagattgtaacatatcaggagggtgaagcgtgaggcccagcagcacctgttaggat Alignment from Pairagon TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACC------------------------------------------------------------- aaagtctgtctggatccaggcttacacccagagctctctctctcctgcagTGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTACCAGTTTGAGATTGTAACATATCAGGAGGGTGAAGCGTGAGGCCCAGCAGCACCTGTTAGGAT Alignment from Exonerate_protein2genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaagtctgtctggatccaggcttacacccagagctctctctctcctgcagTGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTACCAGtttgagattgtaacatatcaggagggtgaagcgtgaggcccagcagcacctgttaggat Alignment from Exonerate_coding2genome TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAG aaagtctgtctggatccaggcttacacccagagctctctctctcctgcagTGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTACCAGtttgagattgtaacatatcaggagggtgaagcgtgaggcccagcagcacctgttaggat Alignment from GeneWise TGCTCCCAGTTCCCGAGGAGGACTTCGAATGGTCAGGGGCCGTGATGGTCCTGCAGCCTGTCGGATGTGGAACCTCTGTCATCTATGGGGGCGACTGAGGGATTTTTACCAGGAGGAGCTA aaagtctgtctggatccaggcttacacccagagctctctctctcctgcagTGCTCCGAGTTCCCAAGGGGGACTTCGTATGGTCAGGGGGCGGGATGGTCCTGCAGCCTGTCAAATGTGGAACCTCTGTCATCTATGGGGGCGATTGAGGGATTTTTACCAGTTTGAGATTgtaacatatcaggagggtgaagcgtgaggcccagcagcacctgttaggat #### Ccdc88b_ID1847_2 --> 0 - 2 Original Alignment GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat cctggtattatgtatcagcccctcctccaaattatttcattctttccaagGCTCTGGGATTGGCTGGGCTTGTGGGGGAGGCAGAAGAATCAGCAGGAGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACGGAGAAAAGATTCCTACGGCTGATCGATGGAGCCTTACTCCTTCGGGTGTTA------atgtaagcgattatgacatggggaagttgagttggggggggggctatgaatg Alignment from CESAR GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCat cctggtattatgtatcagcccctcctccaaattatttcattctttccaagGCTCTGGGATTGGCTGGGCTTGTGGGGGAGGCAGAAGAATCAGCAGGAGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACGGAGAAAAGATTCCTACGGCTGATCGATGGAGCCTTACTCCTTCGGGTGTTA------atgtaagcgattatgacatggggaagttgagttggggggggggctatgaatg Alignment from Spaln_aa2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGG cctggtattatgtatcagcccctcctccaaattatttcattctttccaagGCTCTGGGATTGGCTGGGCTTGTGGGGGAGGCAGAAGAATCAGCAGGAGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACGGAGAAAAGATTCCTACGGCTGATCGATGGAGCCTTACTCCTTCGGGTGTTAATgtaagcgattatgacatggggaagttgagttggggggggggctatgaatg Alignment from Spaln_nt2Genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT cctggtattatgtatcagcccctcctccaaattatttcattctttccaagGCTCTGGGATTGGCTGGGCTTGTGGGGGAGGCAGAAGAATCAGCAGGAGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACGGAGAAAAGATTCCTACGGCTGATCGATGGAGCCTTACTCCTTCGGGTG------TTAATgtaagcgattatgacatggggaagttgagttggggggggggctatgaatg Alignment from Pairagon GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT cctggtattatgtatcagcccctcctccaaattatttcattctttccaagGCTCTGGGATTGGCTGGGCTTGTGGGGGAGGCAGAAGAATCAGCAGGAGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACGGAGAAAAGATTCCTACGGCTGATCGATGGAGCCTTACTCCTTCGGGTGTTA------ATgtaagcgattatgacatggggaagttgagttggggggggggctatgaatg Alignment from Exonerate_protein2genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT cctggtattatgtatcagcccctcctccaaattatttcattctttccaagGCTCTGGGATTGGCTGGGCTTGTGGGGGAGGCAGAAGAATCAGCAGGAGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACGGAGAAAAGATTCCTACGGCTGATCGATGGAGCCTTACTCCTTCGGGTGTTA------ATgtaagcgattatgacatggggaagttgagttggggggggggctatgaatg Alignment from Exonerate_coding2genome GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGGCATCAT cctggtattatgtatcagcccctcctccaaattatttcattctttccaagGCTCTGGGATTGGCTGGGCTTGTGGGGGAGGCAGAAGAATCAGCAGGAGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACGGAGAAAAGATTCCTACGGCTGATCGATGGAGCCTTACTCCTTCGGGTGTTA------ATgtaagcgattatgacatggggaagttgagttggggggggggctatgaatg Alignment from GeneWise GCACTGGGACTGGCTGGGCTGGTGGGGGAGGCAGAAGAATCAGCGGGGGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACAGAGAAGAGATTCCTGCGGCTGATCGATGGAGCCTTACTCCTTCGGGTGCTGGG cctggtattatgtatcagcccctcctccaaattatttcattctttccaagGCTCTGGGATTGGCTGGGCTTGTGGGGGAGGCAGAAGAATCAGCAGGAGGAACAGAGGAGGAGGAGGAGGAGGAGGAGGAAGAGGGGGCTCTTTGTACGGAGAAAAGATTCCTACGGCTGATCGATGGAGCCTTACTCCTTCGGGTGTTAATgtaagcgattatgacatggggaagttgagttggggggggggctatgaatg #### Ccnj_ID8043_4 --> 2 - 2 Original Alignment atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTG------ct tggtgacttaagtgttttgttgttcaggtctcgaactctgactgttctagatTATGCATTTCTAAATTATGCACCTTCCTTAGTAGCTGCTGCATGCGTGGCCTCTTCGAGAATTATCCTTCGTCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGACTTCTTGGTGCAGTGTATCGAACGGCTATTGGTGGTTctgtaccacgcttttctcttgcttttataattcgcaatcagcattttccttc Alignment from CESAR atTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTG------ct tggtgacttaagtgttttgttgttcaggtctcgaactctgactgttctagatTATGCATTTCTAAATTATGCACCTTCCTTAGTAGCTGCTGCATGCGTGGCCTCTTCGAGAATTATCCTTCGTCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGACTTCTTGGTGCAGTGTATCGAACGGCTATTGGTGGTTctgtaccacgcttttctcttgcttttataattcgcaatcagcattttccttc Alignment from Spaln_aa2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCTT----- tggtgacttaagtgttttgttgttcaggtctcgaactctgactgttctagATTATGCATTTCTAAATTATGCACCTTCCTTAGTAGCTGCTGCATGCGTGGCCTCTTCGAGAATTATCCTTCGTCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGACTTCTTGGTGCAGTGTATCGAACGGCTATTGGTGGTTCTgtaccacgcttttctcttgcttttataattcgcaatcagcattttccttc Alignment from Spaln_nt2Genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT- tggtgacttaagtgttttgttgttcaggtctcgaactctgactgttctagATTATGCATTTCTAAATTATGCACCTTCCTTAGTAGCTGCTGCATGCGTGGCCTCTTCGAGAATTATCCTTCGTCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGACTTCTTGGTGCAGTGTATCGAACGGCTATTGGTGgttctgtaccacgcttttctcttgcttttataattcgcaatcagcattttccttc Alignment from Pairagon ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTG tggtgacttaagtgttttgttgttcaggtctcgaactctgactgttctagATTATGCATTTCTAAATTATGCACCTTCCTTAGTAGCTGCTGCATGCGTGGCCTCTTCGAGAATTATCCTTCGTCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGACTTCTTGGTGCAGTGTATCGAACGGCTATTGgtggttctgtaccacgcttttctcttgcttttataattcgcaatcagcattttccttc Alignment from Exonerate_protein2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tggtgacttaagtgttttgttgttcaggtctcgaactctgactgttctagATTATGCATTTCTAAATTATGCACCTTCCTTAGTAGCTGCTGCATGCGTGGCCTCTTCGAGAATTATCCTTCGTCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGACTTCTTGGTGCAGTGTATCGAACGGCTATTGGTggttctgtaccacgcttttctcttgcttttataattcgcaatcagcattttccttc Alignment from Exonerate_coding2genome ATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCT tggtgacttaagtgttttgttgttcaggtctcgaactctgactgttctagATTATGCATTTCTAAATTATGCACCTTCCTTAGTAGCTGCTGCATGCGTGGCCTCTTCGAGAATTATCCTTCGTCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGACTTCTTGGTGCAGTGTATCGAACGGCTATTGGTggttctgtaccacgcttttctcttgcttttataattcgcaatcagcattttccttc Alignment from GeneWise -------------------------------------------------GATTATGCCTTTCTAAATTATGCACCTTCTTTAGTAGCTGCTGCGTGTGTGGCTTCTTCGAGGATTATCCTTCGTCTGTCTCCAACGTGGCCCACGAGACTGCACCGTCTCACTGCCTACTCCTGGGACTTCTTGGTGCAGTGTATCGAACGGCTGTTGCTTGCT-- TGGTGACTTAAGTGTTTTGTTGTTCAGGTCTCGAACTCTGACTGTTCTAGATTATGCATTTCTAAATTATGCACCTTCCTTAGTAGCTGCTGCATGCGTGGCCTCTTCGAGAATTATCCTTCGTCTGTCTCCAACATGGCCAACAAGACTACACTGTTTCACTGCCTATTCTTGGGACTTCTTGGTGCAGTGTATCGAACGGCTATTGGTGGTTCTgtaccacgcttttctcttgcttttataattcgcaatcagcattttccttc #### Ccs_ID661_7 --> 0 - 2 Original Alignment GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAG------ag agagagcagtcacaggacgatggcactgctttcccacacatctgttacagGTGTGGGATGTGATTGGACGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCCTTATCCAAGATCACAGGGAATTCTGGGAAGCTTAAAaggtgcgtcgcacttccaccaacagaggcagtgatatgccagtggtccgctc Alignment from CESAR GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAG------ag agagagcagtcacaggacgatggcactgctttcccacacatctgttacagGTGTGGGATGTGATTGGACGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCCTTATCCAAGATCACAGGGAATTCTGGGAAGCTTAAAaggtgcgtcgcacttccaccaacagaggcagtgatatgccagtggtccgctc Alignment from Spaln_aa2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGG------AAGAG agagagcagtcacaggacgatggcactgctttcccacacatctgttacagGTGTGGGATGTGATTGGACGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCCTTATCCAAGATCACAGGGAATTCTGGGAAGCTTAAAAGgtgcgtcgcacttccaccaacagaggcagtgatatgccagtggtccgctc Alignment from Spaln_nt2Genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAG------AG agagagcagtcacaggacgatggcactgctttcccacacatctgttacagGTGTGGGATGTGATTGGACGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCCTTATCCAAGATCACAGGGAATTCTGGGAAGCTTAAAAGgtgcgtcgcacttccaccaacagaggcagtgatatgccagtggtccgctc Alignment from Pairagon GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAG---------------------------------------------------------- agagagcagtcacaggacgatggcactgctttcccacacatctgttacagGTGTGGGATGTGATTGGACGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCCTTATCCAAGATCACAGGGAATTCTGGGAAGCTTAAAAGGTGCGTCGCACTTCCACCAACAGAGGCAGTGATATGCCAGTGGTCCGCTC Alignment from Exonerate_protein2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGG------AAGAG agagagcagtcacaggacgatggcactgctttcccacacatctgttacagGTGTGGGATGTGATTGGACGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCCTTATCCAAGATCACAGGGAATTCTGGGAAGCTTAAAAGgtgcgtcgcacttccaccaacagaggcagtgatatgccagtggtccgctc Alignment from Exonerate_coding2genome GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGG------AAGAG agagagcagtcacaggacgatggcactgctttcccacacatctgttacagGTGTGGGATGTGATTGGACGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCCTTATCCAAGATCACAGGGAATTCTGGGAAGCTTAAAAGgtgcgtcgcacttccaccaacagaggcagtgatatgccagtggtccgctc Alignment from GeneWise GTGTGGGATGTGATTGGCCGCAGCCTGGTTATCGATGAGGGGGAAGATGACCTGGGCCGGGGAGGCCATCCCTTATCCAAGATCACAGGGAATTCTGGGAAG------AG agagagcagtcacaggacgatggcactgctttcccacacatctgttacagGTGTGGGATGTGATTGGACGCAGCCTGGTTATTGATGAGGGGGAAGATGATGTGGGCCGGGGAGGCCACCCCTTATCCAAGATCACAGGGAATTCTGGGAAGCTTAAAAGgtgcgtcgcacttccaccaacagaggcagtgatatgccagtggtccgctc #### Cd5_ID2994_4 --> 2 - 1 Original Alignment ag---------CCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAg catatcctttgctccccacttcccacccacttccactctcatccccgcagagCCCTGGAGGCCCCAGAGAACAACACCTCCACCCACAACCACCCCACCCACCACTGTGCCGGAGCCCACAggtcagtcagtgtacagtccttgtagaaaaggcagaggatgcactggtgta Alignment from CESAR agCCC---------CAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAg catatcctttgctccccacttcccacccacttccactctcatccccgcagagCCCTGGAGGCCCCAGAGAACAACACCTCCACCCACAACCACCCCACCCACCACTGTGCCGGAGCCCACAggtcagtcagtgtacagtccttgtagaaaaggcagaggatgcactggtgta Alignment from Spaln_aa2Genome AG---------CCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG catatcctttgctccccacttcccacccacttccactctcatccccgcagAGCCCTGGAGGCCCCAGAGAACAACACCTCCACCCACAACCACCCCACCCACCACTGTGCCGGAGCCCACAGgtcagtcagtgtacagtccttgtagaaaaggcagaggatgcactggtgta Alignment from Spaln_nt2Genome AGCCCCAGAG---------AACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG catatcctttgctccccacttcccacccacttccactctcatccccgcagAGCCCTGGAGGCCCCAGAGAACAACACCTCCACCCACAACCACCCCACCCACCACTGTGCCGGAGCCCACAGgtcagtcagtgtacagtccttgtagaaaaggcagaggatgcactggtgta Alignment from Pairagon A---------GCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG catatcctttgctccccacttcccacccacttccactctcatccccgcagAGCCCTGGAGGCCCCAGAGAACAACACCTCCACCCACAACCACCCCACCCACCACTGTGCCGGAGCCCACAGgtcagtcagtgtacagtccttgtagaaaaggcagaggatgcactggtgta Alignment from Exonerate_protein2genome AG---------CCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG catatcctttgctccccacttcccacccacttccactctcatccccgcagAGCCCTGGAGGCCCCAGAGAACAACACCTCCACCCACAACCACCCCACCCACCACTGTGCCGGAGCCCACAGgtcagtcagtgtacagtccttgtagaaaaggcagaggatgcactggtgta Alignment from Exonerate_coding2genome AG---------CCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG catatcctttgctccccacttcccacccacttccactctcatccccgcagAGCCCTGGAGGCCCCAGAGAACAACACCTCCACCCACAACCACCCCACCCACCACTGTGCCGGAGCCCACAGgtcagtcagtgtacagtccttgtagaaaaggcagaggatgcactggtgta Alignment from GeneWise --------GAGCCCCAGAGAACGACACCTCCACCCACAACCACCCCACCCACCACCGTGCCGGAGCCCACAG catatcctttgctccccacttcccacccacttccactctcatccccgcagAGCCCTGGAGGCCCCAGAGAACAACACCTCCACCCACAACCACCCCACCCACCACTGTGCCGGAGCCCACAGgtcagtcagtgtacagtccttgtagaaaaggcagaggatgcactggtgta #### Cd6_ID3013_11 --> 2 - 1 Original Alignment ga---CTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAg ccaccaggactaaacagataatcccacttcacagagccgttccccaacagaaATGCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCACAGTACCATGTGAGTAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGTGTTTTATTCTCAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTTTTTTCAggtaagtgtgtgtccttccatgttatcaaccctctgtgtaaactactcagg Alignment from CESAR ga---CTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAg ccaccaggactaaacagataatcccacttcacagagccgttccccaacagaaATGCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCACAGTACCATGTGAGTAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGTGTTTTATTCTCAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTTTTTTCAggtaagtgtgtgtccttccatgttatcaaccctctgtgtaaactactcagg Alignment from Spaln_aa2Genome GACTTGAAGAGCTG---CATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAG ccaccaggactaaacagataatcccacttcacagagccgttccccaacagAAATGCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCACAGTACCATGTGAGTAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGTGTTTTATTCTCAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTTTTTTCAGgtaagtgtgtgtccttccatgttatcaaccctctgtgtaaactactcagg Alignment from Spaln_nt2Genome GACTTGAAGAG---CTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAG ccaccaggactaaacagataatcccacttcacagagccgttccccaacagAAATGCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCACAGTACCATGTGAGTAACAACAGTGATTCCAGCAC---------------CTCGTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGTGTTTTATTCTCAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTTTTTTCAGgtaagtgtgtgtccttccatgttatcaaccctctgtgtaaactactcagg Alignment from Pairagon -------------------------------------------------------CTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAG CCACCAGGACTAAACAGATAATCCCACTTCACAGAGCCGTTCCCCAACAGAAATGCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCACAGTACCATGTGAGTAACAACAGTGATTCCAGCACCTC---------------GTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGTGTTTTATTCTCAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTTTTTTCAGgtaagtgtgtgtccttccatgttatcaaccctctgtgtaaactactcagg Alignment from Exonerate_protein2genome GA---CTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAG ccaccaggactaaacagataatcccacttcacagagccgttccccaacagAAATGCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCACAGTACCATGTGAGTAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGTGTTTTATTCTCAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTTTTTTCAGgtaagtgtgtgtccttccatgttatcaaccctctgtgtaaactactcagg Alignment from Exonerate_coding2genome GA---CTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAG ccaccaggactaaacagataatcccacttcacagagccgttccccaacagAAATGCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCACAGTACCATGTGAGTAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGTGTTTTATTCTCAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTTTTTTCAGgtaagtgtgtgtccttccatgttatcaaccctctgtgtaaactactcagg Alignment from GeneWise --GGACTTGAAGAGCTGCATGTTTCCCACATCCCAGCGGCTGACCCCAGACCCTGTGTGGCAGATGTCCCCTCTCGGGGCTCTCAGTACCACGTGAGGAACAACAGTGATTCCAGCACCTCCTCTGAGGAGGGCTACTGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGCGTTTTATTCTGAGAAGAGTCCCCTCACAGAGCAGCCCCCCAACTTGGAACTGGCTGGCTCTCCGGCAGTGTTTTCAG ccaccaggactaaacagataatcccacttcacagagccgttccccaacagAAATGCTTGAAGAGCTGCATGTTTCCCACATCCCAGCAGCTGACCCCAGACCTTGTGTGGCAGATGTCCCCTCTCGGGGCTCACAGTACCATGTGAGTAACAACAGTGATTCCAGCACCTCG---------------TGCAATGATCCCAGCAGCAAGCCACCTCCATGGAATTCCCAGGTGTTTTATTCTCAGAAGAGTCCCCTCACAGAGCAACCCCCCAACCTGGAACTGGCTGGCTCTCCAGCAGTTTTTTCAGgtaagtgtgtgtccttccatgttatcaaccctctgtgtaaactactcagg #### Cdc42bpg_ID1573_3 --> 0 - 0 Original Alignment ---------GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ggggctttcctgttggtttggtctagtctagctgctgctctgtctttcagATCCCAGAAGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGgtatgattgtggccaattgcccactgctaactgatagaagaagatatgct Alignment from CESAR ---------GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ggggctttcctgttggtttggtctagtctagctgctgctctgtctttcagATCCCAGAAGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGgtatgattgtggccaattgcccactgctaactgatagaagaagatatgct Alignment from Spaln_aa2Genome ----GAGGTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ggggctttcctgttggtttggtctagtctagctgctgctctgtctttcagATCCCAGAAGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGgtatgattgtggccaattgcccactgctaactgatagaagaagatatgct Alignment from Spaln_nt2Genome AGGTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ggggctttcctgttggtttggtctagtctagctgctgctctgtctttcagatcccagAAGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGgtatgattgtggccaattgcccactgctaactgatagaagaagatatgct Alignment from Pairagon AGGTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ggggctttcctgttggtttggtctagtctagctgctgctctgtctttcagatcccagAAGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGgtatgattgtggccaattgcccactgctaactgatagaagaagatatgct Alignment from Exonerate_protein2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ggggctttcctgttggtttggtctagtctagctgctgctctgtctttcagatcccagaaGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGgtatgattgtggccaattgcccactgctaactgatagaagaagatatgct Alignment from Exonerate_coding2genome GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ggggctttcctgttggtttggtctagtctagctgctgctctgtctttcagatcccagaaGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGgtatgattgtggccaattgcccactgctaactgatagaagaagatatgct Alignment from GeneWise ---------GTTGCCGTGGTGAGGCAGAGGGGCAGTGGCCAGATCTTTGCCATGAAGATGCTGCATAAGTGGGAGATGCTGAAGAGGGCTGAG ggggctttcctgttggtttggtctagtctagctgctgctctgtctttcagATCCCAGAAGTTGTTGTGGTGAGGCAGAGGGGAAGTGGCCAGATCTTTGCCATGAAGATGTTGCATAAGTGGGAGATGCTGAAGAGGGCTGAGgtatgattgtggccaattgcccactgctaactgatagaagaagatatgct #### Cdc42bpg_ID1574_4 --> 0 - 0 Original Alignment ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agctgaccccattgccccccctgctctgttttggcatttttatttcttagACAACCTGTTTCCGGGAGGAACGAGATGTTCTAGTGAAGGGAGACCACTGCTGGGTGACTGCTCTGCACTACACCTTCCAGGATGAGGAG------gtgagtgcacatatccttgattagtagaggggccttgccaagataaaaga Alignment from CESAR ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agctgaccccattgccccccctgctctgttttggcatttttatttcttagACAACCTGTTTCCGGGAGGAACGAGATGTTCTAGTGAAGGGAGACCACTGCTGGGTGACTGCTCTGCACTACACCTTCCAGGATGAGGAG------gtgagtgcacatatccttgattagtagaggggccttgccaagat Alignment from Spaln_aa2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agctgaccccattgccccccctgctctgttttggcatttttatttcttagACAACCTGTTTCCGGGAGGAACGAGATGTTCTAGTGAAGGGAGACCACTGCTGGGTGACTGCTCTGCACTACACCTTCCAGGATGAGGAGGTGAGTgcacatatccttgattagtagaggggccttgccaagataaaaga Alignment from Spaln_nt2Genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAG agctgaccccattgccccccctgctctgttttggcatttttatttcttagACAACCTGTTTCCGGGAGGAACGAGATGTTCTAGTGAAGGGAGACCACTGCTGGGTGACTGCTCTGCACTACACCTTCCAGGATGAGGAGgtgagtgcacatatccttgattagtagaggggccttgccaagataaaaga Alignment from Pairagon ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAG agctgaccccattgccccccctgctctgttttggcatttttatttcttagACAACCTGTTTCCGGGAGGAACGAGATGTTCTAGTGAAGGGAGACCACTGCTGGGTGACTGCTCTGCACTACACCTTCCAGGATGAGGAGgtgagtgcacatatccttgattagtagaggggccttgccaagataaaaga Alignment from Exonerate_protein2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agctgaccccattgccccccctgctctgttttggcatttttatttcttagACAACCTGTTTCCGGGAGGAACGAGATGTTCTAGTGAAGGGAGACCACTGCTGGGTGACTGCTCTGCACTACACCTTCCAGGATGAGGAG------gtgagtgcacatatccttgattagtagaggggccttgccaagat Alignment from Exonerate_coding2genome ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAGTACCTG agctgaccccattgccccccctgctctgttttggcatttttatttcttagACAACCTGTTTCCGGGAGGAACGAGATGTTCTAGTGAAGGGAGACCACTGCTGGGTGACTGCTCTGCACTACACCTTCCAGGATGAGGAG------gtgagtgcacatatccttgattagtagaggggccttgccaagat Alignment from GeneWise ACGGCCTGTTTCCGGGAGGAGCGAGATGTTCTAGTGAAGGGAGACAGCCGCTGGGTGACTGCTCTGCACTACGCCTTCCAGGATGAAGAG agctgaccccattgccccccctgctctgttttggcatttttatttcttagACAACCTGTTTCCGGGAGGAACGAGATGTTCTAGTGAAGGGAGACCACTGCTGGGTGACTGCTCTGCACTACACCTTCCAGGATGAGGAGgtgagtgcacatatccttgattagtagaggggccttgccaagataaaaga #### Cdc42bpg_ID1581_11 --> 2 - 1 Original Alignment agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA------------------------------g gtggattgctagaggcctggctactctctcctctcttgacccctttgcagagCCCCTGCATGGTCCATTACAACCCCAGGAGCTCGTGCAGCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGCTCAGGCACCTCTGAAACCAAAAACACCTggtgagagtgacatgttcctagaatagccaagctccttcccaggtcctagt Alignment from CESAR agCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA------------------------------g gtggattgctagaggcctggctactctctcctctcttgacccctttgcagagCCCCTGCATGGTCCATTACAACCCCAGGAGCTCGTGCAGCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGCTCAGGCACCTCTGAAACCAAAAACACCTggtgagagtgacatgttcctagaatagccaagctccttcccaggtcctagt Alignment from Spaln_aa2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA---GAG gtggattgctagaggcctggctactctctcctctcttgacccctttgcagAGCCCCTGCATGGTCCATTACAACCCCAGGAGCTCGTGCAGCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGCTCAGgcacctctgaaaccaaaaacacctggtgagagtgacatgttcctagaatagccaagctccttcccaggtcctagt Alignment from Spaln_nt2Genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG----- gtggattgctagaggcctggctactctctcctctcttgacccctttgcagAGCCCCTGCATGGTCCATTACAACCCCAGGAGCTCGTGCAGCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGCTCAGgcacctctgaaaccaaaaacacctggtgagagtgacatgttcctagaatagccaagctccttcccaggtcctagt Alignment from Pairagon AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG------------------------------ gtggattgctagaggcctggctactctctcctctcttgacccctttgcagAGCCCCTGCATGGTCCATTACAACCCCAGGAGCTCGTGCAGCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGCTCAGGCACCTCTGAAACCAAAAACACCTGgtgagagtgacatgttcctagaatagccaagctccttcccaggtcctagt Alignment from Exonerate_protein2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG gtggattgctagaggcctggctactctctcctctcttgacccctttgcagAGCCCCTGCATGGTCCATTACAACCCCAGGAGCTCGTGCAGCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGctcaggcacctctgaaaccaaaaacacctggtgagagtgacatgttcctagaatagccaagctccttcccaggtcctagt Alignment from Exonerate_coding2genome AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCAG gtggattgctagaggcctggctactctctcctctcttgacccctttgcagAGCCCCTGCATGGTCCATTACAACCCCAGGAGCTCGTGCAGCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGctcaggcacctctgaaaccaaaaacacctggtgagagtgacatgttcctagaatagccaagctccttcccaggtcctagt Alignment from GeneWise AGCCCCTGCATGGCCCATTACAGCCCCAGGAGCTTGTGCGGCTTCAGAAGGAAGTACAGGTTCTTCAGGAGAAACTGGCA------------------------------G gtggattgctagaggcctggctactctctcctctcttgacccctttgcagAGCCCCTGCATGGTCCATTACAACCCCAGGAGCTCGTGCAGCTTCAGAAAGAAGTTCAGGTTCTTCAGGAGAAACTGGCAGCTCAGGCACCTCTGAAACCAAAAACACCTGgtgagagtgacatgttcctagaatagccaagctccttcccaggtcctagt #### Cdc42bpg_ID1583_13 --> 0 - 0 Original Alignment GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- tagaggtgagcactctgacttggctttgcatctgtttttctgatccctagGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCG---AACCGGCAGGAAGAAGTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCTGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGTTATCAAAAgtgaggggtgaggcattcgaagggtccagggcattgggagccccatatgg Alignment from CESAR GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- tagaggtgagcactctgacttggctttgcatctgtttttctgatccctagGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCG---AACCGGCAGGAAGAAGTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCTGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGTTATCAAAAgtgaggggtgaggcattcgaagggtccagggcattgggagccccatatgg Alignment from Spaln_aa2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- tagaggtgagcactctgacttggctttgcatctgtttttctgatccctagGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCG---AACCGGCAGGAAGAAGTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCTGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGTTATCAAAAgtgaggggtgaggcattcgaagggtccagggcattgggagccccatatgg Alignment from Spaln_nt2Genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGA tagaggtgagcactctgacttggctttgcatctgtttttctgatccctagGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGC---GAACCGGCAGGAAGAAGTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCTGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAgttatcaaaagtgaggggtgaggcattcgaagggtccagggcattgggagccccatatgg Alignment from Pairagon GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG--------- tagaggtgagcactctgacttggctttgcatctgtttttctgatccctagGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGC---GAACCGGCAGGAAGAAGTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCTGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGTTATCAAAAgtgaggggtgaggcattcgaagggtccagggcattgggagccccatatgg Alignment from Exonerate_protein2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG tagaggtgagcactctgacttggctttgcatctgtttttctgatccctagGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCG---AACCGGCAGGAAGAAGTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCTGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGttatcaaaagtgaggggtgaggcattcgaagggtccagggcattgggagccccatatgg Alignment from Exonerate_coding2genome GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG tagaggtgagcactctgacttggctttgcatctgtttttctgatccctagGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCG---AACCGGCAGGAAGAAGTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCTGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGttatcaaaagtgaggggtgaggcattcgaagggtccagggcattgggagccccatatgg Alignment from GeneWise GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGCTC------ tagaggtgagcactctgacttggctttgcatctgtttttctgatccctagGAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGTTGTGCCAAGCG---AACCGGCAGGAAGAAGTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGTCTGCTGCAGCTGGCCAGCTTCAGACCCTGAATACTCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAGTTATCAAAAgtgaggggtgaggcattcgaagggtccagggcattgggagccccatatgg #### Cdc42bpg_ID1585_15 --> 0 - 2 Original Alignment ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg tggcttctcaaaccccagcctttctcagggctctggggctctggatccag------CATGCAGCCCCTGAGACAAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAGCTGGAACATGCCTGCAGCCAAgggtacacacatggtaggtgcagccaggaggggacagggcagggtcagcctg Alignment from CESAR ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAgg aggccatggcttctcaaaccccagccagggctctggggctctggatccag------CATGCAGCCCCTGAGACAAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAGCTGGAACATGCCTGCAGCCAAgggtacacacatggtaggtgcagccaggaggggacagggcagggtcagcctg Alignment from Spaln_aa2Genome CATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tggcttctcaaaccccagcctttctcagggctctggggctctggatccagCATGCAGCCCCTGAGACAAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAGCTGGAACATGCCTGCAGCCAAGGgtacacacatggtaggtgcagccaggaggggacagggcagggtcagcctg Alignment from Spaln_nt2Genome CATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tggcttctcaaaccccagcctttctcagggctctggggctctggatccagCATGCAGCCCCTGAGACAAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAGCTGGAACATGCCTGCAGCCAAGGgtacacacatggtaggtgcagccaggaggggacagggcagggtcagcctg Alignment from Pairagon ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tggcttctcaaaccccagcctttctcagggctctggggctctggatccag------CATGCAGCCCCTGAGACAAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAGCTGGAACATGCCTGCAGCCAAGGgtacacacatggtaggtgcagccaggaggggacagggcagggtcagcctg Alignment from Exonerate_protein2genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tggcttctcaaaccccagcctttctcagggctctggggctctggATCCAGCATGCAGCCCCTGAGACAAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAGCTGGAACATGCCTGCAGCCAAGGgtacacacatggtaggtgcagccaggaggggacagggcagggtcagcctg Alignment from Exonerate_coding2genome ACCGTCCATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tggcttctcaaaccccagcctttctcagggctctggggctctggATCCAGCATGCAGCCCCTGAGACAAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAGCTGGAACATGCCTGCAGCCAAGGgtacacacatggtaggtgcagccaggaggggacagggcagggtcagcctg Alignment from GeneWise CATGCAGCCCCTGAGACGAACGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAGCTGAGGAAGGAAGTGGCGGCTCTGAGGGAGCAGCTGGAGCATGCCTGCAGCCAAGG tggcttctcaaaccccagcctttctcagggctctggggctctggatccagCATGCAGCCCCTGAGACAAATGGCATAGGATCTCCTGAGGGTCAGTCTCAAGAGGCCCAACTGAGGAAGGAAGTGGTGGCTCTGAGGGAGCAGCTGGAACATGCCTGCAGCCAAGGgtacacacatggtaggtgcagccaggaggggacagggcagggtcagcctg #### Cdc42bpg_ID1586_16 --> 1 - 0 Original Alignment gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG------------------ cagggtcagcctgggggtcagctctatctgtgcttgcattctgtattaaggATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGCTGCCGAGCACCTGCAATgtaagtaggaaagatgacaaagcacaggttagttgccaggtgggttagag Alignment from CESAR gATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG------------------ cagggtcagcctgggggtcagctctatctgtgcttgcattctgtattaaggATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGCTGCCGAGCACCTGCAATgtaagtaggaaagatgacaaagcacaggttagttgccaggtgggttagag Alignment from Spaln_aa2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGGCTGGCAG cagggtcagcctgggggtcagctctatctgtgcttgcattctgtattaagGATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGCTGCCGAgcacctgcaatgtaagtaggaaagatgacaaagcacaggttagttgccaggtgggttagag Alignment from Spaln_nt2Genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGA cagggtcagcctgggggtcagctctatctgtgcttgcattctgtattaagGATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAgtggctgccgagcacctgcaatgtaagtaggaaagatgacaaagcacaggttagttgccaggtgggttagag Alignment from Pairagon GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG------------------ cagggtcagcctgggggtcagctctatctgtgcttgcattctgtattaagGATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGCTGCCGAGCACCTGCAATgtaagtaggaaagatgacaaagcacaggttagttgccaggtgggttagag Alignment from Exonerate_protein2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG cagggtcagcctgggggtcagctctatctgtgcttgcattctgtattaagGATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGctgccgagcacctgcaatgtaagtaggaaagatgacaaagcacaggttagttgccaggtgggttagag Alignment from Exonerate_coding2genome GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGG cagggtcagcctgggggtcagctctatctgtgcttgcattctgtattaagGATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGctgccgagcacctgcaatgtaagtaggaaagatgacaaagcacaggttagttgccaggtgggttagag Alignment from GeneWise GATCAGTGTTGGGAAAGAGGAGGTTCTGTGCCGATTGCAGGAGGAAAACCAGCGGCTGAGCCGGGAGCAGGAACGGCTG--------------- cagggtcagcctgggggtcagctctatctgtgcttgcattctgtattaagGATCAGTGTTGGGAAAGAGGAGGTTCTATGCCGATTGCAGGAGGTAAACCAGCAGCTGAGTCGGGAGCAGGAGTGGCTGCCGAGCACCTGCAATgtaagtaggaaagatgacaaagcacaggttagttgccaggtgggttagag #### Cdc42bpg_ID1587_17 --> 0 - 2 Original Alignment CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg aggactaatcgtctaagcactaaaacactttatttatatttttaccttag------------------CTGGAGCTACAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtggtaagtatacacagccaggtggcacctctaatactgaggacccaggtcat Alignment from CESAR CTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtg gggctacaagggccattgaggactacactttatttatatttttaccttag------------------CTGGAGCTACAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCtggtaagtatacacagccaggtggcacctctaatactgaggacccaggtcac Alignment from Spaln_aa2Genome CTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG aggactaatcgtctaagcactaaaacactttatttatatttttaccttagCTGGAGCTACAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtaagtatacacagccaggtggcacctctaatactgaggacccaggtcat Alignment from Spaln_nt2Genome CTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG aggactaatcgtctaagcactaaaacactttatttatatttttaccttagCTGGAGCTACAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtaagtatacacagccaggtggcacctctaatactgaggacccaggtcat Alignment from Pairagon ACGGCTGGCAGGAGAGCTGGAACTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG aggactaatcgtctaagcactaaaacactttatttatatttttaccttag----------------------CTGGAGCTACAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtaagtatacacagccaggtggcacctctaatactgaggacccaggtcat Alignment from Exonerate_protein2genome CTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG aggactaatcgtctaagcactaaaacactttatttatatttttaccttagCTGGAGCTACAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtaagtatacacagccaggtggcacctctaatactgaggacccaggtcat Alignment from Exonerate_coding2genome CTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG aggactaatcgtctaagcactaaaacactttatttatatttttaccttagCTGGAGCTACAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtaagtatacacagccaggtggcacctctaatactgaggacccaggtcat Alignment from GeneWise CTGGAGCTACAGAGCAAGCAGCGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTG aggactaatcgtctaagcactaaaacactttatttatatttttaccttagCTGGAGCTACAGAGCAAGCAACGTTTGGAGGGTGAACGGCGGGAGACTGAGAGCAACTGGGAGGCTCAGATCGCTGACATCCTCAGCTGgtaagtatacacagccaggtggcacctctaatactgaggacccaggtcat #### Cdc42bpg_ID1588_18 --> 1 - 0 Original Alignment gGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG------ gcacctctaatactgaggacccaggtcacatgtcgctcccctacccacaggGTGAATGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTAGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGAAGCTAgtaagacccctgcagatgaaacatgtgtgtgtgtgcttgtgtggatgtgt Alignment from CESAR gGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCT------CTG gcacctctaatactgaggacccaggtcacatgtcgctcccctacccacaggGTGAATGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTAGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGAAGCTAgtaagacccctgcagatgaaacatgtgtgtgtgtgcttgtgtggatgtgt Alignment from Spaln_aa2Genome GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCT------CTG gcacctctaatactgaggacccaggtcacatgtcgctcccctacccacagGGTGAATGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTAGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGAAGCTAgtaagacccctgcagatgaaacatgtgtgtgtgtgcttgtgtggatgtgt Alignment from Spaln_nt2Genome GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG------ gcacctctaatactgaggacccaggtcacatgtcgctcccctacccacagGGTGAATGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTAGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGAAGCTAgtaagacccctgcagatgaaacatgtgtgtgtgtgcttgtgtggatgtgt Alignment from Pairagon GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG------ gcacctctaatactgaggacccaggtcacatgtcgctcccctacccacagGGTGAATGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTAGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGAAGCTAgtaagacccctgcagatgaaacatgtgtgtgtgtgcttgtgtggatgtgt Alignment from Exonerate_protein2genome GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCT------CTG gcacctctaatactgaggacccaggtcacatgtcgctcccctacccacagGGTGAATGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTAGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGAAGCTAgtaagacccctgcagatgaaacatgtgtgtgtgtgcttgtgtggatgtgt Alignment from Exonerate_coding2genome GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCT------CTG gcacctctaatactgaggacccaggtcacatgtcgctcccctacccacagGGTGAATGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTAGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGAAGCTAgtaagacccctgcagatgaaacatgtgtgtgtgtgcttgtgtggatgtgt Alignment from GeneWise GGTGAATGACGAGAAGGTCTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTGGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTCTG------ gcacctctaatactgaggacccaggtcacatgtcgctcccctacccacagGGTGAATGATGAGAAAGTTTCAAGAGGCTACCTGCAGGCCTTGGCTACTAAGATGGCTGAGGAGCTAGAGTCCTTGAGGAATGTGGGCACGCAGACACTCCCTACCCGGCCTTTGAAGCTAgtaagacccctgcagatgaaacatgtgtgtgtgtgcttgtgtggatgtgt #### Cdc42bpg_ID1592_22 --> 0 - 0 Original Alignment AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG------ ggtgagaaatatagtaaccctgaccttcgcatctctcttgacttctccagAAGGATTCTGCTAAGGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCTGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGCAATATgtgtgtccccataccaaacctgaataaaggtaggtaggatttctccccca Alignment from CESAR AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG------ ggtgagaaatatagtaaccctgaccttcgcatctctcttgacttctccagAAGGATTCTGCTAAGGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCTGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGCAATATgtgtgtccccataccaaacctgaataaaggtaggtaggatttctccccca Alignment from Spaln_aa2Genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG------ ggtgagaaatatagtaaccctgaccttcgcatctctcttgacttctccagAAGGATTCTGCTAAGGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCTGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGCAATATgtgtgtccccataccaaacctgaataaaggtaggtaggatttctccccca Alignment from Spaln_nt2Genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGG ggtgagaaatatagtaaccctgaccttcgcatctctcttgacttctccagAAGGATTCTGCTAAGGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCTGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGgcaatatgtgtgtccccataccaaacctgaataaaggtaggtaggatttctccccca Alignment from Pairagon AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG------ ggtgagaaatatagtaaccctgaccttcgcatctctcttgacttctccagAAGGATTCTGCTAAGGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCTGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGCAATATgtgtgtccccataccaaacctgaataaaggtaggtaggatttctccccca Alignment from Exonerate_protein2genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG ggtgagaaatatagtaaccctgaccttcgcatctctcttgacttctccagAAGGATTCTGCTAAGGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCTGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGcaatatgtgtgtccccataccaaacctgaataaaggtaggtaggatttctccccca Alignment from Exonerate_coding2genome AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG ggtgagaaatatagtaaccctgaccttcgcatctctcttgacttctccagAAGGATTCTGCTAAGGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCTGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGcaatatgtgtgtccccataccaaacctgaataaaggtaggtaggatttctccccca Alignment from GeneWise AAGGATTCTGCCAAGGACCCTGGCAATTCAGGAGAGGGTCCAAGGTCTGGAGCCGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGG------ ggtgagaaatatagtaaccctgaccttcgcatctctcttgacttctccagAAGGATTCTGCTAAGGACCCTGGCAATTCAGCTGAGGGTCCAAGGTCTGGAGCTGAAGCAGAGCTGAGGCCAGAGGGCCGCCGCAGTCTGCGCATGGGGCAATATgtgtgtccccataccaaacctgaataaaggtaggtaggatttctccccca #### Cdc42bpg_ID1594_24 --> 0 - 1 Original Alignment CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACa cagggttccagggggtcttgtgcgtgttactctttttttgtctttttcag---------CACACCCTGCGACCCCGGAGTTTTCCATCTCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTTGGCCGTCAGGGCCTGGGCTGTGACagtaagaacatgtgtccttgattctctctcatcataccttaacatacccag Alignment from CESAR CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACa tgagatggccagggttccagggggtgttactctttttttgtctttttcag---------CACACCCTGCGACCCCGGAGTTTTCCATCTCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTTGGCCGTCAGGGCCTGGGCTGTGACagtaagaacatgtgtccttgattctctctcatcataccttaacatacccag Alignment from Spaln_aa2Genome CACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA cagggttccagggggtcttgtgcgtgttactctttttttgtctttttcagCACACCCTGCGACCCCGGAGTTTTCCATCTCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTTGGCCGTCAGGGCCTGGGCTGTGACAgtaagaacatgtgtccttgattctctctcatcataccttaacatacccag Alignment from Spaln_nt2Genome CACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA cagggttccagggggtcttgtgcgtgttactctttttttgtctttttcagCACACCCTGCGACCCCGGAGTTTTCCATCTCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTTGGCCGTCAGGGCCTGGGCTGTGACAgtaagaacatgtgtccttgattctctctcatcataccttaacatacccag Alignment from Pairagon CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA cagggttccagggggtcttgtgcgtgttactctttttttgtctttttcag---------CACACCCTGCGACCCCGGAGTTTTCCATCTCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTTGGCCGTCAGGGCCTGGGCTGTGACAgtaagaacatgtgtccttgattctctctcatcataccttaacatacccag Alignment from Exonerate_protein2genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA cagggttccagggggtcttgtgcgtgttactctttttttgtCTTTTTCAGCACACCCTGCGACCCCGGAGTTTTCCATCTCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTTGGCCGTCAGGGCCTGGGCTGTGACAgtaagaacatgtgtccttgattctctctcatcataccttaacatacccag Alignment from Exonerate_coding2genome CCCGGCTCACACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA cagggttccagggggtcttgtgcgtgttactctttttttgtCTTTTTCAGCACACCCTGCGACCCCGGAGTTTTCCATCTCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTTGGCCGTCAGGGCCTGGGCTGTGACAgtaagaacatgtgtccttgattctctctcatcataccttaacatacccag Alignment from GeneWise CACACCCTGCGTCCCCGGAGTTTTCCATCCCCTACCAAGTGTCTCCGCTGCACCTCGCTGATGCTGGGCCTGGGCCGCCAGGGCCTGGGCTGTGACA cagggttccagggggtcttgtgcgtgttactctttttttgtctttttcagCACACCCTGCGACCCCGGAGTTTTCCATCTCCTACAAAGTGTCTCCGCTGCACCTCGCTGATGTTGGGCCTTGGCCGTCAGGGCCTGGGCTGTGACAgtaagaacatgtgtccttgattctctctcatcataccttaacatacccag #### Cdc42bpg_ID1595_25 --> 2 - 0 Original Alignment ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG acacttactactcggactttgaccctccactgtggatgcttttttaacagccTGTGGCTATTTCTGTCACTCAGCCTGTGCATCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACGGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTC------gtatcagtagggtgtgggggaccctggaggctggctgtgggaacgagggc Alignment from CESAR ccTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG acacttactactcggactttgaccctccactgtggatgcttttttaacagccTGTGGCTATTTCTGTCACTCAGCCTGTGCATCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACGGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCGTATCAgtagggtgtgggggaccctggaggctggctgtgggaacgagggc Alignment from Spaln_aa2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG acacttactactcggactttgaccctccactgtggatgcttttttaacagCCTGTGGCTATTTCTGTCACTCAGCCTGTGCATCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACGGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCGTATCAgtagggtgtgggggaccctggaggctggctgtgggaacgagggc Alignment from Spaln_nt2Genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG acacttactactcggactttgaccctccactgtggatgcttttttaacagCCTGTGGCTATTTCTGTCACTCAGCCTGTGCATCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACGGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCGTATCAgtagggtgtgggggaccctggaggctggctgtgggaacgagggc Alignment from Pairagon CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG acacttactactcggactttgaccctccactgtggatgcttttttaacagCCTGTGGCTATTTCTGTCACTCAGCCTGTGCATCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACGGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCGTATCAgtagggtgtgggggaccctggaggctggctgtgggaacgagggc Alignment from Exonerate_protein2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG acacttactactcggactttgaccctccactgtggatgcttttttaacagCCTGTGGCTATTTCTGTCACTCAGCCTGTGCATCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACGGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCGTATCAgtagggtgtgggggaccctggaggctggctgtgggaacgagggc Alignment from Exonerate_coding2genome CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG acacttactactcggactttgaccctccactgtggatgcttttttaacagCCTGTGGCTATTTCTGTCACTCAGCCTGTGCATCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACGGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCGTATCAgtagggtgtgggggaccctggaggctggctgtgggaacgagggc Alignment from GeneWise CCTGTGGCTACTTCTGTCACTCAGCTTGTGCGTCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACAGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCCTGTCG acacttactactcggactttgaccctccactgtggatgcttttttaacagCCTGTGGCTATTTCTGTCACTCAGCCTGTGCATCACAAGCCCCACCTTGCCCTGTGCCCCCTGAACTCCTCCGCACGGCCTTGGGGGTGCACCCCGAAACAGGCACAGGGACTGCCTATGAGGGCTTCGTATCAgtagggtgtgggggaccctggaggctggctgtgggaacgagggc #### Cdc42bpg_ID1597_27 --> 1 - 0 Original Alignment gGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG------ tgagaagttcaagcaggggtggtatctctctgattggctcctttccacaggGACCCCCAGTTTTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGGCTCAATgtgggtgctcagggtgagatggcccatcctccatatctccacctgtgctt Alignment from CESAR gGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG------ tgagaagttcaagcaggggtggtatctctctgattggctcctttccacaggGACCCCCAGTTTTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGGCTCAATgtgggtgctcagggtgagatggcccatcctccatatctccacctgtgctt Alignment from Spaln_aa2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG------ tgagaagttcaagcaggggtggtatctctctgattggctcctttccacagGGACCCCCAGTTTTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGGCTCAATgtgggtgctcagggtgagatggcccatcctccatatctccacctgtgctt Alignment from Spaln_nt2Genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAG tgagaagttcaagcaggggtggtatctctctgattggctcctttccacagGGACCCCCAGTTTTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGgctcaatgtgggtgctcagggtgagatggcccatcctccatatctccacctgtgctt Alignment from Pairagon GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG------ tgagaagttcaagcaggggtggtatctctctgattggctcctttccacagGGACCCCCAGTTTTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGGCTCAATgtgggtgctcagggtgagatggcccatcctccatatctccacctgtgctt Alignment from Exonerate_protein2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgagaagttcaagcaggggtggtatctctctgattggctcctttccacagGGACCCCCAGTTTTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGGctcaatgtgggtgctcagggtgagatggcccatcctccatatctccacctgtgctt Alignment from Exonerate_coding2genome GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG tgagaagttcaagcaggggtggtatctctctgattggctcctttccacagGGACCCCCAGTTTTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGGctcaatgtgggtgctcagggtgagatggcccatcctccatatctccacctgtgctt Alignment from GeneWise GGACCCCCAGTTCTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGG------ tgagaagttcaagcaggggtggtatctctctgattggctcctttccacagGGACCCCCAGTTTTCAGCCACCCCTGTCTTGGCCCCAGATGTCATTCATGCCCAATCCAAGGACCTGCCACGTATCTTCAGGCTCAATgtgggtgctcagggtgagatggcccatcctccatatctccacctgtgctt #### Cdc42bpg_ID1603_33 --> 2 - 2 Original Alignment agAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC---------ag caggcccgctgtgacaagtgaacagctcccacgttcttctctgcgcacagaaAAGGATGAGTTTGAGATTCCCGACCTGACAGACAACAGCCGGCGCCAGCTGTTCCGCAGCAAGAGCAAGCGCCGCTTCTTCTTCCGGGTGTCTGATGAGCTGCAACAGCAGCAGCGTGTGGCCACGaggtgagaagctgtgacgtggctctggctactgggtgggaccttcctattct Alignment from CESAR agAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC---------ag caggcccgctgtgacaagtgaacagctcccacgttcttctctgcgcacagaaAAGGATGAGTTTGAGATTCCCGACCTGACAGACAACAGCCGGCGCCAGCTGTTCCGCAGCAAGAGCAAGCGCCGCTTCTTCTTCCGGGTGTCTGATGAGCTGCAACAGCAGCAGCGTGTGGCCACGaggtgagaagctgtgacgtggctctggctactgggtgggaccttcctattct Alignment from Spaln_aa2Genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGCAGG-------- caggcccgctgtgacaagtgaacagctcccacgttcttctctgcgcacagAAAAGGATGAGTTTGAGATTCCCGACCTGACAGACAACAGCCGGCGCCAGCTGTTCCGCAGCAAGAGCAAGCGCCGCTTCTTCTTCCGGGTGTCTGATGAGCTGCAACAGCAGCAGCGTGTGGCCACGAGgtgagaagctgtgacgtggctctggctactgggtgggaccttcctattct Alignment from Spaln_nt2Genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC---------AG caggcccgctgtgacaagtgaacagctcccacgttcttctctgcgcacagAAAAGGATGAGTTTGAGATTCCCGACCTGACAGACAACAGCCGGCGCCAGCTGTTCCGCAGCAAGAGCAAGCGCCGCTTCTTCTTCCGGGTGTCTGATGAGCTGCAACAGCAGCAGCGTGTGGCCACGAGgtgagaagctgtgacgtggctctggctactgggtgggaccttcctattct Alignment from Pairagon AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC---------AG caggcccgctgtgacaagtgaacagctcccacgttcttctctgcgcacagAAAAGGATGAGTTTGAGATTCCCGACCTGACAGACAACAGCCGGCGCCAGCTGTTCCGCAGCAAGAGCAAGCGCCGCTTCTTCTTCCGGGTGTCTGATGAGCTGCAACAGCAGCAGCGTGTGGCCACGAGgtgagaagctgtgacgtggctctggctactgggtgggaccttcctattct Alignment from Exonerate_protein2genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC caggcccgctgtgacaagtgaacagctcccacgttcttctctgcgcacagAAAAGGATGAGTTTGAGATTCCCGACCTGACAGACAACAGCCGGCGCCAGCTGTTCCGCAGCAAGAGCAAGCGCCGCTTCTTCTTCCGGGTGTCTGATGAGCTGCAACAGCAGCAGCGTgtggccacgaggtgagaagctgtgacgtggctctggctactgggtgggaccttcctattct Alignment from Exonerate_coding2genome AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC caggcccgctgtgacaagtgaacagctcccacgttcttctctgcgcacagAAAAGGATGAGTTTGAGATTCCCGACCTGACAGACAACAGCCGGCGCCAGCTGTTCCGCAGCAAGAGCAAGCGCCGCTTCTTCTTCCGGGTGTCTGATGAGCTGCAACAGCAGCAGCGTgtggccacgaggtgagaagctgtgacgtggctctggctactgggtgggaccttcctattct Alignment from GeneWise AGAAGGACGAGTTTGACATTCCCGACCTCACGGACAACAGCCGGCGCCAGCTGTTCCGCACCAAGAGCAAGCGCCGTTTCTTCTTCCGGGTGTCTGATGAGCTGCGACAGCAGCAGCGC---------AG caggcccgctgtgacaagtgaacagctcccacgttcttctctgcgcacagAAAAGGATGAGTTTGAGATTCCCGACCTGACAGACAACAGCCGGCGCCAGCTGTTCCGCAGCAAGAGCAAGCGCCGCTTCTTCTTCCGGGTGTCTGATGAGCTGCAACAGCAGCAGCGTGTGGCCACGAGgtgagaagctgtgacgtggctctggctactgggtgggaccttcctattct #### Cdc42bpg_ID1604_34 --> 1 - 0 Original Alignment gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG--- gggtgaggcctgcatgctggcccagcacttttttttgccctccaatccaggGAGATGCTGAAGGACCCCTTTGTGCGCTCCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGTCCgtgagccttgtgcaggtaatcacagaacatgccgcagggttgttggtcca Alignment from CESAR gGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG--- gggtgaggcctgcatgctggcccagcacttttttttgccctccaatccaggGAGATGCTGAAGGACCCCTTTGTGCGCTCCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGTCCgtgagccttgtgcaggtaatcacagaacatgccgcagggttgttggtcca Alignment from Spaln_aa2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG--- gggtgaggcctgcatgctggcccagcacttttttttgccctccaatccagGGAGATGCTGAAGGACCCCTTTGTGCGCTCCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGTCCgtgagccttgtgcaggtaatcacagaacatgccgcagggttgttggtcca Alignment from Spaln_nt2Genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCG gggtgaggcctgcatgctggcccagcacttttttttgccctccaatccagGGAGATGCTGAAGGACCCCTTTGTGCGCTCCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGgtccgtgagccttgtgcaggtaatcacagaacatgccgcagggttgttggtcca Alignment from Pairagon GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG--- gggtgaggcctgcatgctggcccagcacttttttttgccctccaatccagGGAGATGCTGAAGGACCCCTTTGTGCGCTCCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGTCCgtgagccttgtgcaggtaatcacagaacatgccgcagggttgttggtcca Alignment from Exonerate_protein2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG--- gggtgaggcctgcatgctggcccagcacttttttttgccctccaatccagGGAGATGCTGAAGGACCCCTTTGTGCGCTCCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGTCCgtgagccttgtgcaggtaatcacagaacatgccgcagggttgttggtcca Alignment from Exonerate_coding2genome GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGG--- gggtgaggcctgcatgctggcccagcacttttttttgccctccaatccagGGAGATGCTGAAGGACCCCTTTGTGCGCTCCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGTCCgtgagccttgtgcaggtaatcacagaacatgccgcagggttgttggtcca Alignment from GeneWise GGAGATGCTGAAGGACCCTTTTGTGCGCTCCAAGTTCATCTCGCCGCCCACCAACTTCAACCACCTGGTGCACGTGGGCCCTACGGAGGGAAGGCCCAACACCAGGGATGGGACCCGGGCT gggtgaggcctgcatgctggcccagcacttttttttgccctccaatccagGGAGATGCTGAAGGACCCCTTTGTGCGCTCCAAATTCATCTCACCGCCCACCAACTTCATCCACCTGGTTCATGTGGGCCCTACAGAGGGAAGGCCCAACACCAGGGATGGGACCCGGTCCgtgagccttgtgcaggtaatcacagaacatgccgcagggttgttggtcca #### Cdk2ap2_ID298_2 --> 2 - 0 Original Alignment ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG tgaggcccttgtcacaccctggttgcccgtggcttgtccttttcccacagcc------GTCCCATTGCCATCAGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAACGACTTTGGTCCACCCTCCATGGGTTATGTACAGgtaagtctgaccaagagcttgctcatggctgagggcaggggctcccatca Alignment from CESAR ccGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG ctgtgatgaggcccttgtcacaccccccgtggcttgtccttttcccacagcc------GTCCCATTGCCATCAGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAACGACTTTGGTCCACCCTCCATGGGTTATGTACAGgtaagtctgaccaagagcttgctcatggctgagggcaggggctcccatca Alignment from Spaln_aa2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG tgaggcccttgtcacaccctggttgcccgtggcttgtccttttcccacagCC------GTCCCATTGCCATCAGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAACGACTTTGGTCCACCCTCCATGGGTTATGTACAGgtaagtctgaccaagagcttgctcatggctgagggcaggggctcccatca Alignment from Spaln_nt2Genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG tgaggcccttgtcacaccctggttgcccgtggcttgtccttttcccacagCC------GTCCCATTGCCATCAGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAACGACTTTGGTCCACCCTCCATGGGTTATGTACAGgtaagtctgaccaagagcttgctcatggctgagggcaggggctcccatca Alignment from Pairagon CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG tgaggcccttgtcacaccctggttgcccgtggcttgtccttttcccacagCC------GTCCCATTGCCATCAGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAACGACTTTGGTCCACCCTCCATGGGTTATGTACAGgtaagtctgaccaagagcttgctcatggctgagggcaggggctcccatca Alignment from Exonerate_protein2genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG tgaggcccttgtcacaccctggttgcccgtggcttgtccttttcccacagCC------GTCCCATTGCCATCAGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAACGACTTTGGTCCACCCTCCATGGGTTATGTACAGgtaagtctgaccaagagcttgctcatggctgagggcaggggctcccatca Alignment from Exonerate_coding2genome CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG tgaggcccttgtcacaccctggttgcccgtggcttgtccttttcccacagCC------GTCCCATTGCCATCAGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAACGACTTTGGTCCACCCTCCATGGGTTATGTACAGgtaagtctgaccaagagcttgctcatggctgagggcaggggctcccatca Alignment from GeneWise CCGGGAGTGTCCCATCGCCATCGGGCTCAGTGCCAGGAGCTGCCGCACCTTTCAGACCGCTGTTTAACGACTTTGGTCCGCCCTCCATGGGGTATGTACAG tgaggcccttgtcacaccctggttgcccgtggcttgtccttttcccacagCC------GTCCCATTGCCATCAGGCTCAGTACCAGGAGCTGCTGCACCTTTCAGACCACTATTTAACGACTTTGGTCCACCCTCCATGGGTTATGTACAGgtaagtctgaccaagagcttgctcatggctgagggcaggggctcccatca #### Col17a1_ID10273_49 --> 2 - 1 Original Alignment gtCAGGGTCTGCTACAAGGGATGGCCTACACTGTCCAGGGCCCACCTGGGCCCCAAGGCCCTCCTGGCATCAGCAGGGTCTTCTCAGCCTACAGCAACGTGACACAAGACCTCATGGACTTCTTCCAAa tcttacactgcttcctacatcactgcctacaaatatgtatgttctgccaggt---------CTACAAGGGATGGCGTACACTGTCCAGGGCCCGCCTGGGCCTCAAGGCCCTCCTGGCATTAGCAGGGTCTTCTCAGCCTATAGCAATGTAACACAAGACCTCATGGACTTCTTCCAAagtaagtatagctccatgtgttgcccagtgttggcctgtacatctggttcc Alignment from CESAR gtCAGGGTCTGCTACAAGGGATGGCCTACACTGTCCAGGGCCCACCTGGGCCCCAAGGCCCTCCTGGCATCAGCAGGGTCTTCTCAGCCTACAGCAACGTGACACAAGACCTCATGGACTTCTTCCAAa tatgctgcttcttacactgcttcctcctacaaatatgtatgttctgccaggt---------CTACAAGGGATGGCGTACACTGTCCAGGGCCCGCCTGGGCCTCAAGGCCCTCCTGGCATTAGCAGGGTCTTCTCAGCCTATAGCAATGTAACACAAGACCTCATGGACTTCTTCCAAagtaagtatagctccatgtgttgcccagtgttggcctgtacatctggttcc Alignment from Spaln_aa2Genome GTCAGGGTCTGCTACAAGGGATGGCCTACACTGTCCAGGGCCCACCTGGGCCCCAAGGCCCTCCTGGCATCAGCAGGGTCTTCTCAGCCTACAGCAACGTGACACAAGACCTCATGGACTTCTTCCAAA tcttacactgcttcctacatcactgcctacaaatatgtatgttctgccagGT---------CTACAAGGGATGGCGTACACTGTCCAGGGCCCGCCTGGGCCTCAAGGCCCTCCTGGCATTAGCAGGGTCTTCTCAGCCTATAGCAATGTAACACAAGACCTCATGGACTTCTTCCAAAgtaagtatagctccatgtgttgcccagtgttggcctgtacatctggttcc Alignment from Spaln_nt2Genome TGCTACAAGGGATGGCCTACACTGTCCAGGGCCCACCTGGGCCCCAAGGCCCTCCTGGCATCAGCAGGGTCTTCTCAGCCTACAGCAACGTGACACAAGACCTCATGGACTTCTTCCAAA tcttacactgcttcctacatcactgcctacaaatatgtatgttctgccagGTCTACAAGGGATGGCGTACACTGTCCAGGGCCCGCCTGGGCCTCAAGGCCCTCCTGGCATTAGCAGGGTCTTCTCAGCCTATAGCAATGTAACACAAGACCTCATGGACTTCTTCCAAAgtaagtatagctccatgtgttgcccagtgttggcctgtacatctggttcc Alignment from Pairagon GTCAGGGTCTGCTACAAGGGATGGCCTACACTGTCCAGGGCCCACCTGGGCCCCAAGGCCCTCCTGGCATCAGCAGGGTCTTCTCAGCCTACAGCAACGTGACACAAGACCTCATGGACTTCTTCCAAA tcttacactgcttcctacatcactgcctacaaatatgtatgttctgccagGT---------CTACAAGGGATGGCGTACACTGTCCAGGGCCCGCCTGGGCCTCAAGGCCCTCCTGGCATTAGCAGGGTCTTCTCAGCCTATAGCAATGTAACACAAGACCTCATGGACTTCTTCCAAAgtaagtatagctccatgtgttgcccagtgttggcctgtacatctggttcc Alignment from Exonerate_protein2genome GGTCTGCTACAAGGGATGGCCTACACTGTCCAGGGCCCACCTGGGCCCCAAGGCCCTCCTGGCATCAGCAGGGTCTTCTCAGCCTACAGCAACGTGACACAAGACCTCATGGACTTCTTCCAAA tcttacactgcttcctacatcactgcctacaaatatgtatgttctgCCAGGTCTACAAGGGATGGCGTACACTGTCCAGGGCCCGCCTGGGCCTCAAGGCCCTCCTGGCATTAGCAGGGTCTTCTCAGCCTATAGCAATGTAACACAAGACCTCATGGACTTCTTCCAAAgtaagtatagctccatgtgttgcccagtgttggcctgtacatctggttcc Alignment from Exonerate_coding2genome GGTCTGCTACAAGGGATGGCCTACACTGTCCAGGGCCCACCTGGGCCCCAAGGCCCTCCTGGCATCAGCAGGGTCTTCTCAGCCTACAGCAACGTGACACAAGACCTCATGGACTTCTTCCAAA tcttacactgcttcctacatcactgcctacaaatatgtatgttctgCCAGGTCTACAAGGGATGGCGTACACTGTCCAGGGCCCGCCTGGGCCTCAAGGCCCTCCTGGCATTAGCAGGGTCTTCTCAGCCTATAGCAATGTAACACAAGACCTCATGGACTTCTTCCAAAgtaagtatagctccatgtgttgcccagtgttggcctgtacatctggttcc Alignment from GeneWise GTCAGGGTCTGCTACAAGGGATGGCCTACACTGTCCAGGGCCCACCTGGGCCCCAAGGCCCTCCTGGCATCAGCAGGGTCTTCTCAGCCTACAGCAACGTGACACAAGACCTCATGGACTTCTTCCAAA tcttacactgcttcctacatcactgcctacaaatatgtatgttctgccagGT---------CTACAAGGGATGGCGTACACTGTCCAGGGCCCGCCTGGGCCTCAAGGCCCTCCTGGCATTAGCAGGGTCTTCTCAGCCTATAGCAATGTAACACAAGACCTCATGGACTTCTTCCAAAgtaagtatagctccatgtgttgcccagtgttggcctgtacatctggttcc #### Col17a1_ID10275_47 --> 2 - 1 Original Alignment cc------GCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa attttctgtccaggctcctgtcctttctctggctcatttctaccctgtagccATCGAAGCTGGTTTGTCCTCCATCCCAGGCCCTGCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAagtaagaacccttgatgtgtgccccctgtgccccccccctagacttccacg Alignment from CESAR cc------GCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAa attttctgtccaggctcctgtcctttctctggctcatttctaccctgtagccATCGAAGCTGGTTTGTCCTCCATCCCAGGCCCTGCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAagtaagaacccttgatgtgtgccccctgtgccccccccctagacttccacg Alignment from Spaln_aa2Genome CTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA attttctgtccaggctcctgtcctttctctggctcatttctaccctgtagccatcgaagCTGGTTTGTCCTCCATCCCAGGCCCTGCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAAgtaagaacccttgatgtgtgccccctgtgccccccccctagacttccacg Alignment from Spaln_nt2Genome CC------GCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA attttctgtccaggctcctgtcctttctctggctcatttctaccctgtagCCATCGAAGCTGGTTTGTCCTCCATCCCAGGCCCTGCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAAgtaagaacccttgatgtgtgccccctgtgccccccccctagacttccacg Alignment from Pairagon CC------GCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA attttctgtccaggctcctgtcctttctctggctcatttctaccctgtagCCATCGAAGCTGGTTTGTCCTCCATCCCAGGCCCTGCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAAgtaagaacccttgatgtgtgccccctgtgccccccccctagacttccacg Alignment from Exonerate_protein2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA attttctgtccaggctcctgtcctttctctggctcatttctaccctgtagccatcgAAGCTGGTTTGTCCTCCATCCCAGGCCCTGCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAAgtaagaacccttgatgtgtgccccctgtgccccccccctagacttccacg Alignment from Exonerate_coding2genome CCGCTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA attttctgtccaggctcctgtcctttctctggctcatttctaccctgtagccatcgAAGCTGGTTTGTCCTCCATCCCAGGCCCTGCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAAgtaagaacccttgatgtgtgccccctgtgccccccccctagacttccacg Alignment from GeneWise CTGGTTTGTCCTCCATCCCAGGCCCTCCAGGCCCACCAGGGCCCCCAGGTCCTCGAGGGCCCCCAGGTGTCTCAGCAGCTCTGTCCACCTATGCAGCTGAGAACAGCGACAACTTCCGCAGCGAGCTGATTAGCTACCTCACAA attttctgtccaggctcctgtcctttctctggctcatttctaccctgtagccatcgaagCTGGTTTGTCCTCCATCCCAGGCCCTGCAGGCCCACCAGGGCCACCAGGTCCTCGAGGGCCTCCAGGGGTTTCAACAGCTCTGTCCACCTATGCAGCTGAGAACAGTGATAACTTCCGCAGTGAGCTGATTAGCTACCTCACAAgtaagaacccttgatgtgtgccccctgtgccccccccctagacttccacg #### Col17a1_ID10277_45 --> 2 - 1 Original Alignment ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCA---a gatagacactattgggcttctcgattcagaacaacatgtcttggtatcaggaAATGATGTGTGGCAATACTTACGTCAAAATCTGGTGGGTCCTCCCAGTCCCTCAGGGCCACCAGGTGTCAGTGGAGAAGGGTCTCTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAACAagtcagtaatcaggattaagggcaaccaaccccactgagattgccccagta Alignment from CESAR ggAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCA---a gatagacactattgggcttctcgattcagaacaacatgtcttggtatcaggaAATGATGTGTGGCAATACTTACGTCAAAATCTGGTGGGTCCTCCCAGTCCCTCAGGGCCACCAGGTGTCAGTGGAGAAGGGTCTCTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAACAagtcagtaatcaggattaagggcaaccaaccccactgagattgccccagta Alignment from Spaln_aa2Genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCA---A gatagacactattgggcttctcgattcagaacaacatgtcttggtatcagGAAATGATGTGTGGCAATACTTACGTCAAAATCTGGTGGGTCCTCCCAGTCCCTCAGGGCCACCAGGT---------GTCAGTGGAGAAGGGTCTCTACTGTCTGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAACAAgtcagtaatcaggattaagggcaaccaaccccactgagattgccccagta Alignment from Spaln_nt2Genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA--- gatagacactattgggcttctcgattcagaacaacatgtcttggtatcagGAAATGATGTGTGGCAATACTTACGTCAAAATCTGGTGGGTCCTCCCAGTCCCTCAGGGCCACCAGGTGTCAGTGGAGAAGGGTCTCTACTGTC---------TGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAACAAgtcagtaatcaggattaagggcaaccaaccccactgagattgccccagta Alignment from Pairagon GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAA--- gatagacactattgggcttctcgattcagaacaacatgtcttggtatcagGAAATGATGTGTGGCAATACTTACGTCAAAATCTGGTGGGTCCTCCCAGTCCCTCAGGGCCACCAGGTGTCAGTGGAGAAGGGTCTCTACTGTC---------TGGAGAGCTGAGCAAACACATTCTCAACTATATGTCAACAAgtcagtaatcaggattaagggcaaccaaccccactgagattgccccagta Alignment from Exonerate_protein2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCA---A gatagacactattgggcttctcgattcagaacaacatgtcttggtatcagGAAATGATGTGTGGCAATACTTACGTCAAAATCTGGTGGGTCCTCCCAGTCCCTCAGGGCCACCAGGTGTCAGTGGAGAAGGGTCTCTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAACAAgtcagtaatcaggattaagggcaaccaaccccactgagattgccccagta Alignment from Exonerate_coding2genome GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCA---A gatagacactattgggcttctcgattcagaacaacatgtcttggtatcagGAAATGATGTGTGGCAATACTTACGTCAAAATCTGGTGGGTCCTCCCAGTCCCTCAGGGCCACCAGGTGTCAGTGGAGAAGGGTCTCTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAACAAgtcagtaatcaggattaagggcaaccaaccccactgagattgccccagta Alignment from GeneWise GGAACGATGTGTGGCAGTACTTACGTCAGAATCTGGTGGGTCCTCCCGGTCCCCCAGGGCCACCAGGCGTCAGTGGAGATGGGTCCCTCCTGTCTTTGGACTATGGAGAGCTGAGCAGACACATTCTCAACTATATGTCAAGT- gatagacactattgggcttctcgattcagaacaacatgtcttggtatcagGAAATGATGTGTGGCAATACTTACGTCAAAATCTGGTGGGTCCTCCCAGTCCCTCAGGGCCACCAGGTGTCAGTGGAGAAGGGTCTCTACTGTCT---------GGAGAGCTGAGCAAACACATTCTCAACTATATGTCAACAAgtcagtaatcaggattaagggcaaccaaccccactgagattgccccagta #### Col17a1_ID10278_44 --> 2 - 1 Original Alignment caTCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAc aggccacggaggttagccaaagtcccctcctccctcccttcctcctttagcaTCAGGGTATAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATG------cgtgagtccgagtatcctacaatgggcaggagtagggtcttttacctccct Alignment from CESAR caTCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAc aggccacggaggttagccaaagtcccctcctccctcccttcctcctttagcaTCAGGGTATAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATG------cgtgagtccgagtatcctacaatgggcaggagtagggtcttttacctccct Alignment from Spaln_aa2Genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATG- aggccacggaggttagccaaagtcccctcctccctcccttcctcctttagCATCAGGGTATAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCgtgagtccgagtatcctacaatgggcaggagtagggtcttttacctccct Alignment from Spaln_nt2Genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGC aggccacggaggttagccaaagtcccctcctccctcccttcctcctttagCATCAGGGTATAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCgtgagtccgagtatcctacaatgggcaggagtagggtcttttacctccct Alignment from Pairagon CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGC aggccacggaggttagccaaagtcccctcctccctcccttcctcctttagCATCAGGGTATAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCgtgagtccgagtatcctacaatgggcaggagtagggtcttttacctccct Alignment from Exonerate_protein2genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC aggccacggaggttagccaaagtcccctcctccctcccttcctcctttagCATCAGGGTATAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCGTGAGTccgagtatcctacaatgggcaggagtagggtcttttacctccct Alignment from Exonerate_coding2genome CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGCTGCGAC aggccacggaggttagccaaagtcccctcctccctcccttcctcctttagCATCAGGGTATAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCGTGAGTccgagtatcctacaatgggcaggagtagggtcttttacctccct Alignment from GeneWise CATCAGGCTACGGTGCTGGCTTGTCCTCTGCCTCCTCCTCAGAAGATATCTTGGCCATGC aggccacggaggttagccaaagtcccctcctccctcccttcctcctttagCATCAGGGTATAGTGCTGGCTTGTCCTCTGCTTCCTCCTCAGAAGATATCTTGGCCATGCgtgagtccgagtatcctacaatgggcaggagtagggtcttttacctccct #### Col17a1_ID10279_43 --> 2 - 1 Original Alignment gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGG------t ttttggtggcaggcttgatcatgtcatcaatttttttttttttaatctaggtGACAATATCAGGACTTATCTCCCAGGGGTTCAGGGTCCCCCAGGCCCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAAGGAGAGACTTTTGACTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGCGGTTGGTCtgtaagaccgtgacacttcctatgttgttaccctcaatacctttggagctc Alignment from CESAR gtGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGG------t ttttggtggcaggcttgatcatgtcatcaatttttttttttttaatctaggtGACAATATCAGGACTTATCTCCCAGGGGTTCAGGGTCCCCCAGGCCCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAAGGAGAGACTTTTGACTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGCGGTTGGTCtgtaagaccgtgacacttcctatgttgttaccctcaatacctttggagctc Alignment from Spaln_aa2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGTCATCAG ttttggtggcaggcttgatcatgtcatcaatttttttttttttaatctagGTGACAATATCAGGACTTATCTCCCAGGGGTTCAGGGTCCCCCAGGCCCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAAGGAGAGACTTTTGACTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGCGGTTGGTCTgtaagaccgtgacacttcctatgttgttaccctcaatacctttggagctc Alignment from Spaln_nt2Genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT-- ttttggtggcaggcttgatcatgtcatcaatttttttttttttaatctagGTGACAATATCAGGACTTATCTCCCAGGGGTTCAGGGTCCCCCAGGCCCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAAGGAGAGACTTTTGACTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGCGGTTGgtctgtaagaccgtgacacttcctatgttgttaccctcaatacctttggagctc Alignment from Pairagon GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGT------ ttttggtggcaggcttgatcatgtcatcaatttttttttttttaatctagGTGACAATATCAGGACTTATCTCCCAGGGGTTCAGGGTCCCCCAGGCCCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAAGGAGAGACTTTTGACTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGCGGTTGGTCTgtaagaccgtgacacttcctatgttgttaccctcaatacctttggagctc Alignment from Exonerate_protein2genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGTCATCAG ttttggtggcaggcttgatcatgtcatcaatttttttttttttaatctagGTGACAATATCAGGACTTATCTCCCAGGGGTTCAGGGTCCCCCAGGCCCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAAGGAGAGACTTTTGACTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGCGGTTGGTCTgtaagaccgtgacacttcctatgttgttaccctcaatacctttggagctc Alignment from Exonerate_coding2genome GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGGTCATCAG ttttggtggcaggcttgatcatgtcatcaatttttttttttttaatctagGTGACAATATCAGGACTTATCTCCCAGGGGTTCAGGGTCCCCCAGGCCCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAAGGAGAGACTTTTGACTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGCGGTTGGTCTgtaagaccgtgacacttcctatgttgttaccctcaatacctttggagctc Alignment from GeneWise GTGACAACATCAGGACTTATCTCTCAGGGGTTCAGGGTCCCCCAGGCCCACCAGGTCCCCCAGGGCCTGTCATCACCATCACAGGAGAGACTTTCGACTACTCCCAGCTGGCAAGCCAGGTCGTAAGCTACTTGCGG------T ttttggtggcaggcttgatcatgtcatcaatttttttttttttaatctagGTGACAATATCAGGACTTATCTCCCAGGGGTTCAGGGTCCCCCAGGCCCCCCAGGCCCCCCTGGGCCTGTCATCACCATCAAAGGAGAGACTTTTGACTACTCACAGCTGGCAAGTCAGGTTGTTAGCTACCTGCGGTTGGTCTgtaagaccgtgacacttcctatgttgttaccctcaatacctttggagctc #### Col17a1_ID10282_40 --> 2 - 1 Original Alignment aaACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAg tactgagaaacatcccattatttacacctccatccatcttgttcctgaagaaACCTTCTTCAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGCCCCAAGGGGGAC---ggttgggagtgcagtaacttggagcacctggatcaagtgtgatgtttctct Alignment from CESAR aaACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAg tactgagaaacatcccattatttacacctccatccatcttgttcctgaagaaACCTTCTTCAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGCCCCAAGGGGGAC---ggttgggagtgcagtaacttggagcacctggatcaagtgtgatgtttctct Alignment from Spaln_aa2Genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGAC- tactgagaaacatcccattatttacacctccatccatcttgttcctgaagAAACCTTCTTCAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGCCCCAAGGGGGACGgttgggagtgcagtaacttggagcacctggatcaagtgtgatgtttctct Alignment from Spaln_nt2Genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACC tactgagaaacatcccattatttacacctccatccatcttgttcctgaagAAACCTTCTTCAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGCCCCAAGGGGGACGgttgggagtgcagtaacttggagcacctggatcaagtgtgatgtttctct Alignment from Pairagon AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG tactgagaaacatcccattatttacacctccatccatcttgttcctgaagAAACCTTCTTCAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGCCCCAAGGGGGAC---Ggttgggagtgcagtaacttggagcacctggatcaagtgtgatgtttctct Alignment from Exonerate_protein2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG tactgagaaacatcccattatttacacctccatccatcttgttcctgaagAAACCTTCTTCAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGCCCCAAGGGGGACGGTTgggagtgcagtaacttggagcacctggatcaagtgtgatgtttctct Alignment from Exonerate_coding2genome AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACCAAG tactgagaaacatcccattatttacacctccatccatcttgttcctgaagAAACCTTCTTCAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGCCCCAAGGGGGACGGTTgggagtgcagtaacttggagcacctggatcaagtgtgatgtttctct Alignment from GeneWise AAACCTTCTTCACTGGCCCTCCAGGTCCACCCGGCCCCCCAGGTCCCAAGGGAGACC tactgagaaacatcccattatttacacctccatccatcttgttcctgaagAAACCTTCTTCAGGGGACCTCCAGGTCCACCTGGCCCCCCAGGCCCCAAGGGGGACGgttgggagtgcagtaacttggagcacctggatcaagtgtgatgtttctct #### Col17a1_ID10285_37 --> 2 - 1 Original Alignment aaGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAg tgacctcagtcttctttgtctcactgatgtcctctgcccacctggaccagaa---------TTACGTGGTCCCCCTGGCCCACCTGGACCCCGAGGGCCACCAggtgagtgctcactgatatttagaagtggggagaatcagcctccaagggca Alignment from CESAR aaGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAg cgaagagtctgacctcagtcttcttgatgtcctctgcccacctggaccagaa---------TTACGTGGTCCCCCTGGCCCACCTGGACCCCGAGGGCCACCAggtgagtgctcactgatatttagaagtggggagaatcagcctccaagggca Alignment from Spaln_aa2Genome ACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG tgacctcagtcttctttgtctcactgatgtcctctgcccacctggaccagAATTACGTGGTCCCCCTGGCCCACCTGGACCCCGAGGGCCACCAGgtgagtgctcactgatatttagaagtggggagaatcagcctccaagggca Alignment from Spaln_nt2Genome ACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG tgacctcagtcttctttgtctcactgatgtcctctgcccacctggaccagAATTACGTGGTCCCCCTGGCCCACCTGGACCCCGAGGGCCACCAGgtgagtgctcactgatatttagaagtggggagaatcagcctccaagggca Alignment from Pairagon AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG tgacctcagtcttctttgtctcactgatgtcctctgcccacctggaccagAA---------TTACGTGGTCCCCCTGGCCCACCTGGACCCCGAGGGCCACCAGgtgagtgctcactgatatttagaagtggggagaatcagcctccaagggca Alignment from Exonerate_protein2genome AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG tgacctcagtcttctttgtctcactgatgtcctctgcccacCTGGACCAGAATTACGTGGTCCCCCTGGCCCACCTGGACCCCGAGGGCCACCAGgtgagtgctcactgatatttagaagtggggagaatcagcctccaagggca Alignment from Exonerate_coding2genome AAGGTGTTGACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG tgacctcagtcttctttgtctcactgatgtcctctgcccacCTGGACCAGAATTACGTGGTCCCCCTGGCCCACCTGGACCCCGAGGGCCACCAGgtgagtgctcactgatatttagaagtggggagaatcagcctccaagggca Alignment from GeneWise ACTTACGAGGTCCCCCTGGCCCACCTGGCCCACGAGGGCCACCAG tgacctcagtcttctttgtctcactgatgtcctctgcccacctggaccagAATTACGTGGTCCCCCTGGCCCACCTGGACCCCGAGGGCCACCAGgtgagtgctcactgatatttagaagtggggagaatcagcctccaagggca #### Col17a1_ID10296_26 --> 2 - 1 Original Alignment gtGACAAAGGACTCATGGGACCACCAGGACCCAAAg ctacaggcttgccacactatttctgttcaaatatcactaattttttttaggt---------CTGATAGGACCGCCTGGACCCAAAggtgagtattgcccatggctgctcagcctttgctatggcctcttctgcaat Alignment from CESAR gtGACAAAGGACTCATGGGACCACCAGGACCCAAAg ggcaaaccactacaggcttgccacattcaaatatcactaattttttttaggt---------CTGATAGGACCGCCTGGACCCAAAggtgagtattgcccatggctgctcagcctttgctatggcctcttctgcaat Alignment from Spaln_aa2Genome GGTGACAAAGGACTCATGGGACCACCAGGACCCAAAG tgccacactatttctgttcaaatatcactaatttttttta gGTCTGATAGGACCGCCTGGACCCAAAGgtgagtattgcccatggctgctcagcctttgctatggcctcttctgcaat Alignment from Spaln_nt2Genome AGGACTCATGGGACCACCAGGACCCAAAG ctacaggcttgccacactatttctgttcaaatatcactaattttttttag--GTCTGATAGGACCGCCTGGACCCAAAGgtgagtattgcccatggctgctcagcctttgctatggcctcttctgcaat Alignment from Pairagon CAAAGGACTCATGGGACCACCAGGACCCAAAG ctacaggcttgccacactatttctgttcaaatatcactaattttttttag-----GTCTGATAGGACCGCCTGGACCCAAAGgtgagtattgcccatggctgctcagcctttgctatggcctcttctgcaat Alignment from Exonerate_protein2genome GTGACAAAGGACTCATGGGACCACCAGGACCCAAAG ctacaggcttgccacactatttctgttcaaatatcactaatTTTTTTTAGGTCTGATAGGACCGCCTGGACCCAAAGgtgagtattgcccatggctgctcagcctttgctatggcctcttctgcaat Alignment from Exonerate_coding2genome GTGACAAAGGACTCATGGGACCACCAGGACCCAAAG ctacaggcttgccacactatttctgttcaaatatcactaatTTTTTTTAGGTCTGATAGGACCGCCTGGACCCAAAGgtgagtattgcccatggctgctcagcctttgctatggcctcttctgcaat Alignment from GeneWise ctacaggcttgccacactatttctgttcaaatatcactaattttttttaggtctgataggaccgcctggacccaaaggtgagtattgcccatggctgctcagcctttgctatggcctcttctgcaat #### Col17a1_ID10297_25 --> 2 - 1 Original Alignment gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAg aatgatgggaatgtatgatgggtggttcttccttctcctcccacccacaggt------GGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAggtaagttaggggaggagtagcaattagaaagcattctgtggagacatctc Alignment from CESAR gtGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAg acctccaatgatgggaatgtatgatttcttccttctcctcccacccacaggt------GGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAggtaagttaggggaggagtagcaattagaaagcattctgtggagacatctc Alignment from Spaln_aa2Genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG aatgatgggaatgtatgatgggtggttcttccttctcctcccacccacagGT------GGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaagttaggggaggagtagcaattagaaagcattctgtggagacatctc Alignment from Spaln_nt2Genome GTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG aatgatgggaatgtatgatgggtggttcttccttctcctcccacccacagGT-GGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaagttaggggaggagtagcaattagaaagcattctgtggagacatctc Alignment from Pairagon GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG aatgatgggaatgtatgatgggtggttcttccttctcctcccacccacagGT------GGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaagttaggggaggagtagcaattagaaagcattctgtggagacatctc Alignment from Exonerate_protein2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG aatgatgggaatgtatgatgggtggttcttccttctcctcccacCCACAGGTGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaagttaggggaggagtagcaattagaaagcattctgtggagacatctc Alignment from Exonerate_coding2genome GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG aatgatgggaatgtatgatgggtggttcttccttctcctcccacCCACAGGTGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaagttaggggaggagtagcaattagaaagcattctgtggagacatctc Alignment from GeneWise GTGCTGTGGGTCCCCAAGGGCTCCGAGGTGACGTGGGACTTCCTGGTGTCAAAG aatgatgggaatgtatgatgggtggttcttccttctcctcccacccacagGT------GGTCCCCAAGGGCTCCGAGGTGACGTGGGACTACCTGGTGTCAAAGgtaagttaggggaggagtagcaattagaaagcattctgtggagacatctc #### Col17a1_ID10308_14 --> 2 - 1 Original Alignment ct------TCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATg agggcgggtgtagacacaatagactgaacttttttattgtcaacttgcagctCACCGGTCCTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCTGCATATGCTGCTGACACCTGCCTCAAGGCAGATGTGAATggtgagtaaaatctgaccaaccactgaacttgcacaaagctgcacctcatt Alignment from CESAR ct------TCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATg agggcgggtgtagacacaatagactgaacttttttattgtcaacttgcagctCACCGGTCCTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCTGCATATGCTGCTGACACCTGCCTCAAGGCAGATGTGAATggtgagtaaaatctgaccaaccactgaacttgcacaaagctgcacctcatt Alignment from Spaln_aa2Genome CTTCCTTTTCAGAA------GACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG agggcgggtgtagacacaatagactgaacttttttattgtcaacttgcagCTCACCGGTCCTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCTGCATATGCTGCTGACACCTGCCTCAAGGCAGATGTGAATGgtgagtaaaatctgaccaaccactgaacttgcacaaagctgcacctcatt Alignment from Spaln_nt2Genome CT------TCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG agggcgggtgtagacacaatagactgaacttttttattgtcaacttgcagCTCACCGGTCCTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCTGCATATGCTGCTGACACCTGCCTCAAGGCAGATGTGAATGgtgagtaaaatctgaccaaccactgaacttgcacaaagctgcacctcatt Alignment from Pairagon CT------TCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG agggcgggtgtagacacaatagactgaacttttttattgtcaacttgcagCTCACCGGTCCTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCTGCATATGCTGCTGACACCTGCCTCAAGGCAGATGTGAATGgtgagtaaaatctgaccaaccactgaacttgcacaaagctgcacctcatt Alignment from Exonerate_protein2genome CT------TCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG agggcgggtgtagacacaatagactgaacttttttattgtcaacttgcagCTCACCGGTCCTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCTGCATATGCTGCTGACACCTGCCTCAAGGCAGATGTGAATGgtgagtaaaatctgaccaaccactgaacttgcacaaagctgcacctcatt Alignment from Exonerate_coding2genome CT------TCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG agggcgggtgtagacacaatagactgaacttttttattgtcaacttgcagCTCACCGGTCCTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCTGCATATGCTGCTGACACCTGCCTCAAGGCAGATGTGAATGgtgagtaaaatctgaccaaccactgaacttgcacaaagctgcacctcatt Alignment from GeneWise -----ACTTCCTTTTCAGAAGACACCCTGAAAAAGGAGAAGCAGGCTGCATATGCCGCTGACACCTGCCTGAAGGCAGATGTGAATG agggcgggtgtagacacaatagactgaacttttttattgtcaacttgcagCTCACCGGTCCTTCTCAGAAGAGACACTGAAAAAGGAGAAGCAGGCTGCATATGCTGCTGACACCTGCCTCAAGGCAGATGTGAATGgtgagtaaaatctgaccaaccactgaacttgcacaaagctgcacctcatt #### Coro1b_ID357_7 --> 0 - 2 Original Alignment GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag ataatggaaagatttcattaaatgcattcagcattctgttgttttctcag---GATTCTAGCATCCGATACTTTGAGATCACAGATGAGCCC---CACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCaggtaagtacaccctctggggtggtcatatgtaggcatactgttttaggatg Alignment from CESAR GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCag agcataatggaaagatttcattaaaattcagcattctgttgttttctcag---GATTCTAGCATCCGATACTTTGAGATCACAGATGAG---CCCCACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCaggtaagtacaccctctggggtggtcatatgtaggcatactgttttaggatg Alignment from Spaln_aa2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataatggaaagatttcattaaatgcattcagcattctgttgttttctcag---GATTCTAGCATCCGATACTTTGAGATCACAGATGAG---CCCCACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAGgtaagtacaccctctggggtggtcatatgtaggcatactgttttaggatg Alignment from Spaln_nt2Genome GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataatggaaagatttcattaaatgcattcagcattctgttgttttctcag---GATTCTAGCATCCGATACTTTGAGATCACAGATGAG---CCCCACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAGgtaagtacaccctctggggtggtcatatgtaggcatactgttttaggatg Alignment from Pairagon GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataatggaaagatttcattaaatgcattcagcattctgttgttttctcag---GATTCTAGCATCCGATACTTTGAGATCACAGATGAGCCCC---ACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAGgtaagtacaccctctggggtggtcatatgtaggcatactgttttaggatg Alignment from Exonerate_protein2genome GATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataatggaaagatttcattaaatgcattcagcattctgttgttttctcagGATTCTAGCATCCGATACTTTGAGATCACAGATGAG---CCCCACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAGgtaagtacaccctctggggtggtcatatgtaggcatactgttttaggatg Alignment from Exonerate_coding2genome GATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ataatggaaagatttcattaaatgcattcagcattctgttgttttctcagGATTCTAGCATCCGATACTTTGAGATCACAGATGAG---CCCCACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAGgtaagtacaccctctggggtggtcatatgtaggcatactgttttaggatg Alignment from GeneWise -----------------------------------------------GGCGATTCCAGCATCCGGTACTTTGAGATCACAGATGAGCCCCCCTACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCTAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAG ATAATGGAAAGATTTCATTAAATGCATTCAGCATTCTGTTGTTTTCTCAGGATTCTAGCATCCGATACTTTGAGATCACAGATGAGCCC---CACATCCACTTCCTGAATACATTTACCAGCAAAGAACCCCAGAGGGGTATGGGCAGCATGCCGAAGAGGGGCTTGGAGGTCAGCAAGTGTGAAATTGCCAGgtaagtacaccctctggggtggtcatatgtaggcatactgttttaggatg #### Csf2ra_ID13433_7 --> 0 - 0 Original Alignment AGCGCAGAGCCAGGAAGCACACCCCGGAAG--- ctcgcttgccacactccaaatcctcagcggcatccctcctacacacacagAGCGCAGAACCAGGAAGCACACCCCGGCAGTGCgtactttgagttgatgcaggaactgacctggattgcaggaatagagggga Alignment from CESAR AGCGCAGAGCCAGGAAGCACACCCCGGAAG--- ctcgcttgccacactccaaatcctcagcggcatccctcctacacacacagAGCGCAGAACCAGGAAGCACACCCCGGCAGTGCgtactttgagttgatgcaggaactgacctggattgcaggaatagagggga Alignment from Spaln_aa2Genome AGCGCAGAGCCAGGAAGCACACCCCGGAAG--- ctcgcttgccacactccaaatcctcagcggcatccctcctacacacacagAGCGCAGAACCAGGAAGCACACCCCGGCAGTGCgtactttgagttgatgcaggaactgacctggattgcaggaatagagggga Alignment from Spaln_nt2Genome AGCGCAGAGCCAGGAAGCACACCCCGGAA ctcgcttgccacactccaaatcctcagcggcatccctcctacacacacagAGCGCAGAACCAGGAAGCACACCCCGGCAgtgcgtactttgagttgatgcaggaactgacctggattgcaggaatagagggga Alignment from Pairagon -----------------------------------------------CAGAGCGCAGAGCCAGGAAGCACACCCCGGAA CTCGCTTGCCACACTCCAAATCCTCAGCGGCATCCCTCCTACACACACAGAGCGCAGAACCAGGAAGCACACCCCGGCAgtgcgtactttgagttgatgcaggaactgacctggattgcaggaatagagggga Alignment from Exonerate_protein2genome AGCGCAGAGCCAGGAAGCACACCCCGGAAG ctcgcttgccacactccaaatcctcagcggcatccctcctacacacacagAGCGCAGAACCAGGAAGCACACCCCGGCAGtgcgtactttgagttgatgcaggaactgacctggattgcaggaatagagggga Alignment from Exonerate_coding2genome AGCGCAGAGCCAGGAAGCACACCCCGGAAG ctcgcttgccacactccaaatcctcagcggcatccctcctacacacacagAGCGCAGAACCAGGAAGCACACCCCGGCAGtgcgtactttgagttgatgcaggaactgacctggattgcaggaatagagggga Alignment from GeneWise ctcgcttgccacactccaaatcctcagcggcatccctcctacacacacagagcgcagaaccaggaagcacaccccggcagtgcgtactttgagttgatgcaggaactgacctggattgcaggaatagagggga #### Csf2ra_ID13434_6 --> 2 - 0 Original Alignment agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aaggtgggacttgtaagtgatagctcttcttttctctcctctcaccttagagCGACTTGGTCCCCCACGTGATGTCACCGCATCCTGTAACTCTTCCCATTGCACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAG------gtgaccactctcagggcctctcctttttggcaaggcacaagggaggatat Alignment from CESAR agCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGGCAG aaggtgggacttgtaagtgatagctcttcttttctctcctctcaccttagagCGACTTGGTCCCCCACGTGATGTCACCGCATCCTGTAACTCTTCCCATTGCACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTC------CAGgtgaccactctcagggcctctcctttttggcaaggcacaagggaggatat Alignment from Spaln_aa2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAG aaggtgggacttgtaagtgatagctcttcttttctctcctctcaccttagAGCGACTTGGTCCCCCACGTGATGTCACCGCATCCTGTAACTCTTCCCATTGCACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGgtgaccactctcagggcctctcctttttggcaaggcacaagggaggatat Alignment from Spaln_nt2Genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAG aaggtgggacttgtaagtgatagctcttcttttctctcctctcaccttagAGCGACTTGGTCCCCCACGTGATGTCACCGCATCCTGTAACTCTTCCCATTGCACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGgtgaccactctcagggcctctcctttttggcaaggcacaagggaggatat Alignment from Pairagon AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAGTGG----------------------------------------------- aaggtgggacttgtaagtgatagctcttcttttctctcctctcaccttagAGCGACTTGGTCCCCCACGTGATGTCACCGCATCCTGTAACTCTTCCCATTGCACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGGTGACCACTCTCAGGGCCTCTCCTTTTTGGCAAGGCACAAGGGAGGATAT Alignment from Exonerate_protein2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAG aaggtgggacttgtaagtgatagctcttcttttctctcctctcaccttagAGCGACTTGGTCCCCCACGTGATGTCACCGCATCCTGTAACTCTTCCCATTGCACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGgtgaccactctcagggcctctcctttttggcaaggcacaagggaggatat Alignment from Exonerate_coding2genome AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAG aaggtgggacttgtaagtgatagctcttcttttctctcctctcaccttagAGCGACTTGGTCCCCCACGTGATGTCACCGCATCCTGTAACTCTTCCCATTGCACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGgtgaccactctcagggcctctcctttttggcaaggcacaagggaggatat Alignment from GeneWise AGCGACTCGGTCCCCCACGTGACGTCACCGCGTCCTGTAACTCTTCCCACTGCACCGTCTCGTGGGCCCCGCCCTCGACCTGGGCATCCTTGACGGCCCGGGACTTCCAGTTTGAGGTCCAG---------------------------TGGCAG----------------- aaggtgggacttgtaagtgatagctcttcttttctctcctctcaccttagAGCGACTTGGTCCCCCACGTGATGTCACCGCATCCTGTAACTCTTCCCATTGCACCGTTTCATGGGCCCCACCCTCAACCTGGGCATCCCTGACGGCACGGGACTATCAGTTTGAGGTCCAGGTGACCACTCTCAGGGCCTCTCCTTTTTGGCAAGGCACAAGGGAGGATAT #### Csf2ra_ID13435_5 --> 1 - 1 Original Alignment gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---g cttctatgacatcatcactgacactctgctctttgcatcttttcccttagaGGTCACGATGTGGCACGTTGCATGGCTGACCCTGGGGACGATGTCATCACACAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTTGTAACTGGTCGGAGTGGGGCAGGGCCAGTGCGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTCTTTggtgagtttgcatttatgagtaggtgtgggacttctaattggcaacctgga Alignment from CESAR gGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---g cttctatgacatcatcactgacactctgctctttgcatcttttcccttagaGGTCACGATGTGGCACGTTGCATGGCTGACCCTGGGGACGATGTCATCACACAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTTGTAACTGGTCGGAGTGGGGCAGGGCCAGTGCGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTCTTTggtgagtttgcatttatgagtaggtgtgggacttctaattggcaacctgga Alignment from Spaln_aa2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---G cttctatgacatcatcactgacactctgctctttgcatcttttcccttagAGGTCACGATGTGGCACGTTGCATGGCTGACCCTGGGGACGATGTCATCACACAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTTGTAACTGGTCGGAGTGGGGCAGGGCCAGTGCGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTCTTTGgtgagtttgcatttatgagtaggtgtgggacttctaattggcaacctgga Alignment from Spaln_nt2Genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---G cttctatgacatcatcactgacactctgctctttgcatcttttcccttagAGGTCACGATGTGGCACGTTGCATGGCTGACCCTGGGGACGATGTCATCACACAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTTGTAACTGGTCGGAGTGGGGCAGGGCCAGTGCGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTCTTTGgtgagtttgcatttatgagtaggtgtgggacttctaattggcaacctgga Alignment from Pairagon GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---G cttctatgacatcatcactgacactctgctctttgcatcttttcccttagAGGTCACGATGTGGCACGTTGCATGGCTGACCCTGGGGACGATGTCATCACACAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTTGTAACTGGTCGGAGTGGGGCAGGGCCAGTGCGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTCTTTGgtgagtttgcatttatgagtaggtgtgggacttctaattggcaacctgga Alignment from Exonerate_protein2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---G cttctatgacatcatcactgacactctgctctttgcatcttttcccttagAGGTCACGATGTGGCACGTTGCATGGCTGACCCTGGGGACGATGTCATCACACAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTTGTAACTGGTCGGAGTGGGGCAGGGCCAGTGCGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTCTTTGgtgagtttgcatttatgagtaggtgtgggacttctaattggcaacctgga Alignment from Exonerate_coding2genome GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTC---G cttctatgacatcatcactgacactctgctctttgcatcttttcccttagAGGTCACGATGTGGCACGTTGCATGGCTGACCCTGGGGACGATGTCATCACACAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTTGTAACTGGTCGGAGTGGGGCAGGGCCAGTGCGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTCTTTGgtgagtttgcatttatgagtaggtgtgggacttctaattggcaacctgga Alignment from GeneWise GGGTCACGACGTGGCGCGATGCATGGCCGACCCCGGGGATGACGTCATCACACAGTGCATTGCGAACGACTTGTCACTGCTGGGGAGTGAGGCCTACTTGGTCGTGACCGGTCGGAGCGGTGCGGGGCCAGTGCGGTTCCTGGACGACGTGGTGGCTACGAAGGCGCTCGAG- cttctatgacatcatcactgacactctgctctttgcatcttttcccttagAGGTCACGATGTGGCACGTTGCATGGCTGACCCTGGGGACGATGTCATCACACAGTGCATTGCAAATGATTTATCACTGCTGGGGAGTGAGGCCTACTTAGTTGTAACTGGTCGGAGTGGGGCAGGGCCAGTGCGGTTTCTGGATGATGTGGTGGCTACAAAGGCACTCTTTGgtgagtttgcatttatgagtaggtgtgggacttctaattggcaacctgga #### Csf2ra_ID13437_3 --> 0 - 1 Original Alignment CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg gaccccactgcactattcccccaccctcactgagtctgtgctgtctacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCGCTGCACCATGGTGTCACGCTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTGAGCTTC---------ggtgaggaggccccgttgagctgggggtgtttcagtgatgtcatcactaac Alignment from CESAR CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAg gaccccactgcactattcccccaccctcactgagtctgtgctgtctacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCGCTGCACCATGGTGTCACGCTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTGAGCTTC---------ggtgaggaggccccgttgagctgggggtgtttcagtgatgtcatcactaac Alignment from Spaln_aa2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTC- gaccccactgcactattcccccaccctcactgagtctgtgctgtctacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCGCTGCACCATGGTGTCACGCTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTGAGCTTCGgtgaggaggccccgttgagctgggggtgtttcagtgatgtcatcactaac Alignment from Spaln_nt2Genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCGTCAACGAAG gaccccactgcactattcccccaccctcactgagtctgtgctgtctacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCGCTGCACCATGGTGTCACGCTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTGAGCTTCGGTGA-GGAGgccccgttgagctgggggtgtttcagtgatgtcatcactaa Alignment from Pairagon CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCG gaccccactgcactattcccccaccctcactgagtctgtgctgtctacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCGCTGCACCATGGTGTCACGCTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTGAGCTTCGgtgaggaggccccgttgagctgggggtgtttcagtgatgtcatcactaac Alignment from Exonerate_protein2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCG gaccccactgcactattcccccaccctcactgagtctgtgctgtctacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCGCTGCACCATGGTGTCACGCTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTGAGCTTCGgtgaggaggccccgttgagctgggggtgtttcagtgatgtcatcactaac Alignment from Exonerate_coding2genome CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTCG gaccccactgcactattcccccaccctcactgagtctgtgctgtctacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCGCTGCACCATGGTGTCACGCTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTGAGCTTCGgtgaggaggccccgttgagctgggggtgtttcagtgatgtcatcactaac Alignment from GeneWise CCCTTCGGTTGCCGCTGCTGGTTCAGGAGGATGATGGCGCTGCACCACGGTGTCACGCTGGATGTCAATGGCACGGTCGGGGGCGCGGCCGCGCACTGGAGGCTGAGCTTC- gaccccactgcactattcccccaccctcactgagtctgtgctgtctacagCCCTTTGGTTGCCGCTGCTGGTTCAGAAGGATGATGGCGCTGCACCATGGTGTCACGCTGGATGTCAATGGCACAGTTGGGGGTGCAGCCGCGCACTGGAAGCTGAGCTTCGgtgaggaggccccgttgagctgggggtgtttcagtgatgtcatcactaac #### Csf2ra_ID13438_2 --> 2 - 0 Original Alignment ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG tgggcaaggccacatgcaaccaaggcactccctgaaatttaaatgaatagctCCAACCACACCATATGCTGGTTCAGCCCTCAACCTGATCTTTGACCCCTGGACTCGGACACTGACATGGGCCTGCGACACCGCTGCAGGGAATGTCATGGTGATGTCGTGCACTGTGACTGTGACCTCACGGGAGGCATCAATACACCGGCGAGTC---gtgaacgtggggggtaggatgagagggccatgtcccataatgatgtcact Alignment from CESAR ctCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTG------ACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--- tgggcaaggccacatgcaaccaaggcactccctgaaatttaaatgaatagctCCAACCACACCATATGCTGGTTCAGCCCTCAACCTGATCTTTGACCCCTGGACTCGGACACTGACATGGGCCTGCGACACCGCTGCAGGGAATGTCATGGTGATGTCGTGCACTGTGACTGTGACCTCACGGGAGGCATCAATACACCGGCGAGTCGTGAACgtggggggtaggatgagagggccatgtcccataatgatgtcact Alignment from Spaln_aa2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGA---GTCTCG tgggcaaggccacatgcaaccaaggcactccctgaaatttaaatgaatagCTCCAACCACACCATATGCTGGTTCAGCCCTCAACCTGATCTTTGACCCCTGGACTCGGACACTGACATGGGCCTGCGACACCGCTGCAGGGAATGTCATGGTGATGTCGTGCACTGTGACTGTGACCTCACGGGAGGCATCAATACACCGGCGAGTCGTGAACgtggggggtaggatgagagggccatgtcccataatgatgtcact Alignment from Spaln_nt2Genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACC------GTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTCTCG--- tgggcaaggccacatgcaaccaaggcactccctgaaatttaaatgaatagCTCCAACCACACCATATGCTGGTTCAGCCCTCAACCTGATCTTTGACCCCTGGACTCGGACACTGACATGGGCCTGCGACACCGCTGCAGGGAATGTCATGGTGATGTCGTGCACTGTGACTGTGACCTCACGGGAGGCATCAATACACCGGCGAGTCGTGAACgtggggggtaggatgagagggccatgtcccataatgatgtcact Alignment from Pairagon CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGAGTC tgggcaaggccacatgcaaccaaggcactccctgaaatttaaatgaatagCTCCAACCACACCATATGCTGGTTCAGCCCTCAACCTGATCTTTGACCCCTGGACTCGGACACTGACATGGGCCTGCGACACCGCTGCAGGGAATGTCATGGTGATGTCGTGCACTGTGACTGTGACCTCACGGGAGGCATCAATACACCGGCGAGTCgtgaacgtggggggtaggatgagagggccatgtcccataatgatgtcact Alignment from Exonerate_protein2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGA---GTCTCG tgggcaaggccacatgcaaccaaggcactccctgaaatttaaatgaatagCTCCAACCACACCATATGCTGGTTCAGCCCTCAACCTGATCTTTGACCCCTGGACTCGGACACTGACATGGGCCTGCGACACCGCTGCAGGGAATGTCATGGTGATGTCGTGCACTGTGACTGTGACCTCACGGGAGGCATCAATACACCGGCGAGTCGTGAACgtggggggtaggatgagagggccatgtcccataatgatgtcact Alignment from Exonerate_coding2genome CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGC------ACCGTGACCTCGCGGGAGGCGGGGATACACCGGCGA---GTCTCG tgggcaaggccacatgcaaccaaggcactccctgaaatttaaatgaatagCTCCAACCACACCATATGCTGGTTCAGCCCTCAACCTGATCTTTGACCCCTGGACTCGGACACTGACATGGGCCTGCGACACCGCTGCAGGGAATGTCATGGTGATGTCGTGCACTGTGACTGTGACCTCACGGGAGGCATCAATACACCGGCGAGTCGTGAACgtggggggtaggatgagagggccatgtcccataatgatgtcact Alignment from GeneWise CTCCGACCACACCGGACGCCGGCTCCGCCCTCAACCTGACCTTCGACCCCTGGACTCGGACGCTGACCTGGGCCTGCGACACCGCCGCGGGGAACGTCACGGTGACGTCATGCACCGTGACC------TCGCGGGAGGCGGGGATACACCGGCGAGTCTCGCCC tgggcaaggccacatgcaaccaaggcactccctgaaatttaaatgaatagCTCCAACCACACCATATGCTGGTTCAGCCCTCAACCTGATCTTTGACCCCTGGACTCGGACACTGACATGGGCCTGCGACACCGCTGCAGGGAATGTCATGGTGATGTCGTGCACTGTGACTGTGACCTCACGGGAGGCATCAATACACCGGCGAGTCGTGAACgtggggggtaggatgagagggccatgtcccataatgatgtcact #### Ctsf_ID674_2 --> 0 - 0 Original Alignment ---------------GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggcttggccagaccattgtccactcacccatagATCCACAAATCTAAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTGgtgagtaagtggtcacctattatttaccctgggtagtaaataattataat Alignment from CESAR ---------------GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggcttggccagaccattgtccactcacccatagATCCACAAATCTAAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTGgtgagtaagtggtcacctattatttaccctgggtagtaaataattataat Alignment from Spaln_aa2Genome GTCCGCCGGGCCGGCCAGGGC------TCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggcttggccagaccattgtccactcacccatagATCCACAAATCTAAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTGgtgagtaagtggtcacctattatttaccctgggtagtaaataattataat Alignment from Spaln_nt2Genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggcttggccagaccattgtccactcacccatagatccacaaatctaaagCTGGCCAGGG-CTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTGgtgagtaagtggtcacctattatttaccctgggtagtaaataattataat Alignment from Pairagon CCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggcttggccagaccattgtccactcacccatagatccacaaatctaaagCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTGgtgagtaagtggtcacctattatttaccctgggtagtaaataattataat Alignment from Exonerate_protein2genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggcttggccagaccattgtccactcacccatagatccacaaatctaaaGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTGgtgagtaagtggtcacctattatttaccctgggtagtaaataattataat Alignment from Exonerate_coding2genome GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggcttggccagaccattgtccactcacccatagatccacaaatctaaaGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTGgtgagtaagtggtcacctattatttaccctgggtagtaaataattataat Alignment from GeneWise ---------------GCCGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAATGATCCCCTGGTGTGCCCACTGCCTGAGACGAAGAAAACAGTG agtaaagggggaggggaggcttggccagaccattgtccactcacccatagATCCACAAATCTAAAGCTGGCCAGGGCTCTCTGTTCTCCCTGGAAGCCACACTAGAGGAGCCACCTTGCAACGATCCCCTGGTGTGCCCACTTCCTGAAACAAAGAAAACTGTGgtgagtaagtggtcacctattatttaccctgggtagtaaataattataat #### Ctsf_ID679_7 --> 2 - 0 Original Alignment agGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAACCAG atgggtctggcttcaaatactcatctctagggcctgttcttttgttccagagGAGGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAATCCATAAATGAGCTTGCCCCGCCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTGAAG------gtaggaaatttcgtaactaggaattggaaggggtaactaggaattggaaa Alignment from CESAR agGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAGAACCAG atgggtctggcttcaaatactcatctctagggcctgttcttttgttccagagGAGGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAATCCATAAATGAGCTTGCCCCGCCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTGAAG------gtaggaaatttcgtaactaggaattggaaggggtaactaggaat Alignment from Spaln_aa2Genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG atgggtctggcttcaaatactcatctctagggcctgttcttttgttccagAGGAGGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAATCCATAAATGAGCTTGCCCCGCCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTGAAGgtaggaaatttcgtaactaggaattggaaggggtaactaggaattggaaa Alignment from Spaln_nt2Genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG atgggtctggcttcaaatactcatctctagggcctgttcttttgttccagAGGAGGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAATCCATAAATGAGCTTGCCCCGCCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTGAAGgtaggaaatttcgtaactaggaattggaaggggtaactaggaattggaaa Alignment from Pairagon AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG atgggtctggcttcaaatactcatctctagggcctgttcttttgttccagAGGAGGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAATCCATAAATGAGCTTGCCCCGCCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTGAAGgtaggaaatttcgtaactaggaattggaaggggtaactaggaattggaaa Alignment from Exonerate_protein2genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG atgggtctggcttcaaatactcatctctagggcctgttcttttgttccagAGGAGGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAATCCATAAATGAGCTTGCCCCGCCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTGAAGgtaggaaatttcgtaactaggaattggaaggggtaactaggaattggaaa Alignment from Exonerate_coding2genome AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG atgggtctggcttcaaatactcatctctagggcctgttcttttgttccagAGGAGGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAATCCATAAATGAGCTTGCCCCGCCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTGAAGgtaggaaatttcgtaactaggaattggaaggggtaactaggaattggaaa Alignment from GeneWise AGGAGGAATTCCACACCATCTACCTGAATCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAGTCCATAAATGATCTTGCCCCGCCTGAATGGGACTGGAGGAAGAAAGGGGCTGTCACTGAAGTGAAG atgggtctggcttcaaatactcatctctagggcctgttcttttgttccagAGGAGGAATTCCACACCATCTACCTGATTCCCCTCTTACAGAAGGAGTCTGGCAGGAAGATGAGTCCAGCCAAATCCATAAATGAGCTTGCCCCGCCTGAATGGGATTGGAGGCAGAAAGGGGCTGTCACTGAAGTGAAGgtaggaaatttcgtaactaggaattggaaggggtaactaggaattggaaa #### Ctsf_ID680_8 --> 0 - 1 Original Alignment GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg ctgcagagggccttaagagagagccctgtatcttgttatttggaaaacagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCA------ggtaagtataccggtcctgatccatccccctttcttcagaccaaccccttc Alignment from CESAR GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAGAGCAGg ctgcagagggccttaagagagagccctgtatcttgttatttggaaaacagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCA------ggtaagtataccggtcctgatccatccccctttcttcagaccaaccccttc Alignment from Spaln_aa2Genome GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAG ctgcagagggccttaagagagagccctgtatcttgttatttggaaaacagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGgtaagtataccggtcctgatccatccccctttcttcagaccaaccccttc Alignment from Spaln_nt2Genome GGCA---TGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAG ctgcagagggccttaagagagagccctgtatcttgttatttggaaaacagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGgtaagtataccggtcctgatccatccccctttcttcagaccaaccccttc Alignment from Pairagon GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAG ctgcagagggccttaagagagagccctgtatcttgttatttggaaaacagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGgtaagtataccggtcctgatccatccccctttcttcagaccaaccccttc Alignment from Exonerate_protein2genome GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAG ctgcagagggccttaagagagagccctgtatcttgttatttggaaaacagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGgtaagtataccggtcctgatccatccccctttcttcagaccaaccccttc Alignment from Exonerate_coding2genome GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCAG ctgcagagggccttaagagagagccctgtatcttgttatttggaaaacagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGgtaagtataccggtcctgatccatccccctttcttcagaccaaccccttc Alignment from GeneWise GGC---ATGTGTGGCTCCTGCTGGGCCTTTTCTGTCACAGGCAACGTGGAGGGCCAGTGGTTCCTGAACCGGGGGACTCTGCTCTCCCTGTCA- ctgcagagggccttaagagagagccctgtatcttgttatttggaaaacagGGCAGTATGTGTGGTTCCTGCTGGGCCTTTTCTGTCACTGGCAATGTGGAGGGCCAGTGGTTCCTGAACCGGGGAACTCTGCTATCCCTGTCAGgtaagtataccggtcctgatccatccccctttcttcagaccaaccccttc #### Ctsf_ID681_9 --> 2 - 1 Original Alignment ag---CTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGg cagaccaaccccttcagagggtcccttgggattttttaaatttatcacagagCTTCTCTTGGACTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGggtgagattgatctggtttggggaagcagcaagtaccacctaattgtagga Alignment from CESAR ag---CTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGg cagaccaaccccttcagagggtcccttgggattttttaaatttatcacagagCTTCTCTTGGACTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGggtgagattgatctggtttggggaagcagcaagtaccacctaattgtagga Alignment from Spaln_aa2Genome AG---CTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG cagaccaaccccttcagagggtcccttgggattttttaaatttatcacagAGCTTCTCTTGGACTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtgagattgatctggtttggggaagcagcaagtaccacctaattgtagga Alignment from Spaln_nt2Genome AGCT---CTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG cagaccaaccccttcagagggtcccttgggattttttaaatttatcacagAGCTTCTCTTGGACTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtgagattgatctggtttggggaagcagcaagtaccacctaattgtagga Alignment from Pairagon AG---CTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG cagaccaaccccttcagagggtcccttgggattttttaaatttatcacagAGCTTCTCTTGGACTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtgagattgatctggtttggggaagcagcaagtaccacctaattgtagga Alignment from Exonerate_protein2genome AG---CTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG cagaccaaccccttcagagggtcccttgggattttttaaatttatcacagAGCTTCTCTTGGACTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtgagattgatctggtttggggaagcagcaagtaccacctaattgtagga Alignment from Exonerate_coding2genome AG---CTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG cagaccaaccccttcagagggtcccttgggattttttaaatttatcacagAGCTTCTCTTGGACTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtgagattgatctggtttggggaagcagcaagtaccacctaattgtagga Alignment from GeneWise --GAGCTCTTGGATTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAACGCCTATGCAGCCATAAAGAATTTGG cagaccaaccccttcagagggtcccttgggattttttaaatttatcacagAGCTTCTCTTGGACTGTGACAAGGTGGACAAGGCCTGCTTGGGTGGATTGCCCTCCAATGCCTATGCAGCCATAAAGAATCTGGgtgagattgatctggtttggggaagcagcaagtaccacctaattgtagga #### Ctsf_ID682_10 --> 2 - 1 Original Alignment gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa aatttgagtagtaagtcatcaagccatcaaccccctgtcctcctgaaaagga------GAGACAGAGGATGACTACGGCTACCAGGGTCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAGAATGAAAATagtaggctggggtccctgtaggtgggtctgggttaatactgctgggctagg Alignment from CESAR gaGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATa tgggagaatttgagtagtaagtcatatcaaccccctgtcctcctgaaaagga------GAGACAGAGGATGACTACGGCTACCAGGGTCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAGAATGAAAATagtaggctggggtccctgtaggtgggtctgggttaatactgctgggctagg Alignment from Spaln_aa2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA aatttgagtagtaagtcatcaagccatcaaccccctgtcctcctgaaaagGA------GAGACAGAGGATGACTACGGCTACCAGGGTCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAGAATGAAAATAgtaggctggggtccctgtaggtgggtctgggttaatactgctgggctagg Alignment from Spaln_nt2Genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA aatttgagtagtaagtcatcaagccatcaaccccctgtcctcctgaaaagGA------GAGACAGAGGATGACTACGGCTACCAGGGTCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAGAATGAAAATAgtaggctggggtccctgtaggtgggtctgggttaatactgctgggctagg Alignment from Pairagon GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA aatttgagtagtaagtcatcaagccatcaaccccctgtcctcctgaaaagGA------GAGACAGAGGATGACTACGGCTACCAGGGTCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAGAATGAAAATAgtaggctggggtccctgtaggtgggtctgggttaatactgctgggctagg Alignment from Exonerate_protein2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA aatttgagtagtaagtcatcaagccatcaaccccctgtcctcctGAAAAGGAGAGACAGAGGATGACTACGGCTACCAGGGTCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAGAATGAAAATAgtaggctggggtccctgtaggtgggtctgggttaatactgctgggctagg Alignment from Exonerate_coding2genome GAGGGCTGGAGACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA aatttgagtagtaagtcatcaagccatcaaccccctgtcctcctGAAAAGGAGAGACAGAGGATGACTACGGCTACCAGGGTCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAGAATGAAAATAgtaggctggggtccctgtaggtgggtctgggttaatactgctgggctagg Alignment from GeneWise ACAGAGGATGACTACGGCTACCAGGGCCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGCCGGAATGAAAATA aatttgagtagtaagtcatcaagccatcaaccccctgtcctcctgaaaaggagagACAGAGGATGACTACGGCTACCAGGGTCATGTTCAGACCTGCAACTTCTCAGCACAGATGGCAAAAGTCTACATCAATGATTCAGTGGAGCTGAGTCAGAATGAAAATAgtaggctggggtccctgtaggtgggtctgggttaatactgctgggctagg #### Ctsf_ID684_12 --> 0 - 1 Original Alignment TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc ggcctctgtctttccgttcccgctggccatgtgggatttgtgtttggcag------------------------------CGGCCCCTCTGCAGCCCTTGGTTCATTGACCATGCAGTGTTGCTAGTAGGCTATGGCAACcgtactttctgttggcttcctgcttcccttccatctgcctcaggctccagt Alignment from CESAR TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACc accttgatccctctttttgacgctggccatgtgggatttgtgtttggcag------------------------------CGGCCCCTCTGCAGCCCTTGGTTCATTGACCATGCAGTGTTGCTAGTAGGCTATGGCAACcgtactttctgttggcttcctgcttcccttccatctgcctcaggctccagt Alignment from Spaln_aa2Genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC ggcctctgtctttccgttcccgctggccatgtgggatttgtgtttggcag------------------------------CGGCCCCTCTGCAGCCCTTGGTTCATTGACCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtactttctgttggcttcctgcttcccttccatctgcctcaggctccagt Alignment from Spaln_nt2Genome CGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC ggcctctgtctttccgttcccgctggccatgtgggatttgtgtttggcagCGGCCCCTCTGCAGCCCTTGGTTCATTGACCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtactttctgttggcttcctgcttcccttccatctgcctcaggctccagt Alignment from Pairagon TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC ggcctctgtctttccgttcccgctggccatgtgggatttgtgtttggcag------------------------------CGGCCCCTCTGCAGCCCTTGGTTCATTGACCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtactttctgttggcttcctgcttcccttccatctgcctcaggctccagt Alignment from Exonerate_protein2genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC ggcctctgtctttccgttccCGCTGGCCATGTGGGATTTGTGTTTGGCAGCGGCCCCTCTGCAGCCCTTGGTTCATTGACCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtactttctgttggcttcctgcttcccttccatctgcctcaggctccagt Alignment from Exonerate_coding2genome TTCTATCGCCACGGGATTGCTCACCCATTCCGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC ggcctctgtctttccgttccCGCTGGCCATGTGGGATTTGTGTTTGGCAGCGGCCCCTCTGCAGCCCTTGGTTCATTGACCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtactttctgttggcttcctgcttcccttccatctgcctcaggctccagt Alignment from GeneWise CGGCCCCTCTGCAGCCCTTGGTTCATCGACCATGCTGTGTTGCTGGTGGGCTATGGCAACC ggcctctgtctttccgttcccgctggccatgtgggatttgtgtttggcagCGGCCCCTCTGCAGCCCTTGGTTCATTGACCATGCAGTGTTGCTAGTAGGCTATGGCAACCgtactttctgttggcttcctgcttcccttccatctgcctcaggctccagt #### Ctsf_ID685_13 --> 2 - 0 Original Alignment gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- aacaggtgagtgagggtttctggctcatccctgttccatcttccccacaggcTCTAACATTCCTTACTGGGCGATCAAGAACAGCTGGGGCAGCGACTGGGGCGAGGAGGAGGATGAAgtaggttttgcccagtcaacctttcacccccctctggcccctcccctacc Alignment from CESAR gcTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- aacaggtgagtgagggtttctggctcatccctgttccatcttccccacaggcTCTAACATTCCTTACTGGGCGATCAAGAACAGCTGGGGCAGCGACTGGGGCGAGGAGGAGGATGAAgtaggttttgcccagtcaacctttcacccccctctggcccctcccctacc Alignment from Spaln_aa2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- aacaggtgagtgagggtttctggctcatccctgttccatcttccccacagGCTCTAACATTCCTTACTGGGCGATCAAGAACAGCTGGGGCAGCGACTGGGGCGAGGAGGAGGATGAAgtaggttttgcccagtcaacctttcacccccctctggcccctcccctacc Alignment from Spaln_nt2Genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- aacaggtgagtgagggtttctggctcatccctgttccatcttccccacagGCTCTAACATTCCTTACTGGGCGATCAAGAACAGCTGGGGCAGCGACTGGGGCGAGGAGGAGGATGAAgtaggttttgcccagtcaacctttcacccccctctggcccctcccctacc Alignment from Pairagon GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- aacaggtgagtgagggtttctggctcatccctgttccatcttccccacagGCTCTAACATTCCTTACTGGGCGATCAAGAACAGCTGGGGCAGCGACTGGGGCGAGGAGGAGGATGAAgtaggttttgcccagtcaacctttcacccccctctggcccctcccctacc Alignment from Exonerate_protein2genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG aacaggtgagtgagggtttctggctcatccctgttccatcttccccacagGCTCTAACATTCCTTACTGGGCGATCAAGAACAGCTGGGGCAGCGACTGGGGCGAGGAGgaggatgaagtaggttttgcccagtcaacctttcacccccctctggcccctcccctacc Alignment from Exonerate_coding2genome GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG aacaggtgagtgagggtttctggctcatccctgttccatcttccccacagGCTCTAACATTCCTTACTGGGCGATCAAGAACAGCTGGGGCAGCGACTGGGGCGAGGAGgaggatgaagtaggttttgcccagtcaacctttcacccccctctggcccctcccctacc Alignment from GeneWise GCTCTAACATTCCTTACTGGGCCATCAAGAACAGCTGGGGCAGTGACTGGGGTGAGGAG--------- aacaggtgagtgagggtttctggctcatccctgttccatcttccccacagGCTCTAACATTCCTTACTGGGCGATCAAGAACAGCTGGGGCAGCGACTGGGGCGAGGAGGAGGATGAAgtaggttttgcccagtcaacctttcacccccctctggcccctcccctacc #### Ctsw_ID1018_8 --> 2 - 0 Original Alignment caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG--- agtagtcttgacatggcaccttcaaggcaacctgggtcctttcattatagcaATTGCCCACTATCTGGCTGCACATGGACCCATCACCGTGACCATCAATATGAAACTACTTCAGGGGgtgagaacacagggcaaagtaaggtgacaaggagaggtgccctggagaag Alignment from CESAR caATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG--- agtagtcttgacatggcaccttcaaggcaacctgggtcctttcattatagcaATTGCCCACTATCTGGCTGCACATGGACCCATCACCGTGACCATCAATATGAAACTACTTCAGGGGgtgagaacacagggcaaagtaaggtgacaaggagaggtgccctggagaag Alignment from Spaln_aa2Genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG--- agtagtcttgacatggcaccttcaaggcaacctgggtcctttcattatagCAATTGCCCACTATCTGGCTGCACATGGACCCATCACCGTGACCATCAATATGAAACTACTTCAGGGGgtgagaacacagggcaaagtaaggtgacaaggagaggtgccctggagaag Alignment from Spaln_nt2Genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG--- agtagtcttgacatggcaccttcaaggcaacctgggtcctttcattatagCAATTGCCCACTATCTGGCTGCACATGGACCCATCACCGTGACCATCAATATGAAACTACTTCAGGGGgtgagaacacagggcaaagtaaggtgacaaggagaggtgccctggagaag Alignment from Pairagon CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG--- agtagtcttgacatggcaccttcaaggcaacctgggtcctttcattatagCAATTGCCCACTATCTGGCTGCACATGGACCCATCACCGTGACCATCAATATGAAACTACTTCAGGGGgtgagaacacagggcaaagtaaggtgacaaggagaggtgccctggagaag Alignment from Exonerate_protein2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaacctgggtcctttcattatagCAATTGCCCACTATCTGGCTGCACATGGACCCATCACCGTGACCATCAATATGAAACTACTTCAGggggtgagaacacagggcaaagtaaggtgacaaggagaggtgccctggagaag Alignment from Exonerate_coding2genome CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAG agtagtcttgacatggcaccttcaaggcaacctgggtcctttcattatagCAATTGCCCACTATCTGGCTGCACATGGACCCATCACCGTGACCATCAATATGAAACTACTTCAGggggtgagaacacagggcaaagtaaggtgacaaggagaggtgccctggagaag Alignment from GeneWise CAATTGCCCACTACCTGGCCGTGCATGGACCTATCACCGTGACCATCAACATGAAACTACTCCAGCAT agtagtcttgacatggcaccttcaaggcaacctgggtcctttcattatagCAATTGCCCACTATCTGGCTGCACATGGACCCATCACCGTGACCATCAATATGAAACTACTTCAGGGGgtgagaacacagggcaaagtaaggtgacaaggagaggtgccctggagaag #### Ctsw_ID1021_5 --> 0 - 1 Original Alignment GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAG------g ccagtttgggctaatccaacccagggtagtccatattttgttcactacagAGAAGTTGCAACCATTTCCCCGGCCCATGGATCGGTGTATGCTGCTGGGCCATGGCAGCTGCTGACAACATCCAGGCTCTGTGGTGCATCAAACACCAGCAGTTTGTGGATGTCTCTGTCCAGAATGTGggtaagtggggttggacatgtgtcaagccatggaacctgctcaccttgtga Alignment from CESAR GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAG------g ccagtttgggctaatccaacccagggtagtccatattttgttcactacagAGAAGTTGCAACCATTTCCCCGGCCCATGGATCGGTGTATGCTGCTGGGCCATGGCAGCTGCTGACAACATCCAGGCTCTGTGGTGCATCAAACACCAGCAGTTTGTGGATGTCTCTGTCCAGAATGTGggtaagtggggttggacatgtgtcaagccatggaacctgctcacctaatcc Alignment from Spaln_aa2Genome GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGGAG ccagtttgggctaatccaacccagggtagtccatattttgttcactacagAGAAGTTGCAACCATTTCCCCGGCCCATGGATCGGTGTATGCTGCTGGGCCATGGCAGCTGCTGACAACATCCAGGCTCTGTGGTGCATCAAACACCAGCAGTTTGTGGATGTCTCTGTCCAGAATgtgggtaagtggggttggacatgtgtcaagccatggaacctgctcaccttgtga Alignment from Spaln_nt2Genome GGAAGCTGCAA---------------------------ATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAG------G ccagtttgggctaatccaacccagggtagtccatattttgttcactacagAGAAGTTGCAACCATTTCCCCGGCCCATGGATCGGTGTATGCTGCTGGGCCATGGCAGCTGCTGACAACATCCAGGCTCTGTGGTGCATCAAACACCAGCAGTTTGTGGATGTCTCTGTCCAGAATGTGGgtaagtggggttggacatgtgtcaagccatggaacctgctcaccttgtga Alignment from Pairagon GGAAGCTGCAA---------------------------ATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAG--------------------------------------------------------- ccagtttgggctaatccaacccagggtagtccatattttgttcactacagAGAAGTTGCAACCATTTCCCCGGCCCATGGATCGGTGTATGCTGCTGGGCCATGGCAGCTGCTGACAACATCCAGGCTCTGTGGTGCATCAAACACCAGCAGTTTGTGGATGTCTCTGTCCAGAATGTGGGTAAGTGGGGTTGGACATGTGTCAAGCCATGGAACCTGCTCACCTTGTGA Alignment from Exonerate_protein2genome GAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGGAG ccagtttgggctaatccaacccagggtagtccatattttgttcactacagagaagttgcaaccatttccccggcccatGGATCGGTGTATGCTGCTGGGCCATGGCAGCTGCTGACAACATCCAGGCTCTGTGGTGCATCAAACACCAGCAGTTTGTGGATGTCTCTGTCCAGAATgtgggtaagtggggttggacatgtgtcaagccatggaacctgctcaccttgtga Alignment from Exonerate_coding2genome GAAGCTGCAAATGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGGAG ccagtttgggctaatccaacccagggtagtccatattttgttcactacagagaagttgcaaccatttccccggcccatGGATCGGTGTATGCTGCTGGGCCATGGCAGCTGCTGACAACATCCAGGCTCTGTGGTGCATCAAACACCAGCAGTTTGTGGATGTCTCTGTCCAGAATgtgggtaagtggggttggacatgtgtcaagccatggaacctgctcaccttgtga Alignment from GeneWise GGAAGCTGCAAA---------------------------TGCTGCTGGGCCATGGCAGCTGCCGACAACATCCAGGCTCTGTGGCGCATCAAACACCAGCAGTTTGTGGACGTCTCTGTGCAGGAG ccagtttgggctaatccaacccagggtagtccatattttgttcactacagAGAAGTTGCAACCATTTCCCCGGCCCATGGATCGGTGTATGCTGCTGGGCCATGGCAGCTGCTGACAACATCCAGGCTCTGTGGTGCATCAAACACCAGCAGTTTGTGGATGTCTCTGTCCAGAATgtgggtaagtggggttggacatgtgtcaagccatggaacctgctcaccttgtga #### Ctsw_ID1023_3 --> 2 - 1 Original Alignment agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACA---------------g ggccacttcctgcctcgagactgacctattttatgtccttttcttctcagagTACACTCGCCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACCCCATTCAGTGACCTCACCCTGTTCGTTTGGGTAggtatgtaagtgggtgattggcagatgtgcaagggaaatttcccaccggat Alignment from CESAR agTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACA---------------g ggccacttcctgcctcgagactgacctattttatgtccttttcttctcagagTACACTCGCCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACCCCATTCAGTGACCTCACCCTGTTCGTTTGGGTAggtatgtaagtgggtgattggcagatgtgcaagggaaatttcccaccggat Alignment from Spaln_aa2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGAGGAG ggccacttcctgcctcgagactgacctattttatgtccttttcttctcagAGTACACTCGCCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACCCCATTCAGTGACCTCACCCTGTTCgtttgggtaggtatgtaagtgggtgattggcagatgtgcaagggaaatttcccaccggat Alignment from Spaln_nt2Genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAG- ggccacttcctgcctcgagactgacctattttatgtccttttcttctcagAGTACACTCGCCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACCCCATTCAGTGACCTCACCCTgttcgtttgggtaggtatgtaagtgggtgattggcagatgtgcaagggaaatttcccaccggat Alignment from Pairagon AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCAC---------------AG ggccacttcctgcctcgagactgacctattttatgtccttttcttctcagAGTACACTCGCCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACCCCATTCAGTGACCTCACCCTGTTCGTTTGGGTAGgtatgtaagtgggtgattggcagatgtgcaagggaaatttcccaccggat Alignment from Exonerate_protein2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGAG ggccacttcctgcctcgagactgacctattttatgtccttttcttctcagAGTACACTCGCCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACCCCATTCAGTGACCTCACCCTGttcgtttgggtaggtatgtaagtgggtgattggcagatgtgcaagggaaatttcccaccggat Alignment from Exonerate_coding2genome AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGAG ggccacttcctgcctcgagactgacctattttatgtccttttcttctcagAGTACACTCGCCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACCCCATTCAGTGACCTCACCCTGttcgtttgggtaggtatgtaagtgggtgattggcagatgtgcaagggaaatttcccaccggat Alignment from GeneWise AGTACACTCGCCGTCTGAGCATCTTTGCCCACAATCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACTCCATTCAGTGACCTCACAGAGGAG ggccacttcctgcctcgagactgacctattttatgtccttttcttctcagAGTACACTCGCCGTCTGAGCATCTTTGCCCACAACCTGGCTCAGGCTCAAAGGCTACAGCAAGAAGACTTGGGTACAGCTGAGTTTGGAGAGACCCCATTCAGTGACCTCACCCTGTTCgtttgggtaggtatgtaagtgggtgattggcagatgtgcaagggaaatttcccaccggat #### Cyp26a1_ID7414_2 --> 0 - 0 Original Alignment CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGAAAGAAG agtccagccccggagctgagggggactcttgctttatctttcctccccagCGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCATCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGTATGATTCC---------------------gtaagtatcagcaggccacccaagaacgtaagagaagattgacttggccg Alignment from CESAR CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCG------CACAAGCAGCGAAAGAAG agtccagccccggagctgagggggactcttgctttatctttcctccccagCGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCATCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGTATGATTCCGTAAGTATCAGCAGGCCACCCAAGAACgtaagagaagattgacttggccg Alignment from Spaln_aa2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCG------CACAAGCAGCGAAAGAAG agtccagccccggagctgagggggactcttgctttatctttcctccccagCGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCATCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGTATGATTCCGTAAGTATCAGCAGGCCACCCAAGAACgtaagagaagattgacttggccg Alignment from Spaln_nt2Genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTC--GCACAAGCAG----CGAAAGAAG agtccagccccggagctgagggggactcttgctttatctttcctccccagCGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCATCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGTATGATTCCGTAAGTATCAGCAGGCCACCCAAGAACgtaagagaagattgacttggccg Alignment from Pairagon CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCC agtccagccccggagctgagggggactcttgctttatctttcctccccagCGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCATCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGTATGATTCCgtaagtatcagcaggccacccaagaacgtaagagaagattgacttggccg Alignment from Exonerate_protein2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGA------AAGAAG agtccagccccggagctgagggggactcttgctttatctttcctccccagCGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCATCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGTATGATTCCGTAAGTATCAGCAGGCCACCCAAGAACgtaagagaagattgacttggccg Alignment from Exonerate_coding2genome CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGA------AAGAAG agtccagccccggagctgagggggactcttgctttatctttcctccccagCGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCATCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGTATGATTCCGTAAGTATCAGCAGGCCACCCAAGAACgtaagagaagattgacttggccg Alignment from GeneWise CGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATACGGCTTCATCTACAAGACGCATCTGTTTGGGCGGCCCACGGTGCGGGTGATGGGCGCGGATAATGTGCGGCGCATCTTGCTGGGAGAGCACCGGTTGGTGTCGGTGCACTGGCCCGCGTCGGTGCGCACCATCCTGGGCGCTGGCTGCCTCTCCAACCTGCACGATTCCTCGCACAAGCAGCGA------AAGAAG agtccagccccggagctgagggggactcttgctttatctttcctccccagCGGAGGAAGTTTCTGCAGATGAAGCGCAGGAAATATGGCTTCATTTACAAGACACATCTGTTTGGGCGGCCCACAGTGCGGGTGATGGGTGCAGATAATGTTCGTCGTATTTTGCTGGGGGAGCACCGGTTGGTGTCGGTGCACTGGCCTGCATCAGTGCGCACCATCCTGGGTGCTGGCTGCCTCTCCAACCTGTATGATTCCGTAAGTATCAGCAGGCCACCCAAGAACgtaagagaagattgacttggccg #### Cyp26a1_ID7415_3 --> 0 - 0 Original Alignment ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG ggggctgaatgaaggaaaggattgtaactggggtttgttttttgtttcagACAGTTATTATGCAGGCATTCAGCCGTGAGGCACTTCAGTGTTACGTTCCTGTGATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGCGAACGTGGCCTCCTGGTCTACCCTGAGGTGAAGCGCCTCATGTTCCGCATTGCCATGCGCATCCTGCTAGGCTGTGAGCCGGGCCCAGCGGGCAGCGGGGAGGATGAGCAGCAGCTTGTGGAGGCTTTCGAGGAAATGACCCGCAATCTCTTCTCTCTTCCCATTGATGTCCCATTTAGCGGTTTGTACCGGgtgagcgtggtttggggagctagagtctgcacaggcaaaggcagtccact Alignment from CESAR ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG ggggctgaatgaaggaaaggattgtaactggggtttgttttttgtttcagACAGTTATTATGCAGGCATTCAGCCGTGAGGCACTTCAGTGTTACGTTCCTGTGATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGCGAACGTGGCCTCCTGGTCTACCCTGAGGTGAAGCGCCTCATGTTCCGCATTGCCATGCGCATCCTGCTAGGCTGTGAGCCGGGCCCAGCGGGCAGCGGGGAGGATGAGCAGCAGCTTGTGGAGGCTTTCGAGGAAATGACCCGCAATCTCTTCTCTCTTCCCATTGATGTCCCATTTAGCGGTTTGTACCGGgtgagcgtggtttggggagctagagtctgcacaggcaaaggcagtccact Alignment from Spaln_aa2Genome GTGATTATGCAGGCC---TTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG ggggctgaatgaaggaaaggattgtaactggggtttgttttttgtttcagACAGTTATTATGCAGGCATTCAGCCGTGAGGCACTTCAGTGTTACGTTCCTGTGATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGCGAACGTGGCCTCCTGGTCTACCCTGAGGTGAAGCGCCTCATGTTCCGCATTGCCATGCGCATCCTGCTAGGCTGTGAGCCGGGCCCAGCGGGCAGCGGGGAGGATGAGCAGCAGCTTGTGGAGGCTTTCGAGGAAATGACCCGCAATCTCTTCTCTCTTCCCATTGATGTCCCATTTAGCGGTTTGTACCGGgtgagcgtggtttggggagctagagtctgcacaggcaaaggcagtccact Alignment from Spaln_nt2Genome GTGATTATGCAGG---CCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG ggggctgaatgaaggaaaggattgtaactggggtttgttttttgtttcagACAGTTATTATGCAGGCATTCAGCCGTGAGGCACTTCAGTGTTACGTTCCTGTGATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGCGAACGTGGCCTCCTGGTCTACCCTGAGGTGAAGCGCCTCATGTTCCGCATTGCCATGCGCATCCTGCTAGGCTGTGAGCCGGGCCCAGCGGGCAGCGGGGAGGATGAGCAGCAGCTTGTGGAGGCTTTCGAGGAAATGACCCGCAATCTCTTCTCTCTTCCCATTGATGTCCCATTTAGCGGTTTGTACCGGgtgagcgtggtttggggagctagagtctgcacaggcaaaggcagtccact Alignment from Pairagon ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG ggggctgaatgaaggaaaggattgtaactggggtttgttttttgtttcagACAGTTATTATGCAGGCATTCAGCCGTGAGGCACTTCAGTGTTACGTTCCTGTGATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGCGAACGTGGCCTCCTGGTCTACCCTGAGGTGAAGCGCCTCATGTTCCGCATTGCCATGCGCATCCTGCTAGGCTGTGAGCCGGGCCCAGCGGGCAGCGGGGAGGATGAGCAGCAGCTTGTGGAGGCTTTCGAGGAAATGACCCGCAATCTCTTCTCTCTTCCCATTGATGTCCCATTTAGCGGTTTGTACCGGgtgagcgtggtttggggagctagagtctgcacaggcaaaggcagtccact Alignment from Exonerate_protein2genome ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG ggggctgaatgaaggaaaggattgtaactggggtttgttttttgtttcagACAGTTATTATGCAGGCATTCAGCCGTGAGGCACTTCAGTGTTACGTTCCTGTGATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGCGAACGTGGCCTCCTGGTCTACCCTGAGGTGAAGCGCCTCATGTTCCGCATTGCCATGCGCATCCTGCTAGGCTGTGAGCCGGGCCCAGCGGGCAGCGGGGAGGATGAGCAGCAGCTTGTGGAGGCTTTCGAGGAAATGACCCGCAATCTCTTCTCTCTTCCCATTGATGTCCCATTTAGCGGTTTGTACCGGgtgagcgtggtttggggagctagagtctgcacaggcaaaggcagtccact Alignment from Exonerate_coding2genome ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG ggggctgaatgaaggaaaggattgtaactggggtttgttttttgtttcagACAGTTATTATGCAGGCATTCAGCCGTGAGGCACTTCAGTGTTACGTTCCTGTGATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGCGAACGTGGCCTCCTGGTCTACCCTGAGGTGAAGCGCCTCATGTTCCGCATTGCCATGCGCATCCTGCTAGGCTGTGAGCCGGGCCCAGCGGGCAGCGGGGAGGATGAGCAGCAGCTTGTGGAGGCTTTCGAGGAAATGACCCGCAATCTCTTCTCTCTTCCCATTGATGTCCCATTTAGCGGTTTGTACCGGgtgagcgtggtttggggagctagagtctgcacaggcaaaggcagtccact Alignment from GeneWise ---GTGATTATGCAGGCCTTCAGCCGCGAGGCACTCCAGTGCTACGTGCCCGTGATCGCTGAGGAAGTCAGCAGTTGTCTGGAGCAGTGGCTAAGCTGCGGCGAGCGCGGCCTCCTGGTCTACCCCGAGGTGAAGCGCCTCATGTTCCGCATCGCCATGCGCATCCTGCTGGGCTGCGAGCCGGGTCCAGCGGGCGGCGGGGAGGACGAGCAGCAGCTCGTGGAGGCTTTCGAGGAGATGACCCGCAATCTCTTCTCTCTTCCCATTGACGTGCCCTTTAGCGGCCTGTACCGG ggggctgaatgaaggaaaggattgtaactggggtttgttttttgtttcagACAGTTATTATGCAGGCATTCAGCCGTGAGGCACTTCAGTGTTACGTTCCTGTGATTGCTGAGGAAGTCAGCAGTTGTTTGGAGCAGTGGCTATGCTGTGGCGAACGTGGCCTCCTGGTCTACCCTGAGGTGAAGCGCCTCATGTTCCGCATTGCCATGCGCATCCTGCTAGGCTGTGAGCCGGGCCCAGCGGGCAGCGGGGAGGATGAGCAGCAGCTTGTGGAGGCTTTCGAGGAAATGACCCGCAATCTCTTCTCTCTTCCCATTGATGTCCCATTTAGCGGTTTGTACCGGgtgagcgtggtttggggagctagagtctgcacaggcaaaggcagtccact #### Cyp26a1_ID7418_6 --> 0 - 0 Original Alignment GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacacagggatcccatcactccgttcccacattgcatacacagGGCTTACTTTGCAAGAGCAATCAGGACAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGGG------gtgtggcgaagagcactccttgtccaccacacccagcccttgctctcgtc Alignment from CESAR GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacacagggatcccatcactccgttcccacattgcatacacagGGCTTACTTTGCAAGAGCAATCAGGACAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGGG------gtgtggcgaagagcactccttgtccaccacacccagcccttgct Alignment from Spaln_aa2Genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAG tttggagtacacagggatcccatcactccgttcccacattgcatacacagGGCTTACTTTGCAAGAGCAATCAGGACAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGGGgtgtggcgaagagcactccttgtccaccacacccagcccttgctctcgtc Alignment from Spaln_nt2Genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAA tttggagtacacagggatcccatcactccgttcccacattgcatacacagGGCTTACTTTGCAAGAGCAATCAGGACAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGGGGTGTGgcgaagagcactccttgtccaccacacccagcccttgctctcgtc Alignment from Pairagon GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAG tttggagtacacagggatcccatcactccgttcccacattgcatacacagGGCTTACTTTGCAAGAGCAATCAGGACAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGGGgtgtggcgaagagcactccttgtccaccacacccagcccttgctctcgtc Alignment from Exonerate_protein2genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacacagggatcccatcactccgttcccacattgcatacacagGGCTTACTTTGCAAGAGCAATCAGGACAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGGGGTGTGGcgaagagcactccttgtccaccacacccagcccttgctctcgtc Alignment from Exonerate_coding2genome GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAAT tttggagtacacagggatcccatcactccgttcccacattgcatacacagGGCTTACTTTGCAAGAGCAATCAGGACAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGGGGTGTGGcgaagagcactccttgtccaccacacccagcccttgctctcgtc Alignment from GeneWise GGCTTACTTTGCAAGAGCAATCAAGACAACAAGTTAGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCGGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAGCTGAATGGA tttggagtacacagggatcccatcactccgttcccacattgcatacacagGGCTTACTTTGCAAGAGCAATCAGGACAACAAGTTGGACATGGAAACTTTGGAACAGCTTAAATACACTGGGTGTGTCATTAAGGAGACCCTGCGATTGAATCCTCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTT---------GGGgtgtggcgaagagcactccttgtccaccacacccagcccttgctctcgtc #### Cyp2c37_ID7840_3 --> 2 - 1 Original Alignment gcCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT---g ttcttttgtccctaggaggtactctatagctgacggacttcttttttaaggcCTTACATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCATGCCTTTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCGCATTGCCTTGTGGAGGAACTTAGGAAAACCAATGAAggcaagtgtaggtttagaacctaatccagttatggcaatatcagtgatttt Alignment from CESAR gcCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT---------g ttcttttgtccctaggaggtactctatagctgacggacttcttttttaaggcCTTACATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCATGCCTTTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCGCATTGCCTTGTGGAGGAACTTAGGAAAACCAATGAAGGCAAGtgtaggtttagaacctaatccagttatggcaatatcagtgatttt Alignment from Spaln_aa2Genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT---G ttcttttgtccctaggaggtactctatagctgacggacttcttttttaagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCATGCCTTTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCGCATTGCCTTGTGGAGGAACTTAGGAAAACCAATGAAGgcaagtgtaggtttagaacctaatccagttatggcaatatcagtgatttt Alignment from Spaln_nt2Genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG--- ttcttttgtccctaggaggtactctatagctgacggacttcttttttaagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCATGCCTTTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCGCATTGCCTTGTGGAGGAACTTAGGAAAACCAATGAAGgcaagtgtaggtttagaacctaatccagttatggcaatatcagtgatttt Alignment from Pairagon GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAATG--------- ttcttttgtccctaggaggtactctatagctgacggacttcttttttaagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCATGCCTTTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCGCATTGCCTTGTGGAGGAACTTAGGAAAACCAATGAAGGCAAGTgtaggtttagaacctaatccagttatggcaatatcagtgatttt Alignment from Exonerate_protein2genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT---G ttcttttgtccctaggaggtactctatagctgacggacttcttttttaagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCATGCCTTTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCGCATTGCCTTGTGGAGGAACTTAGGAAAACCAATGAAGgcaagtgtaggtttagaacctaatccagttatggcaatatcagtgatttt Alignment from Exonerate_coding2genome GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT---G ttcttttgtccctaggaggtactctatagctgacggacttcttttttaagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCATGCCTTTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCGCATTGCCTTGTGGAGGAACTTAGGAAAACCAATGAAGgcaagtgtaggtttagaacctaatccagttatggcaatatcagtgatttt Alignment from GeneWise GCCTTGCATTTAGTAAAGGAAATGTATGGAAAAACACGAGGCGTTTCTCACTCATGACGCTGCGGAATTTAGGCATGGGAAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCACGTTGCCTTGTGGAGGAACTTAGGAAAACCAAT---------G ttcttttgtccctaggaggtactctatagctgacggacttcttttttaagGCCTTACATTTAGTAAAGGAAATGTATGGAAAAACACAAGGCGCTTCTCACTCATGCCTTTGCGGAATTTAGGTATGGGGAAAAGGAGCATTGAGGACCGCGTTCAAGAGGAAGCGCATTGCCTTGTGGAGGAACTTAGGAAAACCAATGAAGGCAAGTgtaggtttagaacctaatccagttatggcaatatcagtgatttt #### Cyp2c50_ID7861_2 --> 0 - 1 Original Alignment ---TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgaaaatgcagttaaatcttcctaatatgacgttactttaaactttacagGGTTTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTAGGCAGGAAGCCTACTGTGGTGTTGCATGGATACGAGGCAGTGAAGGAAGCTTTAGTTGACCATGGGGAGGAATTTGCTGGAAGAGGAAGGCTACCAGTTTTTGATAAAGCTACTAATGGGATGggtagatatacttgcagtgcagagtagcctagtgagcgacagaaaagattg Alignment from CESAR ---TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGg tgaaaatgcagttaaatcttcctaatatgacgttactttaaactttacagGGTTTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTAGGCAGGAAGCCTACTGTGGTGTTGCATGGATACGAGGCAGTGAAGGAAGCTTTAGTTGACCATGGGGAGGAATTTGCTGGAAGAGGAAGGCTACCAGTTTTTGATAAAGCTACTAATGGGATGggtagatatacttgcagtgcagagtagcctagtgagcgacagaaaagattg Alignment from Spaln_aa2Genome TTATCAAAAGTT---TATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgaaaatgcagttaaatcttcctaatatgacgttactttaaactttacagGGTTTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTAGGCAGGAAGCCTACTGTGGTGTTGCATGGATACGAGGCAGTGAAGGAAGCTTTAGTTGACCATGGGGAGGAATTTGCTGGAAGAGGAAGGCTACCAGTTTTTGATAAAGCTACTAATGGGATGGgtagatatacttgcagtgcagagtagcctagtgagcgacagaaaagattg Alignment from Spaln_nt2Genome TTTATCAAAA--GTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgaaaatgcagttaaatcttcctaatatgacgttactttaaactttacagGGTTTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTAGGCAGGAAGCCTACTGTGGTGTTGCATGGATACGAGGCAGTGAAGGAAGCTTTAGTTGACCATGGGGAGGAATTTGCTGGAAGAGGAAGGCTACCAGTTTTTGATAAAGCTACTAATGGGATGGgtagatatacttgcagtgcagagtagcctagtgagcgacagaaaagattg Alignment from Pairagon ---TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgaaaatgcagttaaatcttcctaatatgacgttactttaaactttacagGGTTTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTAGGCAGGAAGCCTACTGTGGTGTTGCATGGATACGAGGCAGTGAAGGAAGCTTTAGTTGACCATGGGGAGGAATTTGCTGGAAGAGGAAGGCTACCAGTTTTTGATAAAGCTACTAATGGGATGGgtagatatacttgcagtgcagagtagcctagtgagcgacagaaaagattg Alignment from Exonerate_protein2genome ---TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgaaaatgcagttaaatcttcctaatatgacgttactttaaactttacagGGTTTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTAGGCAGGAAGCCTACTGTGGTGTTGCATGGATACGAGGCAGTGAAGGAAGCTTTAGTTGACCATGGGGAGGAATTTGCTGGAAGAGGAAGGCTACCAGTTTTTGATAAAGCTACTAATGGGATGGgtagatatacttgcagtgcagagtagcctagtgagcgacagaaaagattg Alignment from Exonerate_coding2genome ---TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgaaaatgcagttaaatcttcctaatatgacgttactttaaactttacagGGTTTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTAGGCAGGAAGCCTACTGTGGTGTTGCATGGATACGAGGCAGTGAAGGAAGCTTTAGTTGACCATGGGGAGGAATTTGCTGGAAGAGGAAGGCTACCAGTTTTTGATAAAGCTACTAATGGGATGGgtagatatacttgcagtgcagagtagcctagtgagcgacagaaaagattg Alignment from GeneWise ---TTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTGGGCAGGAAGCCCACTGTGGTGTTGCATGGATATGAGGCAGTGAAGGAAGCTCTGGTTGACCATGGGGAGGAGTTTGCTGGAAGAGGAAGGCTCCCAGTTTTTGATAAAGCTACTAATGGAATGG tgaaaatgcagttaaatcttcctaatatgacgttactttaaactttacagGGTTTATCAAAAGTTTATGGCCCTGTGTATACTCTATATTTAGGCAGGAAGCCTACTGTGGTGTTGCATGGATACGAGGCAGTGAAGGAAGCTTTAGTTGACCATGGGGAGGAATTTGCTGGAAGAGGAAGGCTACCAGTTTTTGATAAAGCTACTAATGGGATGGgtagatatacttgcagtgcagagtagcctagtgagcgacagaaaagattg #### D19Ertd737e_ID13192_2 --> 0 - 1 Original Alignment AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg gagttacactcacacacacacaatgattctgttggcatttttccctacag------CAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACACCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAggtaacaattcttaaatctaaattagaatgttagctaggctgactcctaag Alignment from CESAR AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAg tatcttgagttacactcacacacacattctgttggcatttttccctacag------CAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACACCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAggtaacaattcttaaatctaaattagaatgttagctaggctgactcctaag Alignment from Spaln_aa2Genome AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG gagttacactcacacacacacaatgattctgttggcatttttccctacag------CAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACACCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGgtaacaattcttaaatctaaattagaatgttagctaggctgactcctaag Alignment from Spaln_nt2Genome CAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG gagttacactcacacacacacaatgattctgttggcatttttccctacagCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACACCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGgtaacaattcttaaatctaaattagaatgttagctaggctgactcctaag Alignment from Pairagon AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG gagttacactcacacacacacaatgattctgttggcatttttccctacag------CAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACACCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGgtaacaattcttaaatctaaattagaatgttagctaggctgactcctaag Alignment from Exonerate_protein2genome CAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG gagttacactcacacacacacaatgattctgttggcatttttccctacagCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACACCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGgtaacaattcttaaatctaaattagaatgttagctaggctgactcctaag Alignment from Exonerate_coding2genome CAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG gagttacactcacacacacacaatgattctgttggcatttttccctacagCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACACCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGgtaacaattcttaaatctaaattagaatgttagctaggctgactcctaag Alignment from GeneWise AAATTTCAAGAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACGCCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAG gagttacactcacacacacacaatgattctgttggcatttttccctacagCAA------GAATTGCATAAAAAAAATTCTGAACAGAAAAATTCAACACCAAGATTCAGACAGAAAAAAAGAAAACGCTCCAAAAAAGgtaacaattcttaaatctaaattagaatgttagctaggctgactcctaag #### Dagla_ID2759_11 --> 0 - 0 Original Alignment GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG------------------------------ ttgtatgctctctttggactccctcttataaaagtttacatatattgcagGATGCCCTGACTGACCTGACAGGTGATGCTGAGCGCCTTCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGCGAAACCCCTATAGCGGCAGTACATTCCTGgtaaggagctcaatgcactgaggttcccccaccttgtcctcatctctgac Alignment from CESAR GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttgtatgctctctttggactccctcttataaaagtttacatatattgcagGATGCCCTGACTGACCTGACAGGTGATGCTGAGCGCCTTCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGcgaaacccctatagcggcagtacattcctggtaaggagctcaatgcactgaggttcccccaccttgtcctcatctctgac Alignment from Spaln_aa2Genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGGGCATGGTACTCTCAG ttgtatgctctctttggactccctcttataaaagtttacatatattgcagGATGCCCTGACTGACCTGACAGGTGATGCTGAGCGCCTTCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGCGAAACCCCTATAGCGgcagtacattcctggtaaggagctcaatgcactgaggttcccccaccttgtcctcatctctgac Alignment from Spaln_nt2Genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAA ttgtatgctctctttggactccctcttataaaagtttacatatattgcagGATGCCCTGACTGACCTGACAGGTGATGCTGAGCGCCTTCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAgcgaaacccctatagcggcagtacattcctggtaaggagctcaatgcactgaggttcccccaccttgtcctcatctctgac Alignment from Pairagon GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG------------------------------ ttgtatgctctctttggactccctcttataaaagtttacatatattgcagGATGCCCTGACTGACCTGACAGGTGATGCTGAGCGCCTTCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGCGAAACCCCTATAGCGGCAGTACATTCCTGgtaaggagctcaatgcactgaggttcccccaccttgtcctcatctctgac Alignment from Exonerate_protein2genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttgtatgctctctttggactccctcttataaaagtttacatatattgcagGATGCCCTGACTGACCTGACAGGTGATGCTGAGCGCCTTCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGcgaaacccctatagcggcagtacattcctggtaaggagctcaatgcactgaggttcccccaccttgtcctcatctctgac Alignment from Exonerate_coding2genome GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAG ttgtatgctctctttggactccctcttataaaagtttacatatattgcagGATGCCCTGACTGACCTGACAGGTGATGCTGAGCGCCTTCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGcgaaacccctatagcggcagtacattcctggtaaggagctcaatgcactgaggttcccccaccttgtcctcatctctgac Alignment from GeneWise GATGCCCTGACTGACCTGACAGGCGATGCTGAGCGCCTCCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGGGCATGGTACTCTCAGCT- ttgtatgctctctttggactccctcttataaaagtttacatatattgcagGATGCCCTGACTGACCTGACAGGTGATGCTGAGCGCCTTCCTGTGGAGGGACACAGAGGCACCTGGTTGGGCCACAAGCGAAACCCCTATAGCGGCAgtacattcctggtaaggagctcaatgcactgaggttcccccaccttgtcctcatctctgac #### Dak_ID2900_13 --> 2 - 0 Original Alignment cc------ATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG caaagtggcttgtagctcggatagtccaacctgaggcctctcccttacagccGATATCATTCAGGGGTGGCTGAAGGAAGGCCCATCTCTAACCAGCCCCGCCCAGGTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaggaggagcagttcttaagggacaacttgatggggagggttgcaagc Alignment from CESAR cc------ATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG caaagtggcttgtagctcggatagtccaacctgaggcctctcccttacagccGATATCATTCAGGGGTGGCTGAAGGAAGGCCCATCTCTAACCAGCCCCGCCCAGGTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaggaggagcagttcttaagggacaacttgatggggagggttgcaagc Alignment from Spaln_aa2Genome CC------ATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG caaagtggcttgtagctcggatagtccaacctgaggcctctcccttacagCCGATATCATTCAGGGGTGGCTGAAGGAAGGCCCATCTCTAACCAGCCCCGCCCAGGTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaggaggagcagttcttaagggacaacttgatggggagggttgcaagc Alignment from Spaln_nt2Genome CCATTCAGGG------CTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG caaagtggcttgtagctcggatagtccaacctgaggcctctcccttacagCCGATATCATTCAGGGGTGGCTGAAGGAAGGCCCATCTCTAACCAGCCCCGCCCAGGTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaggaggagcagttcttaagggacaacttgatggggagggttgcaagc Alignment from Pairagon C------CATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG caaagtggcttgtagctcggatagtccaacctgaggcctctcccttacagCCGATATCATTCAGGGGTGGCTGAAGGAAGGCCCATCTCTAACCAGCCCCGCCCAGGTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaggaggagcagttcttaagggacaacttgatggggagggttgcaagc Alignment from Exonerate_protein2genome CC------ATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG caaagtggcttgtagctcggatagtccaacctgaggcctctcccttacagCCGATATCATTCAGGGGTGGCTGAAGGAAGGCCCATCTCTAACCAGCCCCGCCCAGGTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaggaggagcagttcttaagggacaacttgatggggagggttgcaagc Alignment from Exonerate_coding2genome CCAAAGCCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG caaagtggcttgtagctcggatagtccaacctgaggcctctcccttacagCCGATATCATTCAGGGGTGGCTGAAGGAAGGCCCATCTCTAACCAGCCCCGCCCAGGTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaggaggagcagttcttaagggacaacttgatggggagggttgcaagc Alignment from GeneWise -----GCCATTCAGGGCTGGCTAAAGGAAGGCCCATCTCTAACCAGCCCTGCCCAGGTACTCTCCAGATTGTCTGTCCTGCTGCTGGAGAGGATGGGAGGCTCATCTGGGGCG caaagtggcttgtagctcggatagtccaacctgaggcctctcccttacagCCGATATCATTCAGGGGTGGCTGAAGGAAGGCCCATCTCTAACCAGCCCCGCCCAGGTACTCTCCAGATTGCCTGTCCTGCTGCTGGAGAGGATGGGAGCTTCATCTGGGGCAgtaaggaggagcagttcttaagggacaacttgatggggagggttgcaagc #### Dak_ID2907_6 --> 2 - 1 Original Alignment gtACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg ccaccacccacaaaattaccatccctccccacctgtctgtgcatctccaggt---CTAGGCGTGAGCTTGTCATCGTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGggtaagtccacagtcacgatgcccctgctgcgactgttttagggtgcctag Alignment from CESAR gtACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGg ctgccaccacccacaaaattaccattccccacctgtctgtgcatctccaggt---CTAGGCGTGAGCTTGTCATCGTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGggtaagtccacagtcacgatgcccctgctgcgactgttttagggtgcctag Alignment from Spaln_aa2Genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccaccacccacaaaattaccatccctccccacctgtctgtgcatctccagGT---CTAGGCGTGAGCTTGTCATCGTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagtccacagtcacgatgcccctgctgcgactgttttagggtgcctag Alignment from Spaln_nt2Genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccaccacccacaaaattaccatccctccccacctgtctgtgcatctccagGT---CTAGGCGTGAGCTTGTCATCGTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagtccacagtcacgatgcccctgctgcgactgttttagggtgcctag Alignment from Pairagon GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccaccacccacaaaattaccatccctccccacctgtctgtgcatctccagGT---CTAGGCGTGAGCTTGTCATCGTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagtccacagtcacgatgcccctgctgcgactgttttagggtgcctag Alignment from Exonerate_protein2genome CCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccaccacccacaaaattaccatccctccccacctgtctgtgcatctccagGTCTAGGCGTGAGCTTGTCATCGTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagtccacagtcacgatgcccctgctgcgactgttttagggtgcctag Alignment from Exonerate_coding2genome GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccaccacccacaaaattaccatccctccccacctgtctgtgcatctccagG---TCTAGGCGTGAGCTTGTCATCGTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagtccacagtcacgatgcccctgctgcgactgttttagggtgcctag Alignment from GeneWise GTACCCTAGGGGTGAGCTTGTCATCCTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGCTAGGCCTGG ccaccacccacaaaattaccatccctccccacctgtctgtgcatctccagGT---CTAGGCGTGAGCTTGTCATCGTGCAGTGTCCCTGGCGCCACACACACCTTTGAGCTTGCAGCTGATGAAATAGAGTTAGGCCTGGgtaagtccacagtcacgatgcccctgctgcgactgttttagggtgcctag #### Ddb1_ID2929_14 --> 1 - 1 Original Alignment c---CACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg tccctggatttattcctgctatatatgttgagcattctgttcctttgcagcTTTCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTATTACACAAGGAGATGCTGGGTGGAggtaaggctactagtacttcaggttaaagctccagtgaggagttttgaatc Alignment from CESAR c---CACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAg tccctggatttattcctgctatatatgttgagcattctgttcctttgcagcTTTCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTATTACACAAGGAGATGCTGGGTGGAggtaaggctactagtacttcaggttaaagctccagtgaggtttgtccgttt Alignment from Spaln_aa2Genome C---CACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGA tccctggatttattcctgctatatatgttgagcattctgttcctttgcagCTTTCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTATTACACAAGGAGATGCTGGGTGGAGgtaaggctactagtacttcaggttaaagctccagtgaggagttttgaatc Alignment from Spaln_nt2Genome CCACACAGAG---ATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tccctggatttattcctgctatatatgttgagcattctgttcctttgcagCTTTCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTATTACACAAGGAGATGCTGGGTGGAGgtaaggctactagtacttcaggttaaagctccagtgaggagttttgaatc Alignment from Pairagon C---CACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tccctggatttattcctgctatatatgttgagcattctgttcctttgcagCTTTCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTATTACACAAGGAGATGCTGGGTGGAGgtaaggctactagtacttcaggttaaagctccagtgaggagttttgaatc Alignment from Exonerate_protein2genome C---CACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tccctggatttattcctgctatatatgttgagcattctgttcctttgcagCTTTCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTATTACACAAGGAGATGCTGGGTGGAGgtaaggctactagtacttcaggttaaagctccagtgaggagttttgaatc Alignment from Exonerate_coding2genome C---CACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tccctggatttattcctgctatatatgttgagcattctgttcctttgcagCTTTCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTATTACACAAGGAGATGCTGGGTGGAGgtaaggctactagtacttcaggttaaagctccagtgaggagttttgaatc Alignment from GeneWise -AGCCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCACTTTGTGCCATTGGACTTTGGACAGACATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTACTACACAAGGAGATGCTGGGTGGAG tccctggatttattcctgctatatatgttgagcattctgttcctttgcagCTTTCACACAGAGATGGAACATGAAGTGGCATGCTTGGATATCACCCCATTAGGGGACAGCAATGGCCTCTCCCCGCTTTGTGCCATTGGACTTTGGACAGATATCTCAGCTCGTATCCTGAAGCTCCCATCCTTTGAACTATTACACAAGGAGATGCTGGGTGGAGgtaaggctactagtacttcaggttaaagctccagtgaggagttttgaatc #### Ddb1_ID2930_15 --> 2 - 1 Original Alignment agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg agtacttcaggttaaagctccagtgaggtttgtccgtttttaatccccagagATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAAT---------ggtgagccaaggatagtggaacattgagtgtgggttttttcagaaataggg Alignment from CESAR agATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAg agtacttcaggttaaagctccagtgaggtttgtccgtttttaatccccagagATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAAT---------ggtgagccaaggatagtggaacattgagtgtgggttttttcagaaataggg Alignment from Spaln_aa2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAAC- agtacttcaggttaaagctccagtgaggtttgtccgtttttaatccccagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATGgtgagccaaggatagtggaacattgagtgtgggttttttcagaaataggg Alignment from Spaln_nt2Genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG agtacttcaggttaaagctccagtgaggtttgtccgtttttaatccccagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAA---------TGgtgagccaaggatagtggaacattgagtgtgggttttttcagaaataggg Alignment from Pairagon AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG agtacttcaggttaaagctccagtgaggtttgtccgtttttaatccccagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAAT---------Ggtgagccaaggatagtggaacattgagtgtgggttttttcagaaataggg Alignment from Exonerate_protein2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG agtacttcaggttaaagctccagtgaggtttgtccgtttttaatccccagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATGGTGAGCCAAggatagtggaacattgagtgtgggttttttcagaaataggg Alignment from Exonerate_coding2genome AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACATCGAGACAG agtacttcaggttaaagctccagtgaggtttgtccgtttttaatccccagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATGGTGAGCCAAggatagtggaacattgagtgtgggttttttcagaaataggg Alignment from GeneWise AGATCATTCCTCGATCCATCCTGATGACCACTTTTGAGAGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTTGGGCTCAACA agtacttcaggttaaagctccagtgaggtttgtccgtttttaatccccagAGATCATTCCTCGATCCATACTGATGACCACTTTTGAAGGTAGCCACTACCTCCTTTGTGCCTTGGGAGATGGGGCTCTTTTCTACTTCGGGCTCAATGgtgagccaaggatagtggaacattgagtgtgggttttttcagaaataggg #### Ddb1_ID2932_17 --> 1 - 2 Original Alignment t---------------------------CTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag tatcctttattgttaacttactcaataccaacttggtcttggttttctagtGAGACTCCTGAGGACTCTCAAAAATCACTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAAATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCaggtgagtctagagctgagaagcagcagagggagttggttggtaatggctca Alignment from CESAR t---------------------------CTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCag tatcctttattgttaacttactcaataccaacttggtcttggttttctagtGAGACTCCTGAGGACTCTCAAAAATCACTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAAATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCaggtgagtctagagctgagaagcagcagagggagttggttggtaatggctca Alignment from Spaln_aa2Genome T---------------------------CTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatcctttattgttaacttactcaataccaacttggtcttggttttctagTGAGACTCCTGAGGACTCTCAAAAATCACTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAAATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtctagagctgagaagcagcagagggagttggttggtaatggctca Alignment from Spaln_nt2Genome TCTGGCATTG--------------GCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatcctttattgttaacttactcaataccaacttggtcttggttttctagtgagactcctgagGACTCTCAAAAATCACTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAAATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtctagagctgagaagcagcagagggagttggttggtaatggctca Alignment from Pairagon T---------------------------CTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatcctttattgttaacttactcaataccaacttggtcttggttttctagTGAGACTCCTGAGGACTCTCAAAAATCACTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAAATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtctagagctgagaagcagcagagggagttggttggtaatggctca Alignment from Exonerate_protein2genome TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatcctttattgttaacttactcaataccaacttggtcttggttttctagtgagactcctgaggactctcaaaaatcACTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAAATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtctagagctgagaagcagcagagggagttggttggtaatggctca Alignment from Exonerate_coding2genome TCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatcctttattgttaacttactcaataccaacttggtcttggttttctagtgagactcctgaggactctcaaaaatcACTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAAATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtctagagctgagaagcagcagagggagttggttggtaatggctca Alignment from GeneWise -------------------------AGTCTGGCATTGGCCAATAACAGCACTCTCACCATTGGCACCATCGATGAGATCCAGAAGCTCCATATTCGCACAGTTCCCCTCTATGAGTCTCCCAG tatcctttattgttaacttactcaataccaacttggtcttggttttctagTGAGACTCCTGAGGACTCTCAAAAATCACTGGCATTGGCCAATAACAGCACTCTCACAATTGGTACCATTGATGAAATCCAGAAGCTCCACATTCGCACAGTTCCCCTCTACGAGTCTCCCAGgtgagtctagagctgagaagcagcagagggagttggttggtaatggctca #### Ddb1_ID2938_23 --> 0 - 2 Original Alignment ------ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACag caaactcgcttccatgctgcagactacattcatgggcttctttcccacagCTTAATATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTTGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACaggtgagtagttagtatagctctaaaattagcgcaagacctctaggtctaca Alignment from CESAR ------ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACag caaactcgcttccatgctgcagactacattcatgggcttctttcccacagCTTAATATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTTGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACaggtgagtagttagtatagctctaaaattagcgcaagacctctaggtctaca Alignment from Spaln_aa2Genome ATTGCCCGAGACTTT------AATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAG caaactcgcttccatgctgcagactacattcatgggcttctttcccacagCTTAATATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTTGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGgtgagtagttagtatagctctaaaattagcgcaagacctctaggtctaca Alignment from Spaln_nt2Genome ATTGCCCGA------GACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAG caaactcgcttccatgctgcagactacattcatgggcttctttcccacagCTTAATATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTTGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGgtgagtagttagtatagctctaaaattagcgcaagacctctaggtctaca Alignment from Pairagon ------ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAG caaactcgcttccatgctgcagactacattcatgggcttctttcccacagCTTAATATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTTGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGgtgagtagttagtatagctctaaaattagcgcaagacctctaggtctaca Alignment from Exonerate_protein2genome ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAG caaactcgcttccatgctgcagactacattcatgggcttctttcccacagcttaatATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTTGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGgtgagtagttagtatagctctaaaattagcgcaagacctctaggtctaca Alignment from Exonerate_coding2genome ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAG caaactcgcttccatgctgcagactacattcatgggcttctttcccacagcttaatATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTTGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGgtgagtagttagtatagctctaaaattagcgcaagacctctaggtctaca Alignment from GeneWise ------ATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTGGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAG caaactcgcttccatgctgcagactacattcatgggcttctttcccacagCTTAATATTGCCCGAGACTTTAATCCCAACTGGATGAGTGCAGTGGAGATCTTGGATGATGACAATTTTCTTGGAGCTGAAAATGCCTTTAACTTGTTTGTGTGTCAGAAGGACAGgtgagtagttagtatagctctaaaattagcgcaagacctctaggtctaca #### Ddb1_ID2939_24 --> 1 - 1 Original Alignment t------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg aggacttcttagggagaagggttcaggacatcttctgtctttcctatcagtGCTGAGGCTGCAACCACTGATGAGGAGCGGCAGCATTTACAGGAGATTGGTCTCTTCCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATAGCATGATAggtaagtgtcattcctggtgagcacacccggctacagccacctcatgccag Alignment from CESAR tGCT------GCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAg aggacttcttagggagaagggttcaggacatcttctgtctttcctatcagtGCTGAGGCTGCAACCACTGATGAGGAGCGGCAGCATTTACAGGAGATTGGTCTCTTCCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATAGCATGATAggtaagtgtcattcctggtgagcacacccggctacagccacctcatgccag Alignment from Spaln_aa2Genome T------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATA aggacttcttagggagaagggttcaggacatcttctgtctttcctatcagTGCTGAGGCTGCAACCACTGATGAGGAGCGGCAGCATTTACAGGAGATTGGTCTCTTCCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATAGCATGATAGgtaagtgtcattcctggtgagcacacccggctacagccacctcatgccag Alignment from Spaln_nt2Genome TGCTGCCACCAC------TGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatcttctgtctttcctatcagTGCTGAGGCTGCAACCACTGATGAGGAGCGGCAGCATTTACAGGAGATTGGTCTCTTCCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATAGCATGATAGgtaagtgtcattcctggtgagcacacccggctacagccacctcatgccag Alignment from Pairagon T------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatcttctgtctttcctatcagTGCTGAGGCTGCAACCACTGATGAGGAGCGGCAGCATTTACAGGAGATTGGTCTCTTCCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATAGCATGATAGgtaagtgtcattcctggtgagcacacccggctacagccacctcatgccag Alignment from Exonerate_protein2genome T------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatcttctgtctttcctatcagTGCTGAGGCTGCAACCACTGATGAGGAGCGGCAGCATTTACAGGAGATTGGTCTCTTCCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATAGCATGATAGgtaagtgtcattcctggtgagcacacccggctacagccacctcatgccag Alignment from Exonerate_coding2genome T------GCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatcttctgtctttcctatcagTGCTGAGGCTGCAACCACTGATGAGGAGCGGCAGCATTTACAGGAGATTGGTCTCTTCCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATAGCATGATAGgtaagtgtcattcctggtgagcacacccggctacagccacctcatgccag Alignment from GeneWise ----AGTGCTGCCACCACTGATGAGGAGCGGCAGCACCTACAGGAGGTTGGTCTCTTCCACCTGGGCGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGCGAGGCTTCTACCCCTACACAGGGCTCGGTGCTCTTTGGCACAGTCAACGGCATGATAG aggacttcttagggagaagggttcaggacatcttctgtctttcctatcagTGCTGAGGCTGCAACCACTGATGAGGAGCGGCAGCATTTACAGGAGATTGGTCTCTTCCACCTGGGTGAGTTTGTCAATGTGTTCTGCCATGGCTCCCTAGTTATGCAGAATCTGGGTGAGGCTTCTACCCCTACACAGGGCTCAGTGCTTTTTGGCACAGTCAATAGCATGATAGgtaagtgtcattcctggtgagcacacccggctacagccacctcatgccag #### Dkk1_ID6482_3 --> 2 - 1 Original Alignment gaATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg actactcttgtcatggctattagcagcattaacatgttttttttccttaggaATATGCATGCCCTCTGACCATAGCCATTTCCCTCGAGGGGAAATTGAGGAAAGAACTATTGAGAACCTTGGTAATGACCACAATGCCGCTGCGGGGGATGGATATCCCAGAAGAACCACATTGGCTTCAAAGATCTAT---------ggtgagcaagagtcgtcaagagcttgaacgctcagcctttcacatttaata Alignment from CESAR gaATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAg actactcttgtcatggctattagcagcattaacatgttttttttccttaggaATATGCATGCCCTCTGACCATAGCCATTTCCCTCGAGGGGAAATTGAGGAAAGAACTATTGAGAACCTTGGTAATGACCACAATGCCGCTGCGGGGGATGGATATCCCAGAAGAACCACATTGGCTTCAAAGATCTAT---------ggtgagcaagagtcgtcaagagcttgaacgctcagcctttcacatttaata Alignment from Spaln_aa2Genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATAT- actactcttgtcatggctattagcagcattaacatgttttttttccttagGAATATGCATGCCCTCTGACCATAGCCATTTCCCTCGAGGGGAAATTGAGGAAAGAACTATTGAGAACCTTGGTAATGACCACAATGCCGCTGCGGGGGATGGATATCCCAGAAGAACCACATTGGCTTCAAAGATCTATGgtgagcaagagtcgtcaagagcttgaacgctcagcctttcacatttaata Alignment from Spaln_nt2Genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG actactcttgtcatggctattagcagcattaacatgttttttttccttagGAATATGCATGCCCTCTGACCATAGCCATTTCCCTCGAGGGGAAATTGAGGAAAGAACTATTGAGAACCTTGGTAATGACCACAATGCCGCTGCGGGGGATGGATATCCCAGAAGAACCACATTGGCTTCAAAGATCTAT---------Ggtgagcaagagtcgtcaagagcttgaacgctcagcctttcacatttaata Alignment from Pairagon GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG actactcttgtcatggctattagcagcattaacatgttttttttccttagGAATATGCATGCCCTCTGACCATAGCCATTTCCCTCGAGGGGAAATTGAGGAAAGAACTATTGAGAACCTTGGTAATGACCACAATGCCGCTGCGGGGGATGGATATCCCAGAAGAACCACATTGGCTTCAAAGATCTAT---------Ggtgagcaagagtcgtcaagagcttgaacgctcagcctttcacatttaata Alignment from Exonerate_protein2genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG actactcttgtcatggctattagcagcattaacatgttttttttccttagGAATATGCATGCCCTCTGACCATAGCCATTTCCCTCGAGGGGAAATTGAGGAAAGAACTATTGAGAACCTTGGTAATGACCACAATGCCGCTGCGGGGGATGGATATCCCAGAAGAACCACATTGGCTTCAAAGATCTATGGTGAGCAAGagtcgtcaagagcttgaacgctcagcctttcacatttaata Alignment from Exonerate_coding2genome GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATATCACACCAAAG actactcttgtcatggctattagcagcattaacatgttttttttccttagGAATATGCATGCCCTCTGACCATAGCCATTTCCCTCGAGGGGAAATTGAGGAAAGAACTATTGAGAACCTTGGTAATGACCACAATGCCGCTGCGGGGGATGGATATCCCAGAAGAACCACATTGGCTTCAAAGATCTATGGTGAGCAAGagtcgtcaagagcttgaacgctcagcctttcacatttaata Alignment from GeneWise GAATATGCATGCCCTCTGACCACAGCCATTTTCCTCGAGGGGAAATTGAGGAAAGCATCATTGAAAACCTTGGTAATGACCACAACGCCGCCGCGGGGGATGGATATCCCAGAAGAACCACACTGACTTCAAAAATATAT- actactcttgtcatggctattagcagcattaacatgttttttttccttagGAATATGCATGCCCTCTGACCATAGCCATTTCCCTCGAGGGGAAATTGAGGAAAGAACTATTGAGAACCTTGGTAATGACCACAATGCCGCTGCGGGGGATGGATATCCCAGAAGAACCACATTGGCTTCAAAGATCTATGgtgagcaagagtcgtcaagagcttgaacgctcagcctttcacatttaata #### Dpf2_ID1304_9 --> 2 - 0 Original Alignment ggCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctctggtttccaaccacttctttgttttctcccttattccttggtttcaggg---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGTTGCAACCTCTGTGGCACATCAGAAAATGATgtaatggtcactgagcctgccaggctcccaatgagcctgccaggctccat Alignment from CESAR ggCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT cactccccactctggtttccaaccatttctcccttattccttggtttcaggg---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGTTGCAACCTCTGTGGCACATCAGAAAATGATgtaatggtcactgagcctgccaggctcccaatgagcctgccaggctccat Alignment from Spaln_aa2Genome GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctctggtttccaaccacttctttgttttctcccttattccttggtttcagGG---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGTTGCAACCTCTGTGGCACATCAGAAAATGATgtaatggtcactgagcctgccaggctcccaatgagcctgccaggctccat Alignment from Spaln_nt2Genome GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctctggtttccaaccacttctttgttttctcccttattccttggtttcagGG---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGTTGCAACCTCTGTGGCACATCAGAAAATGATgtaatggtcactgagcctgccaggctcccaatgagcctgccaggctccat Alignment from Pairagon GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctctggtttccaaccacttctttgttttctcccttattccttggtttcagGG---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGTTGCAACCTCTGTGGCACATCAGAAAATGATgtaatggtcactgagcctgccaggctcccaatgagcctgccaggctccat Alignment from Exonerate_protein2genome CCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctctggtttccaaccacttctttgttttctcccttattccttggtttcagGGTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGTTGCAACCTCTGTGGCACATCAGAAAATGATgtaatggtcactgagcctgccaggctcccaatgagcctgccaggctccat Alignment from Exonerate_coding2genome CCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctctggtttccaaccacttctttgttttctcccttattccttggtttcagGGTGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGTTGCAACCTCTGTGGCACATCAGAAAATGATgtaatggtcactgagcctgccaggctcccaatgagcctgccaggctccat Alignment from GeneWise GGCATCCGTCCTGCCTGCAGTTCACCCCTGTGATGATGGCGGCCGTGAAGACCTACCGCTGGCAGTGCATCGAATGCAAGTGCTGCAACCTCTGCGGCACGTCGGAGAACGAT ctctggtttccaaccacttctttgttttctcccttattccttggtttcagGG---------TGCCTGCAGTTCACCCCTGTGATGATGGCGGCTGTGAAGACCTACCGCTGGCAGTGTATCGAATGCAAGTGTTGCAACCTCTGTGGCACATCAGAAAATGATgtaatggtcactgagcctgccaggctcccaatgagcctgccaggctccat #### Dpf2_ID1309_5 --> 0 - 0 Original Alignment CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG--------- AGTAAGGGTGTGAG ccttgggatgtgtttgagcttcacttgtttgtttgtttgtttaatgacagCGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGGAAGGGCAAGTCCAAGGTTTGTAAAgtaggtacatcatcagttctttccttctatgtacagAGTAAGGGTGTGAG Alignment from CESAR CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTGAG ccttgggatgtgtttgagcttcacttgtttgtttgtttgtttaatgacagCGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGGAAGGGCAAGTCCAAGgtttgtaaagtaggtacatcatccaatctcatcctcatgtcttagAGTAAGGGTGTGAG Alignment from Spaln_aa2Genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTGAG ccttgggatgtgtttgagcttcacttgtttgtttgtttgtttaatgacagCGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGGAAGGGCAAGTCCAAGgtttgtaaagtaggtacatcatcagttctttccttctatgtacagAGTAAGGGTGTGAG Alignment from Spaln_nt2Genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTGAG ccttgggatgtgtttgagcttcacttgtttgtttgtttgtttaatgacagCGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGGAAGGGCAAGTCCAAGgtttgtaaagtaggtacatcatcagttctttccttctatgtacagAGTAAGGGTGTGAG Alignment from Pairagon CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTGAG ccttgggatgtgtttgagcttcacttgtttgtttgtttgtttaatgacagCGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGGAAGGGCAAGTCCAAGgtttgtaaagtaggtacatcatcagttctttccttctatgtacagAGTAAGGGTGTGAG Alignment from Exonerate_protein2genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTGAG ccttgggatgtgtttgagcttcacttgtttgtttgtttgtttaatgacagCGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGGAAGGGCAAGTCCAAGgtttgtaaagtaggtacatcatcagttctttccttctatgtacagAGTAAGGGTGTGAG Alignment from Exonerate_coding2genome CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG AGTAAGGGTGTGAG ccttgggatgtgtttgagcttcacttgtttgtttgtttgtttaatgacagCGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGGAAGGGCAAGTCCAAGgtttgtaaagtaggtacatcatcagttctttccttctatgtacagAGTAAGGGTGTGAG Alignment from GeneWise CGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACGCCAAAGCGTCGGGGGAAGGGGAAGTCCAAG---------------------------------------------AGTAAGGGTGTGAG ccttgggatgtgtttgagcttcacttgtttgtttgtttgtttaatgacagCGGATCATTGAACCCGATGACTTCCTTGATGACCTTGATGATGAGGACTATGAAGAAGATACACCAAAGCGTCGGGGGAAGGGCAAGTCCAAGGTTTGTAAAGTAGGTACATCATCAGTTCTTTCCTTCTATGTACAGAGTAAGGGTGTGAG #### Dpp3_ID739_14 --> 1 - 0 Original Alignment gATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG--- acactaaactgtccagattctgaaggtagctctctctattctctttccaggATCTTCGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAATATGGTTCAGGCGGGCTTGTTGGCTTTGGAGTTCCACACCCCAAAGGCAGCCAACTGGCAGCAGCTTgtacaggatggaacaggtgcatccctcaaggccagacaagcttaaactat Alignment from CESAR gATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG--- acactaaactgtccagattctgaaggtagctctctctattctctttccaggATCTTCGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAATATGGTTCAGGCGGGCTTGTTGGCTTTGGAGTTCCACACCCCAAAGGCAGCCAACTGGCAGCAGCTTgtacaggatggaacaggtgcatccctcaaggccagacaagcttaaactat Alignment from Spaln_aa2Genome GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG--- acactaaactgtccagattctgaaggtagctctctctattctctttccagGATCTTCGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAATATGGTTCAGGCGGGCTTGTTGGCTTTGGAGTTCCACACCCCAAAGGCAGCCAACTGGCAGCAGCTTgtacaggatggaacaggtgcatccctcaaggccagacaagcttaaactat Alignment from Spaln_nt2Genome GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACA acactaaactgtccagattctgaaggtagctctctctattctctttccagGATCTTCGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAATATGGTTCAGGCGGGCTTGTTGGCTTTGGAGTTCCACACCCCAAAGGCAGCCAACTGGCAGCAgcttgtacaggatggaacaggtgcatccctcaaggccagacaagcttaaactat Alignment from Pairagon GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGC-------------------GACAG acactaaactgtccagattctgaaggtagctctctctattctctttccagGATCTTCGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAATATGGTTCAGGCGGGCTTGTTGGCTTTGGAGTTCCACACCCCAAAGGCAGCCAACTGGCAGCAGCTTGTACAGGATGGAACAGgtgcatccctcaaggccagacaagcttaaactat Alignment from Exonerate_protein2genome GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG acactaaactgtccagattctgaaggtagctctctctattctctttccagGATCTTCGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAATATGGTTCAGGCGGGCTTGTTGGCTTTGGAGTTCCACACCCCAAAGGCAGCCAACTGGCAGCAGcttgtacaggatggaacaggtgcatccctcaaggccagacaagcttaaactat Alignment from Exonerate_coding2genome GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAG acactaaactgtccagattctgaaggtagctctctctattctctttccagGATCTTCGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAATATGGTTCAGGCGGGCTTGTTGGCTTTGGAGTTCCACACCCCAAAGGCAGCCAACTGGCAGCAGcttgtacaggatggaacaggtgcatccctcaaggccagacaagcttaaactat Alignment from GeneWise GATCTTTGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTACGTGAACTGGCTCAACATGGTTCGGGCTGGCTTGTTGGCTTTGGAGTTCTACACCCCAGAGGCAGCCAACTGGCGACAGGCC acactaaactgtccagattctgaaggtagctctctctattctctttccagGATCTTCGGCTTTGAGGGAGCTGATGCAGAAGATGTAATCTATGTGAACTGGCTCAATATGGTTCAGGCGGGCTTGTTGGCTTTGGAGTTCCACACCCCAAAGGCAGCCAACTGGCAGCAGCTTgtacaggatggaacaggtgcatccctcaaggccagacaagcttaaactat #### Dpp3_ID743_10 --> 2 - 0 Original Alignment acGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG tctcaatcactgctgctacctctgtcagaggactcctcttccctctgcagacGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGAGAGAAGCTCACGTTCTTGGAGGAG---------gtaagtgcacttgcggacggcccccaagcctagggcttaactactttagt Alignment from CESAR acGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAGGAAGACAAG tctcaatcactgctgctacctctgtcagaggactcctcttccctctgcagacGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGAGAGAAGCTCACGTTCTTGGAGGAG---------gtaagtgcacttgcggacggcccccaagcctagggcttaac Alignment from Spaln_aa2Genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAG tctcaatcactgctgctacctctgtcagaggactcctcttccctctgcagACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGAGAGAAGCTCACGTTCTTGGAGGAGgtaagtgcacttgcggacggcccccaagcctagggcttaactactttagt Alignment from Spaln_nt2Genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAG - tctcaatcactgctgctacctctgtcagaggactcctcttccctctgcagACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGAGAGAAGCTCACGTTCTTGGAGGAGgtaagtgcacttgcggacggcccccaagcctagggcttaactactttagT Alignment from Pairagon ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAG tctcaatcactgctgctacctctgtcagaggactcctcttccctctgcagACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGAGAGAAGCTCACGTTCTTGGAGGAGgtaagtgcacttgcggacggcccccaagcctagggcttaactactttagt Alignment from Exonerate_protein2genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAG tctcaatcactgctgctacctctgtcagaggactcctcttccctctgcagACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGAGAGAAGCTCACGTTCTTGGAGGAGgtaagtgcacttgcggacggcccccaagcctagggcttaactactttagt Alignment from Exonerate_coding2genome ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAG tctcaatcactgctgctacctctgtcagaggactcctcttccctctgcagACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGAGAGAAGCTCACGTTCTTGGAGGAGgtaagtgcacttgcggacggcccccaagcctagggcttaactactttagt Alignment from GeneWise ACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGGGAGAAGCTCACGTTCTTGGAGGAG tctcaatcactgctgctacctctgtcagaggactcctcttccctctgcagACGATGACCTGAGACAGACAGAAGGCTTTAAGAATGTATCGCTGGGGAATGTGCTGGCTGTGGCCTATGCCGCAAAGCGAGAGAAGCTCACGTTCTTGGAGGAGgtaagtgcacttgcggacggcccccaagcctagggcttaactactttagt #### Dpp3_ID744_9 --> 2 - 1 Original Alignment gcTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAAC---------t atgtaactgtatcccaggatgctggcaacggcctctcctgtgttctccaggcTTTGTGGCCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTCGCAAGTGCTGAACAGTTGCTAAAGGAGCTGCCCTGGCCTCTTGCCTTTGAGAAGGATAAATTCCTCACCCCTGACTTCACTTCGATAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACAGAACCTTAtgtaagtccctccctcagccttgtttcagtgcatctcaatcactgctgcta Alignment from CESAR gcTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAAC---------t atgtaactgtatcccaggatgctggcaacggcctctcctgtgttctccaggcTTTGTGGCCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTCGCAAGTGCTGAACAGTTGCTAAAGGAGCTGCCCTGGCCTCTTGCCTTTGAGAAGGATAAATTCCTCACCCCTGACTTCACTTCGATAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACAGAACCTTAtgtaagtccctccctcagccttgtttcagtgcatctcaatcactgctgcta Alignment from Spaln_aa2Genome GCTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAAC---------T atgtaactgtatcccaggatgctggcaacggcctctcctgtgttctccagGCTTTGTGGCCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTCGCAAGTGCTGAACAGTTGCTAAAGGAGCTGCCCTGGCCTCTTGCCTTTGAGAAGGATAAATTCCTCACCCCTGACTTCACTTCGATAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACAGAACCTTATgtaagtccctccctcagccttgtttcagtgcatctcaatcactgctgcta Alignment from Spaln_nt2Genome GCTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAAC---------T atgtaactgtatcccaggatgctggcaacggcctctcctgtgttctccagGCTTTGTGGCCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTCGCAAGTGCTGAACAGTTGCTAAAGGAGCTGCCCTGGCCTCTTGCCTTTGAGAAGGATAAATTCCTCACCCCTGACTTCACTTCGATAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACAGAACCTTATgtaagtccctccctcagccttgtttcagtgcatctcaatcactgctgcta Alignment from Pairagon GCTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAAC---------T atgtaactgtatcccaggatgctggcaacggcctctcctgtgttctccagGCTTTGTGGCCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTCGCAAGTGCTGAACAGTTGCTAAAGGAGCTGCCCTGGCCTCTTGCCTTTGAGAAGGATAAATTCCTCACCCCTGACTTCACTTCGATAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACAGAACCTTATgtaagtccctccctcagccttgtttcagtgcatctcaatcactgctgcta Alignment from Exonerate_protein2genome GCTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACT atgtaactgtatcccaggatgctggcaacggcctctcctgtgttctccagGCTTTGTGGCCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTCGCAAGTGCTGAACAGTTGCTAAAGGAGCTGCCCTGGCCTCTTGCCTTTGAGAAGGATAAATTCCTCACCCCTGACTTCACTTCGATAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACAgaaccttatgtaagtccctccctcagccttgtttcagtgcatctcaatcactgctgcta Alignment from Exonerate_coding2genome GCTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAACT atgtaactgtatcccaggatgctggcaacggcctctcctgtgttctccagGCTTTGTGGCCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTCGCAAGTGCTGAACAGTTGCTAAAGGAGCTGCCCTGGCCTCTTGCCTTTGAGAAGGATAAATTCCTCACCCCTGACTTCACTTCGATAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACAgaaccttatgtaagtccctccctcagccttgtttcagtgcatctcaatcactgctgcta Alignment from GeneWise GCTTCGTGGCCATGGTAAACAAAGCCATGAGTGCCAAGTTCGAGCGGCTGGTCGCGAGTGCTGAGCAGCTGCTGAAGGAGCTGCCCTGGCCTCTTGCCTTCGAGAAGGACAAGTTCCTCACCCCTGACTTCACCTCCCTGGACGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCGGGCATCAACATCCCCAAC---------T atgtaactgtatcccaggatgctggcaacggcctctcctgtgttctccagGCTTTGTGGCCATGGTAAATAAAGCCATGAGTGCCAAGTTTGAGCGGCTGGTCGCAAGTGCTGAACAGTTGCTAAAGGAGCTGCCCTGGCCTCTTGCCTTTGAGAAGGATAAATTCCTCACCCCTGACTTCACTTCGATAGATGTCCTCACCTTTGCTGGCTCTGGCATTCCTGCAGGCATCAACATCCCCAACAGAACCTTATgtaagtccctccctcagccttgtttcagtgcatctcaatcactgctgcta #### Drap1_ID985_5 --> 1 - 0 Original Alignment ag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG--- aggtgagtagccaagacatggtctgcagtgtgcatttccctttgattcaggGGCCGTAAACCAGGGAGCAGTGGCAGGAAGAATGGAGGCACAGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGCCCgtaactaaggctggtgggcaatggccgcagccttgtctgcttttttgtac Alignment from CESAR ag gGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG--- aggtagaaagccaagacatggtctgcagtgtgcatttccctttgattcaggGGCCGTAAACCAGGGAGCAGTGGCAGGAAGAATGGAGGCACAGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGCCCgtaactaaggctggtgggcaatggccgcagccttgtctgcttttttgtac Alignment from Spaln_aa2Genome AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG--- AGgtgagtagccaagacatggtctgcagtgtgcatttccctttgattcagGGGCCGTAAACCAGGGAGCAGTGGCAGGAAGAATGGAGGCACAGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGCCCgtaactaaggctggtgggcaatggccgcagccttgtctgcttttttgtac Alignment from Spaln_nt2Genome AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG--- AGgtgagtagccaagacatggtctgcagtgtgcatttccctttgattcagGGGCCGTAAACCAGGGAGCAGTGGCAGGAAGAATGGAGGCACAGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGCCCgtaactaaggctggtgggcaatggccgcagccttgtctgcttttttgtac Alignment from Pairagon AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG--- AGgtgagtagccaagacatggtctgcagtgtgcatttccctttgattcagGGGCCGTAAACCAGGGAGCAGTGGCAGGAAGAATGGAGGCACAGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGCCCgtaactaaggctggtgggcaatggccgcagccttgtctgcttttttgtac Alignment from Exonerate_protein2genome AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG--- AGgtgagtagccaagacatggtctgcagtgtgcatttccctttgattcagGGGCCGTAAACCAGGGAGCAGTGGCAGGAAGAATGGAGGCACAGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGCCCgtaactaaggctggtgggcaatggccgcagccttgtctgcttttttgtac Alignment from Exonerate_coding2genome AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAG--- AGgtgagtagccaagacatggtctgcagtgtgcatttccctttgattcagGGGCCGTAAACCAGGGAGCAGTGGCAGGAAGAATGGAGGCACAGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGCCCgtaactaaggctggtgggcaatggccgcagccttgtctgcttttttgtac Alignment from GeneWise AG GGGCCGGAAACCGGGCAGCAGCGGCAGGAAGAACGGAGGCACGGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGGAT AGgtgagtagccaagacatggtctgcagtgtgcatttccctttgattcagGGGCCGTAAACCAGGGAGCAGTGGCAGGAAGAATGGAGGCACAGGAAGCAAAGGCAAAGACAAGAAGCTGTCCGGGACAGACTCTGAGCAGGAGCCCgtaactaaggctggtgggcaatggccgcagccttgtctgcttttttgtac #### Drap1_ID986_4 --> 1 - 2 Original Alignment gAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gG caagtgtttgaggggccttatttggacctaccccatttccttccttgcaggAAGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGAC---------------------------------------aggtagagagccaagacatggtctgcagatcccaatctgtgttttggaaggG Alignment from CESAR gAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAag gG caagtgtttgaggggccttatttggacctaccccatttccttccttgcaggAAGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGG---------GAC------------------------------aggtagagagccaagacatggtctgcagtgtgcatttccctttgattcaggG Alignment from Spaln_aa2Genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGGGAGGACAACCAC---------GTGGATGGGGACAAGGGTCCTCGAAGGG caagtgtttgaggggccttatttggacctaccccatttccttccttgcagGAAGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGACAGGTAGAGAGCCAAGACATGGTCTGCAGATCCCAATCTGTGTTTTGGAAGGG Alignment from Spaln_nt2Genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGATGGG--GAGGACAACCACGTGGA-TGGGGA---CAA---GGGTCCTCGAAGGG caagtgtttgaggggccttatttggacctaccccatttccttccttgcagGAAGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGACAGGTAGAGAGCCAAGACATGGTCTGCAGATCCCAATCTGTGTTTTGGAAGGG Alignment from Pairagon GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGA---------------------------------------------TGGGGAGG caagtgtttgaggggccttatttggacctaccccatttccttccttgcagGAAGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGACAGGTAGAGAGCCAAGACATGGTCTGCAGATCCCAATCTGTGTTTTG------ Alignment from Exonerate_protein2genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGAT---------GGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAGGG caagtgtttgaggggccttatttggacctaccccatttccttccttgcagGAAGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGACAGGTAGAGAGCCAAGACATGGTCTGCAGATCCCAATCTGTGTTTTGGAAGGG Alignment from Exonerate_coding2genome GAAGCAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGAT---------GGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAGGG caagtgtttgaggggccttatttggacctaccccatttccttccttgcagGAAGCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGACAGGTAGAGAGCCAAGACATGGTCTGCAGATCCCAATCTGTGTTTTGGAAGGG Alignment from GeneWise CAGTGCATTGAACTCGAGCAGCAGTTTGACTTCTTGAAAGACTTGGTGGCATCAGTGCCTGACATGCAGGGGGAT---------GGGGAGGACAACCACGTGGATGGGGACAAGGGTCCTCGAAGGG caagtgtttgaggggccttatttggacctaccccatttccttccttgcaggaagCAGTGCATTGAACTTGAGCAGCAGTTTGACTTCTTGAAAGACCTAGTGGCATCGGTGCCTGACATGCAGGGGGACAGGTAGAGAGCCAAGACATGGTCTGCAGATCCCAATCTGTGTTTTGGAAGGG #### Drap1_ID987_3 --> 2 - 2 Original Alignment cc------------CGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACct ggggtgggactacagcactccacttttctttcaccttggtccttctctagccAAATCCACACATCGGGCCCTTGAGCTCTTCCTGGAGTCCCTCCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACctgtaagaggctgctgccaagctgggggggcttttggggggtcagaattcca Alignment from CESAR cc------------CGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACct ggggtgggactacagcactccacttttctttcaccttggtccttctctagccAAATCCACACATCGGGCCCTTGAGCTCTTCCTGGAGTCCCTCCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACctgtaagaggctgctgccaagctgggggggcttttggggggtcagaattcca Alignment from Spaln_aa2Genome CC------------CGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ggggtgggactacagcactccacttttctttcaccttggtccttctctagCCAAATCCACACATCGGGCCCTTGAGCTCTTCCTGGAGTCCCTCCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagaggctgctgccaagctgggggggcttttggggggtcagaattcca Alignment from Spaln_nt2Genome CC------------CGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ggggtgggactacagcactccacttttctttcaccttggtccttctctagCCAAATCCACACATCGGGCCCTTGAGCTCTTCCTGGAGTCCCTCCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagaggctgctgccaagctgggggggcttttggggggtcagaattcca Alignment from Pairagon CC------------CGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ggggtgggactacagcactccacttttctttcaccttggtccttctctagCCAAATCCACACATCGGGCCCTTGAGCTCTTCCTGGAGTCCCTCCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagaggctgctgccaagctgggggggcttttggggggtcagaattcca Alignment from Exonerate_protein2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ggggtgggactacagcactccacttttctttcaccttggtccttctctagccaaatccacacATCGGGCCCTTGAGCTCTTCCTGGAGTCCCTCCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagaggctgctgccaagctgggggggcttttggggggtcagaattcca Alignment from Exonerate_coding2genome CCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ggggtgggactacagcactccacttttctttcaccttggtccttctctagccaaatccacacATCGGGCCCTTGAGCTCTTCCTGGAGTCCCTCCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagaggctgctgccaagctgggggggcttttggggggtcagaattcca Alignment from GeneWise -----------TCCCGGGCCCTTGAGCTCTTCCTGGAGTCCCTGTTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCCAAAACCATGACCACGTCCCACCT ggggtgggactacagcactccacttttctttcaccttggtccttctctagCCAAATCCACACATCGGGCCCTTGAGCTCTTCCTGGAGTCCCTCCTGAAGAAGGCTTGCCAGGTGACCCAGTCTCGAAATGCAAAGACCATGACCACATCCCACCTgtaagaggctgctgccaagctgggggggcttttggggggtcagaattcca #### Efemp2_ID1035_8 --> 2 - 2 Original Alignment atATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACaa acttactatgagtactatactagacccccacaactagcctctttcctcagatATCGATGATTGCGAAACAGGCGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGGCGGTTACCGCTGTGTGGAAACCAACCGTTGTGTGGAGCCCTATGTCCAA---------aagtaagaccatgtgatactcctggcgcccatttggtgtgcagctccagatg Alignment from CESAR atATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACaa acttactatgagtactatactagacccccacaactagcctctttcctcagatATCGATGATTGCGAAACAGGCGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGGCGGTTACCGCTGTGTGGAAACCAACCGTTGTGTGGAGCCCTATGTCCAA---------aagtaagaccatgtgatactcctggcgcccatttggtgtgcagctccagatg Alignment from Spaln_aa2Genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGT acttactatgagtactatactagacccccacaactagcctctttcctcagATATCGATGATTGCGAAACAGGCGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGGCGGTTACCGCTGTGTGGAAACCAACCGTTGTGTGGAGCCCTATGTCCAAAAgtaagaccatgtgatactcctggcgcccatttggtgtgcagctccagatg Alignment from Spaln_nt2Genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAAC acttactatgagtactatactagacccccacaactagcctctttcctcagATATCGATGATTGCGAAACAGGCGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGGCGGTTACCGCTGTGTGGAAACCAACCGTTGTGTGGAGCCCTATGTCCAAAAGTAAGACCATgtgatactcctggcgcccatttggtgtgcagctccagatg Alignment from Pairagon ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGTGTCAGACAA acttactatgagtactatactagacccccacaactagcctctttcctcagATATCGATGATTGCGAAACAGGCGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGGCGGTTACCGCTGTGTGGAAACCAACCGTTGTGTGGAGCCCTATGTCCAA---------AAgtaagaccatgtgatactcctggcgcccatttggtgtgcagctccagatg Alignment from Exonerate_protein2genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGT acttactatgagtactatactagacccccacaactagcctctttcctcagATATCGATGATTGCGAAACAGGCGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGGCGGTTACCGCTGTGTGGAAACCAACCGTTGTGTGGAGCCCTATGTCCAAAAgtaagaccatgtgatactcctggcgcccatttggtgtgcagctccagatg Alignment from Exonerate_coding2genome ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGT acttactatgagtactatactagacccccacaactagcctctttcctcagATATCGATGATTGCGAAACAGGCGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGGCGGTTACCGCTGTGTGGAAACCAACCGTTGTGTGGAGCCCTATGTCCAAAAgtaagaccatgtgatactcctggcgcccatttggtgtgcagctccagatg Alignment from GeneWise ATATTGACGAGTGTGAAACAGGTGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAACTTCCATGGGGGTTACCGCTGTGTGGACACCAACCGTTGTGTGGAGCCCTATGTCCAAGT acttactatgagtactatactagacccccacaactagcctctttcctcagATATCGATGATTGCGAAACAGGCGCACACCAATGTTCTGAGGCCCAAACCTGTGTCAATTTCCATGGCGGTTACCGCTGTGTGGAAACCAACCGTTGTGTGGAGCCCTATGTCCAAAAgtaagaccatgtgatactcctggcgcccatttggtgtgcagctccagatg #### Ehbp1l1_ID1217_18 --> 2 - 2 Original Alignment agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGG------at tggcttcttagaatggcagaagaagtctactatgccactcccctctgcagaaTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGAACCAGAGGGAAGAACTGGTCCGGGACCTGGACCAGAAGGAGCGGTCTGAGgtgttagtacctgggtggctttggttttgaagaacccccagggtgcaccact Alignment from CESAR agTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGG------at tggcttcttagaatggcagaagaagtctactatgccactcccctctgcagaaTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGAACCAGAGGGAAGAACTGGTCCGGGACCTGGACCAGAAGGAGCGGTCTGAGgtgttagtacctgggtggctttggttttgaagaacccccagggtgcaccact Alignment from Spaln_aa2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACG tggcttcttagaatggcagaagaagtctactatgccactcccctctgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGAACCAGAGGGAAGAACTGGTCCGGGACCTGGACCAGAAGGAGCGgtctgaggtgttagtacctgggtggctttggttttgaagaacccccagggtgcaccact Alignment from Spaln_nt2Genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACG tggcttcttagaatggcagaagaagtctactatgccactcccctctgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGAACCAGAGGGAAGAACTGGTCCGGGACCTGGACCAGAAGGAGCGgtctgaggtgttagtacctgggtggctttggttttgaagaacccccagggtgcaccact Alignment from Pairagon AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACG tggcttcttagaatggcagaagaagtctactatgccactcccctctgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGAACCAGAGGGAAGAACTGGTCCGGGACCTGGACCAGAAGGAGCGgtctgaggtgttagtacctgggtggctttggttttgaagaacccccagggtgcaccact Alignment from Exonerate_protein2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACG tggcttcttagaatggcagaagaagtctactatgccactcccctctgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGAACCAGAGGGAAGAACTGGTCCGGGACCTGGACCAGAAGGAGCGgtctgaggtgttagtacctgggtggctttggttttgaagaacccccagggtgcaccact Alignment from Exonerate_coding2genome AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACG tggcttcttagaatggcagaagaagtctactatgccactcccctctgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGAACCAGAGGGAAGAACTGGTCCGGGACCTGGACCAGAAGGAGCGgtctgaggtgttagtacctgggtggctttggttttgaagaacccccagggtgcaccact Alignment from GeneWise AGTGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGTTGGAGGAGCTGGTGTCTCTGGTGAACCAGAGGGATGAACTGGTCCGGGACCTGGACCAGAAGGAACGG------AT tggcttcttagaatggcagaagaagtctactatgccactcccctctgcagAATGGCAGAAAACAGTTGCGCAGCAGCACCGCGAGCAACTCCTGCTGGAGGAGCTTGTGTCCTTAGTGAACCAGAGGGAAGAACTGGTCCGGGACCTGGACCAGAAGGAGCGGTCTGAGGTgttagtacctgggtggctttggttttgaagaacccccagggtgcaccact #### Ehbp1l1_ID1221_14 --> 2 - 0 Original Alignment gtGGGCCCCCTCCTACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gggaatttctgttattaactggagggacatacttttcatttttcccctaggtGGGCCCCCTCCTACCGAAAAGTCATCACCTAGCCTGGAGGAAGAGACA------gtaagtttagagatagttaggtgggagagtggctgtggtactttccaagc Alignment from CESAR gtGGGCCCCCTCCTACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACAGGCCTG gggaatttctgttattaactggagggacatacttttcatttttcccctaggtGGGCCCCCTCCTACCGAAAAGTCATCACCTAGCCTGGAGGAAGAGACA------gtaagtttagagatagttaggtgggagagtggctgtggtacttt Alignment from Spaln_aa2Genome GTGGGCCCCCTCCTACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACA gggaatttctgttattaactggagggacatacttttcatttttcccctagGTGGGCCCCCTCCTACCGAAAAGTCATCACCTAGCCTGGAGGAAGAGACAgtaagtttagagatagttaggtgggagagtggctgtggtactttccaagc Alignment from Spaln_nt2Genome GTGGGCCCCCTCCTACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACA gggaatttctgttattaactggagggacatacttttcatttttcccctagGTGGGCCCCCTCCTACCGAAAAGTCATCACCTAGCCTGGAGGAAGAGACAgtaagtttagagatagttaggtgggagagtggctgtggtactttccaagc Alignment from Pairagon GTGGGCCCCCTCCTACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACA gggaatttctgttattaactggagggacatacttttcatttttcccctagGTGGGCCCCCTCCTACCGAAAAGTCATCACCTAGCCTGGAGGAAGAGACAgtaagtttagagatagttaggtgggagagtggctgtggtactttccaagc Alignment from Exonerate_protein2genome GTGGGCCCCCTCCTACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACA gggaatttctgttattaactggagggacatacttttcatttttcccctagGTGGGCCCCCTCCTACCGAAAAGTCATCACCTAGCCTGGAGGAAGAGACAgtaagtttagagatagttaggtgggagagtggctgtggtactttccaagc Alignment from Exonerate_coding2genome GTGGGCCCCCTCCTACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACA gggaatttctgttattaactggagggacatacttttcatttttcccctagGTGGGCCCCCTCCTACCGAAAAGTCATCACCTAGCCTGGAGGAAGAGACAgtaagtttagagatagttaggtgggagagtggctgtggtactttccaagc Alignment from GeneWise GTGGGCCCCCTCCTACTGAGGAGTCATCACCCAGCCTGGGGGAAGAGACA---------GGCCTG gggaatttctgttattaactggagggacatacttttcatttttcccctagGTGGGCCCCCTCCTACCGAAAAGTCATCACCTAGCCTGGAGGAAGAGACAGTAAGTTTAGAGATAgttaggtgggagagtggctgtggtactttccaagc #### Ehbp1l1_ID1225_10 --> 0 - 2 Original Alignment GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGat agatcatgtgaatcagagtacatcccctcatctgaatgttgtactttcagGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAAGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTTTGTGCTATTTTACATCGATTCTACCCTGAC---atgtgagtccacaagggtcagggggtgggtggggtatgagactgccaggaca Alignment from CESAR GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGat agatcatgtgaatcagagtacatcccctcatctgaatgttgtactttcagGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAAGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTTTGTGCTATTTTACATCGATTCTACCCTGAC---atgtgagtccacaagggtcagggggtgggtggggtatgagactgccaggaca Alignment from Spaln_aa2Genome GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAA agatcatgtgaatcagagtacatcccctcatctgaatgttgtactttcagGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAAGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTTTGTGCTATTTTACATCGATTCTACCCTGACATgtgagtccacaagggtcagggggtgggtggggtatgagactgccaggaca Alignment from Spaln_nt2Genome GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT agatcatgtgaatcagagtacatcccctcatctgaatgttgtactttcagGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAAGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTTTGTGCTATTTTACATCGATTCTACCCTGAC---ATgtgagtccacaagggtcagggggtgggtggggtatgagactgccaggaca Alignment from Pairagon GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT agatcatgtgaatcagagtacatcccctcatctgaatgttgtactttcagGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAAGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTTTGTGCTATTTTACATCGATTCTACCCTGAC---ATgtgagtccacaagggtcagggggtgggtggggtatgagactgccaggaca Alignment from Exonerate_protein2genome GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT agatcatgtgaatcagagtacatcccctcatctgaatgttgtactttcagGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAAGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTTTGTGCTATTTTACATCGATTCTACCCTGAC---ATgtgagtccacaagggtcagggggtgggtggggtatgagactgccaggaca Alignment from Exonerate_coding2genome GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAAGAT agatcatgtgaatcagagtacatcccctcatctgaatgttgtactttcagGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAAGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTTTGTGCTATTTTACATCGATTCTACCCTGAC---ATgtgagtccacaagggtcagggggtgggtggggtatgagactgccaggaca Alignment from GeneWise GCACCACCTACCCTGGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAGGTCACCAACGGCTACCGTGGTGTCTGCATCACCAACTTCACCACGTCCTGGCGCAATGGCCTGGCCTTCTGTGCTATTTTACATCGATTCTACCCAGACAA agatcatgtgaatcagagtacatcccctcatctgaatgttgtactttcagGCACCACCTACCCTAGTCAGCTCCAGCCAGTCCCTGTTGGAGTGGTGCCAAGAAGTAACCAACGGCTACCGTGGTGTCTGCATCACCAAATTCACCACGTCCTGGCGCAACGGCCTGGCCTTTTGTGCTATTTTACATCGATTCTACCCTGACATgtgagtccacaagggtcagggggtgggtggggtatgagactgccaggaca #### Ehbp1l1_ID1227_8 --> 2 - 2 Original Alignment ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACA---------ag gactgaacctacataacgatgcccctggttacctccttgtcacccctcagccGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGGCATCTCCACCAGAGACACGTCAATACaggtaccgatcatatcagcttcaaggctgttagaagaggataccacacatcc Alignment from CESAR ctGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACA---------ag gactgaacctacataacgatgcccctggttacctccttgtcacccctcagccGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGGCATCTCCACCAGAGACACGTCAATACaggtaccgatcatatcagcttcaaggctgttagaagaggataccacacatcc Alignment from Spaln_aa2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAGG-------- gactgaacctacataacgatgcccctggttacctccttgtcacccctcagCCGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGGCATCTCCACCAGAGACACGTCAATACAGgtaccgatcatatcagcttcaaggctgttagaagaggataccacacatcc Alignment from Spaln_nt2Genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAA gactgaacctacataacgatgcccctggttacctccttgtcacccctcagCCGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGGCATCTCCACCAGAGACACgtcaatacaggtaccgatcatatcagcttcaaggctgttagaagaggataccacacatcc Alignment from Pairagon CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACA------------------------------------------------------------- gactgaacctacataacgatgcccctggttacctccttgtcacccctcagCCGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGGCATCTCCACCAGAGACACGTCAATACAGGTACCGATCATATCAGCTTCAAGGCTGTTAGAAGAGGATACCACACATCC Alignment from Exonerate_protein2genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gactgaacctacataacgatgcccctggttacctccttgtcacccctcagCCGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGGCATCTCCACCAGAGACACGtcaatacaggtaccgatcatatcagcttcaaggctgttagaagaggataccacacatcc Alignment from Exonerate_coding2genome CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAG gactgaacctacataacgatgcccctggttacctccttgtcacccctcagCCGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGGCATCTCCACCAGAGACACGtcaatacaggtaccgatcatatcagcttcaaggctgttagaagaggataccacacatcc Alignment from GeneWise CTGCCAGACCCTCTAGTGCTGAAGACACCAGCCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTCAGGGCCTTCCGGGGCCAGGGGTCAGAACCAGCTGCTATAACCGGGGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGCCATCCCCACCAGAGACAAGG-------- gactgaacctacataacgatgcccctggttacctccttgtcacccctcagCCGCCAGACCCTCTAGTGCTGAAGACACCAGTCCTGCCCCAGTGAGTGCCCCTGCACCCCCGGTTAGAGCTTTCCGGGGCCAGGGG---GAACCAGCTGCCATAACTGATGGCCAGGTGGGGCCTGAAACCCCAGAGCCCCCGGCATCTCCACCAGAGACACGTCAATACAGgtaccgatcatatcagcttcaaggctgttagaagaggataccacacatcc #### Ehbp1l1_ID1230_5 --> 0 - 2 Original Alignment GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac attgcaactacctatcttctcacttcccagcctccatgccattcctgcagGAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACTTAGACCATCACGCAGGGCCTGTACCTGCCCAGATTTCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATGCTGAGCTGAGCCTCACCCTTGCTGGG---CTGCTGCAAGAAGGC------acgtaagctttcacacacaccaatcctctactgcgctccctggcttgtgacc Alignment from CESAR GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCac attgcaactacctatcttctcacttcccagcctccatgccattcctgcagGAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACTTAGACCATCACGCAGGGCCTGTACCTGCCCAGATTTCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATGCTGAGCTGAGCCTCACCCTTGCTGGG---CTGCTGCAAGAAGGC------acgtaagctttcacacacaccaatcctctactgcgctccctggcttgtgacc Alignment from Spaln_aa2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCG attgcaactacctatcttctcacttcccagcctccatgccattcctgcagGAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACTTAGACCATCACGCAGGGCCTGTACCTGCCCAGATTTCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATGCTGAGCTGAGCCTCACCCTTGCTGGG---CTGCTGCAAGAAGGCACgtaagctttcacacacaccaatcctctactgcgctccctggcttgtgacc Alignment from Spaln_nt2Genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC attgcaactacctatcttctcacttcccagcctccatgccattcctgcagGAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACTTAGACCATCACGCAGGGCCTGTACCTGCCCAGATTTCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATGCTGAGCTGAGCCTCACCCTTGCTGG---GCTGCTGCAAGAAGG------CACgtaagctttcacacacaccaatcctctactgcgctccctggcttgtgacc Alignment from Pairagon GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC attgcaactacctatcttctcacttcccagcctccatgccattcctgcagGAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACTTAGACCATCACGCAGGGCCTGTACCTGCCCAGATTTCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATGCTGAGCTGAGCCTCACCCTTGCTGG---GCTGCTGCAAGAAGG------CACgtaagctttcacacacaccaatcctctactgcgctccctggcttgtgacc Alignment from Exonerate_protein2genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC attgcaactacctatcttctcacttcccagcctccatgccattcctgcagGAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACTTAGACCATCACGCAGGGCCTGTACCTGCCCAGATTTCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATGCTGAGCTGAGCCTCACCCTTGCTGGG---CTGCTGCAAGAAGGC------ACgtaagctttcacacacaccaatcctctactgcgctccctggcttgtgacc Alignment from Exonerate_coding2genome GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCGTGCCAC attgcaactacctatcttctcacttcccagcctccatgccattcctgcagGAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACTTAGACCATCACGCAGGGCCTGTACCTGCCCAGATTTCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATGCTGAGCTGAGCCTCACCCTTGCTGGG---CTGCTGCAAGAAGGC------ACgtaagctttcacacacaccaatcctctactgcgctccctggcttgtgacc Alignment from GeneWise GAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACCTAGCCCACCATGCAGGGCCTGTGCCTGCTCAGGTTCCACTTCGACTGCGGCTGAAGCCCAAATCTGTGAAGGTGGTGCATGCCGAACTGAGCCTCACCCTTTCTGGGGTGCTGCTGCGAGAAGGCCG attgcaactacctatcttctcacttcccagcctccatgccattcctgcagGAGTCCAAGGGACAGCGGAAGGTACTGGCCACAGTTGATGTGAACTTAGACCATCACGCAGGGCCTGTACCTGCCCAGATTTCACTTCGACTGCGGCAGAAGCCCAAATCTGTGAAGGTTGTGCATGCTGAGCTGAGCCTCACCCTTGCTGGG---CTGCTGCAAGAAGGCACgtaagctttcacacacaccaatcctctactgcgctccctggcttgtgacc #### Ehbp1l1_ID1231_4 --> 0 - 0 Original Alignment GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tggtgttgttcccagaaactctgtgtcctcaagcatcctttctgtggcag---CCTCATGTGGACCAGTACGAAACCAAAGAGTGGACTTTTATTATTGAAAATgtaagttactgggtacagcagacctccaattgagatcttaaggctccagt Alignment from CESAR GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT ttctggtgttgttcccagaaactcttcctcaagcatcctttctgtggcag---CCTCATGTGGACCAGTACGAAACCAAAGAGTGGACTTTTATTATTGAAAATgtaagttactgggtacagcagacctccaattgagatcttaaggctccagt Alignment from Spaln_aa2Genome GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tggtgttgttcccagaaactctgtgtcctcaagcatcctttctgtggcag---CCTCATGTGGACCAGTACGAAACCAAAGAGTGGACTTTTATTATTGAAAATgtaagttactgggtacagcagacctccaattgagatcttaaggctccagt Alignment from Spaln_nt2Genome CCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tggtgttgttcccagaaactctgtgtcctcaagcatcctttctgtggcagCCTCATGTGGACCAGTACGAAACCAAAGAGTGGACTTTTATTATTGAAAATgtaagttactgggtacagcagacctccaattgagatcttaaggctccagt Alignment from Pairagon GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tggtgttgttcccagaaactctgtgtcctcaagcatcctttctgtggcag---CCTCATGTGGACCAGTACGAAACCAAAGAGTGGACTTTTATTATTGAAAATgtaagttactgggtacagcagacctccaattgagatcttaaggctccagt Alignment from Exonerate_protein2genome GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tggtgttgttcccagaaactctgtgtcctcaagcatcctttctgtggCAGCCTCATGTGGACCAGTACGAAACCAAAGAGTGGACTTTTATTATTGAAAATgtaagttactgggtacagcagacctccaattgagatcttaaggctccagt Alignment from Exonerate_coding2genome GACCCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tggtgttgttcccagaaactctgtgtcctcaagcatcctttctgtggCAGCCTCATGTGGACCAGTACGAAACCAAAGAGTGGACTTTTATTATTGAAAATgtaagttactgggtacagcagacctccaattgagatcttaaggctccagt Alignment from GeneWise -----------------CCTCATGTGGACCAGTATGAAACCAAAGAGTGGACTTTTATTATTGAAAAT tggtgttgttcccagaaactctgtgtcctcaagCATCCTTTCTGTGGCAGCCTCATGTGGACCAGTACGAAACCAAAGAGTGGACTTTTATTATTGAAAATgtaagttactgggtacagcagacctccaattgagatcttaaggctccagt #### Ehbp1l1_ID1232_3 --> 0 - 0 Original Alignment GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- gataaggactcagcagtggtggggaataggacatgcttctatcttctcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTCGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAGGAGCgtaagtgccctgagcttggacatgggcaggcactgcagagagctcatggg Alignment from CESAR GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- gataaggactcagcagtggtggggaataggacatgcttctatcttctcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTCGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAGGAGCgtaagtgccctgagcttggacatgggcaggcactgcagagagctcatggg Alignment from Spaln_aa2Genome GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- gataaggactcagcagtggtggggaataggacatgcttctatcttctcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTCGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAGGAGCgtaagtgccctgagcttggacatgggcaggcactgcagagagctcatggg Alignment from Spaln_nt2Genome GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- gataaggactcagcagtggtggggaataggacatgcttctatcttctcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTCGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAGGAGCgtaagtgccctgagcttggacatgggcaggcactgcagagagctcatggg Alignment from Pairagon GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- gataaggactcagcagtggtggggaataggacatgcttctatcttctcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTCGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAGGAGCgtaagtgccctgagcttggacatgggcaggcactgcagagagctcatggg Alignment from Exonerate_protein2genome GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- gataaggactcagcagtggtggggaataggacatgcttctatcttctcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTCGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAGGAGCgtaagtgccctgagcttggacatgggcaggcactgcagagagctcatggg Alignment from Exonerate_coding2genome GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGG--- gataaggactcagcagtggtggggaataggacatgcttctatcttctcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTCGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAGGAGCgtaagtgccctgagcttggacatgggcaggcactgcagagagctcatggg Alignment from GeneWise GCCCACAGCTGGCAGCCTGGCATCCAGAACCCATACCGTGGCACCGTGGTATGGATGGTTCCTGAGAACGTGGACATCTCGGTGACCTTGTACAGGGAC gataaggactcagcagtggtggggaataggacatgcttctatcttctcagGCCCACAGCTGGCAGCCTGGCATTCAGAATCCATACCTCGGCACTGCAGTATGGATGGTTCCTGAGAATGTGGACATCTCAGTAACCTTGCACAGGAGCgtaagtgccctgagcttggacatgggcaggcactgcagagagctcatggg #### Eif3a_ID13317_13 --> 0 - 0 Original Alignment GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG tctgatgcaacaaagtaagtataatcctctttccgcatccattttaacag---CTTGAAGAACTGGACCCAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAAAAGGAACTTCAGGAACGCCTGAAGACTCAAGAAAAGAAGgtacacgtgggtcattgataggttctaaaccaaactggacctaaactgct Alignment from CESAR GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG agttctgatgcaacaaagtaagtatcctctttccgcatccattttaacag---CTTGAAGAACTGGACCCAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAAAAGGAACTTCAGGAACGCCTGAAGACTCAAGAAAAGAAGgtacacgtgggtcattgataggttctaaaccaaactggacctaaactgct Alignment from Spaln_aa2Genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG tctgatgcaacaaagtaagtataatcctctttccgcatccattttaacag---CTTGAAGAACTGGACCCAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAAAAGGAACTTCAGGAACGCCTGAAGACTCAAGAAAAGAAGgtacacgtgggtcattgataggttctaaaccaaactggacctaaactgct Alignment from Spaln_nt2Genome CTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG tctgatgcaacaaagtaagtataatcctctttccgcatccattttaacagCTTGAAGAACTGGACCCAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAAAAGGAACTTCAGGAACGCCTGAAGACTCAAGAAAAGAAGgtacacgtgggtcattgataggttctaaaccaaactggacctaaactgct Alignment from Pairagon GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG tctgatgcaacaaagtaagtataatcctctttccgcatccattttaacag---CTTGAAGAACTGGACCCAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAAAAGGAACTTCAGGAACGCCTGAAGACTCAAGAAAAGAAGgtacacgtgggtcattgataggttctaaaccaaactggacctaaactgct Alignment from Exonerate_protein2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG tctgatgcaacaaagtaagtataatcctctttccgcatccattttaaCAGCTTGAAGAACTGGACCCAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAAAAGGAACTTCAGGAACGCCTGAAGACTCAAGAAAAGAAGgtacacgtgggtcattgataggttctaaaccaaactggacctaaactgct Alignment from Exonerate_coding2genome GACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG tctgatgcaacaaagtaagtataatcctctttccgcatccattttaaCAGCTTGAAGAACTGGACCCAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAAAAGGAACTTCAGGAACGCCTGAAGACTCAAGAAAAGAAGgtacacgtgggtcattgataggttctaaaccaaactggacctaaactgct Alignment from GeneWise CTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAG tctgatgcaacaaagtaagtataatcctctttccgcatccattttaacagCTTGAAGAACTGGACCCAGATTTTATTATGGCCAAACAGGTAGAACAGCTGGAAAAAGAAAAAAAGGAACTTCAGGAACGCCTGAAGACTCAAGAAAAGAAGgtacacgtgggtcattgataggttctaaaccaaactggacctaaactgct #### Eif3a_ID13319_11 --> 0 - 0 Original Alignment ---------GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG catacagtcgaaatatatgcttggatatctgatgctttcgtaatccatagAAACTGCTGGTACGTATAGACCATACTTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGTATGCCTTCAGAACAGATAAGAAACCAGCTCACTGCCATGTCCTCAGTGCTCGCCAAAGCACTAGAAGTCATCAGACCTGCACACATTCTGgtaagcgtcttgaggagagatgatctgcacaaactttgatatggtgaggg Alignment from CESAR ---------GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG catacagtcgaaatatatgcttggatatctgatgctttcgtaatccatagAAACTGCTGGTACGTATAGACCATACTTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGTATGCCTTCAGAACAGATAAGAAACCAGCTCACTGCCATGTCCTCAGTGCTCGCCAAAGCACTAGAAGTCATCAGACCTGCACACATTCTGgtaagcgtcttgaggagagatgatctgcacaaactttgatatggtgaggg Alignment from Spaln_aa2Genome GTACGTATTGACCATACTTCC---------CGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG catacagtcgaaatatatgcttggatatctgatgctttcgtaatccatagAAACTGCTGGTACGTATAGACCATACTTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGTATGCCTTCAGAACAGATAAGAAACCAGCTCACTGCCATGTCCTCAGTGCTCGCCAAAGCACTAGAAGTCATCAGACCTGCACACATTCTGgtaagcgtcttgaggagagatgatctgcacaaactttgatatggtgaggg Alignment from Spaln_nt2Genome GGTACGTATTGACC--------ATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG catacagtcgaaatatatgcttggatatctgatgctttcgtaatccatagAAACTGCTGGTACGTATAGACCATACTTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGTATGCCTTCAGAACAGATAAGAAACCAGCTCACTGCCATGTCCTCAGTGCTCGCCAAAGCACTAGAAGTCATCAGACCTGCACACATTCTGgtaagcgtcttgaggagagatgatctgcacaaactttgatatggtgaggg Alignment from Pairagon ---------GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG catacagtcgaaatatatgcttggatatctgatgctttcgtaatccatagAAACTGCTGGTACGTATAGACCATACTTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGTATGCCTTCAGAACAGATAAGAAACCAGCTCACTGCCATGTCCTCAGTGCTCGCCAAAGCACTAGAAGTCATCAGACCTGCACACATTCTGgtaagcgtcttgaggagagatgatctgcacaaactttgatatggtgaggg Alignment from Exonerate_protein2genome GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG catacagtcgaaatatatgcttggatatctgatgctttcgtaatccatagaaactgctgGTACGTATAGACCATACTTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGTATGCCTTCAGAACAGATAAGAAACCAGCTCACTGCCATGTCCTCAGTGCTCGCCAAAGCACTAGAAGTCATCAGACCTGCACACATTCTGgtaagcgtcttgaggagagatgatctgcacaaactttgatatggtgaggg Alignment from Exonerate_coding2genome GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG catacagtcgaaatatatgcttggatatctgatgctttcgtaatccatagaaactgctgGTACGTATAGACCATACTTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGTATGCCTTCAGAACAGATAAGAAACCAGCTCACTGCCATGTCCTCAGTGCTCGCCAAAGCACTAGAAGTCATCAGACCTGCACACATTCTGgtaagcgtcttgaggagagatgatctgcacaaactttgatatggtgaggg Alignment from GeneWise ---------GTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTG catacagtcgaaatatatgcttggatatctgatgctttcgtaatccatagAAACTGCTGGTACGTATAGACCATACTTCCCGGACCCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGGGTATGCCTTCAGAACAGATAAGAAACCAGCTCACTGCCATGTCCTCAGTGCTCGCCAAAGCACTAGAAGTCATCAGACCTGCACACATTCTGgtaagcgtcttgaggagagatgatctgcacaaactttgatatggtgaggg #### Eif3a_ID13327_3 --> 0 - 2 Original Alignment GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGag cttagggtaaacattaaatcccacctccgtttgaatatttttatttgaag---------AAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGaggtgaggactatcaaggcacttcttaccatgaggtaatgttttgcaccaaa Alignment from CESAR GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGag gctgtccctcttagggtaaacattatccgtttgaatatttttatttgaag---------AAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGaggtgaggactatcaaggcacttcttaccatgaggtaatgttttgcaccaaa Alignment from Spaln_aa2Genome AAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttagggtaaacattaaatcccacctccgtttgaatatttttatttgaagAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgaggactatcaaggcacttcttaccatgaggtaatgttttgcaccaaa Alignment from Spaln_nt2Genome AAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttagggtaaacattaaatcccacctccgtttgaatatttttatttgaagAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgaggactatcaaggcacttcttaccatgaggtaatgttttgcaccaaa Alignment from Pairagon GGTAAACATT-----------------------------------AAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttagGGTAAACATTAAATCCCACCTCCGTTTGAATATTTTTATTTGAAGAAATCTTTAAAGGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgaggactatcaaggcacttcttaccatgaggtaatgttttgcaccaaa Alignment from Exonerate_protein2genome ATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttagggtaaacattaaatcccacctccgtttgaatatttttatttgaagaaATCTTTAAAGGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgaggactatcaaggcacttcttaccatgaggtaatgttttgcaccaaa Alignment from Exonerate_coding2genome ATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttagggtaaacattaaatcccacctccgtttgaatatttttatttgaagaaATCTTTAAAGGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgaggactatcaaggcacttcttaccatgaggtaatgttttgcaccaaa Alignment from GeneWise GTAAACATTAAATCTTTAGAAGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATTCAGACTCCTGAGAG cttagggtaaacattaaatcccacctccgtttgaatatttttatttgaagAAA---------TCTTTAAAGGATGTTGTTAGGGCATATTTGAAATTAGCAGAGGAAAAAACAGAAGCTGCTAAAGAAGAGTCCCAACAAATGGTGTTAGATATAGAAGATCTGGATAATATCCAGACTCCTGAGAGgtgaggactatcaaggcacttcttaccatgaggtaatgttttgcaccaaa #### Eml3_ID2503_3 --> 1 - 2 Original Alignment c------AGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac attattctgccttactgggagccatgggtgtgtctttcataaatttttagcGATAGGAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAGAAGAAGAGTTGGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTGAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGCAGCAGCAGCAGTGGGGCAGGCTCACCTGGTCCTCCAGGAATCCTCAGGCCGGTGCAACCCCTCCAGCGTTCGGACacgtaagctagctagtatggatgggaaagctgattaacgggcttgacttttt Alignment from CESAR cAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACac agtacaattattctgccttactgggagccatgtctttcataaatttttagcgataggAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAGAAGAAGAGTTGGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTGAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGCAGCAGCAGCAGTGGGGCAGGCTCACCTGGTCCTCCAGGAATCCTCAGGCCGGTGCAACCCCTCCAGCGTTCGGACacgtaagctagctagtatggatgggaaagctgattaacgggcttgacttttt Alignment from Spaln_aa2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC attattctgccttactgggagccatgggtgtgtctttcataaatttttagcgatagGAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAGAAGAAGAGTTGGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTGAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGCAGCAGCAGCAGTGGGGCAGGCTCACCTGGTCCTCCAGGAATCCTCAGGCCGGTGCAACCCCTCCAGCGTTCGGACACgtaagctagctagtatggatgggaaagctgattaacgggcttgacttttt Alignment from Spaln_nt2Genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC attattctgccttactgggagccatgggtgtgtctttcataaatttttagcgatagGAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAGAAGAAGAGTTGGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTGAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGCAGCAGCAGCAGTGGGGCAGGCTCACCTGGTCCTCCAGGAATCCTCAGGCCGGTGCAACCCCTCCAGCGTTCGGACACgtaagctagctagtatggatgggaaagctgattaacgggcttgacttttt Alignment from Pairagon CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC attattctgccttactgggagccatgggtgtgtctttcataaatttttagcgatagGAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAGAAGAAGAGTTGGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTGAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGCAGCAGCAGCAGTGGGGCAGGCTCACCTGGTCCTCCAGGAATCCTCAGGCCGGTGCAACCCCTCCAGCGTTCGGACACgtaagctagctagtatggatgggaaagctgattaacgggcttgacttttt Alignment from Exonerate_protein2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC attattctgccttactgggagccatgggtgtgtctttcataaatttttagcgatagGAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAGAAGAAGAGTTGGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTGAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGCAGCAGCAGCAGTGGGGCAGGCTCACCTGGTCCTCCAGGAATCCTCAGGCCGGTGCAACCCCTCCAGCGTTCGGACACgtaagctagctagtatggatgggaaagctgattaacgggcttgacttttt Alignment from Exonerate_coding2genome CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC attattctgccttactgggagccatgggtgtgtctttcataaatttttagcgatagGAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAGAAGAAGAGTTGGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTGAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGCAGCAGCAGCAGTGGGGCAGGCTCACCTGGTCCTCCAGGAATCCTCAGGCCGGTGCAACCCCTCCAGCGTTCGGACACgtaagctagctagtatggatgggaaagctgattaacgggcttgacttttt Alignment from GeneWise CAGCATCACAGTCCCTCCAGGACTGCCACCTACATGCAGCCCTTCCTTGGTGACCAGAGGCACCCAAACGGAAGAAGAATTGGAGATTGTTCCATCCTCTGGACCCCCTGGCCTGAGCAATGGTCCTCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGGACCCAGTCTGAAGGAGGGTGCAGCAGCAGCAGTGGGGCAGGCTCCCCTGGCCCCCCAGGAATCCTCAGGCCGGTGCAGCCTCTTCAGCGTTCTGACAC attattctgccttactgggagccatgggtgtgtctttcataaatttttagcgatagGAGCATCACAGTCCCTCCAGGGCTGCCACCAACCTGCAGCCCTTCCTTGGTGACAAGAGGCACACAAACAGAAGAAGAGTTGGAGATTGTCCCTTCCTCTGGACCCCCCGGCCTGAGCAATGGTCCGCCAGCTCTTCAGGGGGGCAGTGAAGAACCTAGTGGTATCCAGTTTCAAGGTGGGTGCAGCAGCAGCAGTGGGGCAGGCTCACCTGGTCCTCCAGGAATCCTCAGGCCGGTGCAACCCCTCCAGCGTTCGGACACgtaagctagctagtatggatgggaaagctgattaacgggcttgacttttt #### Eml3_ID2510_9 --> 0 - 0 Original Alignment CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG------ gattacaggtcagctttttttcccggcttgacccaacccttttctttcagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCACATGGTgtgaggtgagcatgaagcatggagcttgtgatcttgcttgtttgtttgtt Alignment from CESAR CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG------ gattacaggtcagctttttttcccggcttgacccaacccttttctttcagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCACATGGTgtgaggtgagcatgaagcatggagcttgtgatcttgcttgtttgtttgtt Alignment from Spaln_aa2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG------ gattacaggtcagctttttttcccggcttgacccaacccttttctttcagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCACATGGTgtgaggtgagcatgaagcatggagcttgtgatcttgcttgtttgtttgtt Alignment from Spaln_nt2Genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGC----G gattacaggtcagctttttttcccggcttgacccaacccttttctttcagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCACATGgtgtgaggtgagcatgaagcatggagcttgtgatcttgcttgtttgtttgtt Alignment from Pairagon CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGC-----------G gattacaggtcagctttttttcccggcttgacccaacccttttctttcagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCACATGGTGTGAGgtgagcatgaagcatggagcttgtgatcttgcttgtttgtttgtt Alignment from Exonerate_protein2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattacaggtcagctttttttcccggcttgacccaacccttttctttcagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCAcatggtgtgaggtgagcatgaagcatggagcttgtgatcttgcttgtttgtttgtt Alignment from Exonerate_coding2genome CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG gattacaggtcagctttttttcccggcttgacccaacccttttctttcagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCAcatggtgtgaggtgagcatgaagcatggagcttgtgatcttgcttgtttgtttgtt Alignment from GeneWise CCCCTGCAGCCCGTGGTTCATATCTGGGACTCAGAGACACTCCTAAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCG------ gattacaggtcagctttttttcccggcttgacccaacccttttctttcagCCCCTGCAGCCTGTGGTTCATATCTGGGACTCAGAGACACTCCTGAAACTGCAGGAGATTGGACTGGGTGCCTTTGAGCGAGGTGTGGGGGCCTTGGCCTTTTCAGCAGCACATGGTgtgaggtgagcatgaagcatggagcttgtgatcttgcttgtttgtttgtt #### Eml3_ID2514_13 --> 2 - 0 Original Alignment ag------------------------ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgcccctttgtctaaggtaagggcatgcagtttgctctttatctttgcagagTTTGGGAGGAAGTTACTTTTCAGAACCTACACAATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTATGTCTCCGCCAGGATGGAACAGTGCTGAGTGGTGGTGGGAGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtaagtgatgtgctggactctgggaagggatggggagacaaatggttagt Alignment from CESAR ag------------------------ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgcccctttgtctaaggtaagggcatgcagtttgctctttatctttgcagagTTTGGGAGGAAGTTACTTTTCAGAACCTACACAATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTATGTCTCCGCCAGGATGGAACAGTGCTGAGTGGTGGTGGGAGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtaagtgatgtgctggactctgggaagggatggggagacaaatggttagt Alignment from Spaln_aa2Genome -ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgcccctttgtctaaggtaagggcatgcagtttgctctttatctttgcagagtttgggaggaagttacttttcagAACCTACACAATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTATGTCTCCGCCAGGATGGAACAGTGCTGAGTGGTGGTGGGAGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtaagtgatgtgctggactctgggaagggatggggagacaaatggttagt Alignment from Spaln_nt2Genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgcccctttgtctaaggtaagggcatgcagtttgctctttatctttgcagagtttgggaggaagttacttttcagA-ACCTACACAATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTATGTCTCCGCCAGGATGGAACAGTGCTGAGTGGTGGTGGGAGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtaagtgatgtgctggactctgggaagggatggggagacaaatggttagt Alignment from Pairagon AG------------------------ACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgcccctttgtctaaggtaagggcatgcagtttgctctttatctttgcagAGTTTGGGAGGAAGTTACTTTTCAGAACCTACACAATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTATGTCTCCGCCAGGATGGAACAGTGCTGAGTGGTGGTGGGAGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtaagtgatgtgctggactctgggaagggatggggagacaaatggttagt Alignment from Exonerate_protein2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgcccctttgtctaaggtaagggcatgcagtttgctctttatctttgcagagtttgggaggaagttacttttcaGAACCTACACAATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTATGTCTCCGCCAGGATGGAACAGTGCTGAGTGGTGGTGGGAGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtaagtgatgtgctggactctgggaagggatggggagacaaatggttagt Alignment from Exonerate_coding2genome AGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgcccctttgtctaaggtaagggcatgcagtttgctctttatctttgcagagtttgggaggaagttacttttcaGAACCTACACAATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTATGTCTCCGCCAGGATGGAACAGTGCTGAGTGGTGGTGGGAGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtaagtgatgtgctggactctgggaagggatggggagacaaatggttagt Alignment from GeneWise -----------------------GAGACCTACACGATCGTGGCCCAGGCCCATGCTCACGAGGGGTCCATCTTTGCCCTGTGTCTCCGCCGGGATGGGACAGTGCTGAGTGGTGGTGGGCGGGACCGACGACTGGTGCAGTGGGGGCCCGGGTTGGTGGCCCTCCAGGAGGCAGAG tgcccctttgtctaaggtaagggcatgcagtttgctctttatctttgcagAGTTTGGGAGGAAGTTACTTTTCAGAACCTACACAATTGTGGCCCAGGCCCATGCTCATGAGGAGTCCATCTTTGCCCTATGTCTCCGCCAGGATGGAACAGTGCTGAGTGGTGGTGGGAGGGACCGACGACTGGTGCAGTGGGGGCCTGGGTTGGTGGCCCTCCAGGAGGCAGAGgtaagtgatgtgctggactctgggaagggatggggagacaaatggttagt #### Eml3_ID2515_14 --> 0 - 0 Original Alignment ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--- GGCCACACTGATGAGCTC ggggagacaaatggttagtatgctcttgcttactttcttttcaatacaagATTCCAGAACACTTTGGGGCAGTGAGAGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGGGCgtgagtactgctactttacgtgttcttcacagGGACACACTGACGAGCTC Alignment from CESAR ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG--- GGCCACACTGATGAGCTC ggggagacaaatggttagtatgctcttgcttactttcttttcaatacaagATTCCAGAACACTTTGGGGCAGTGAGAGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGGGCgtgagtactgatgttttcatatccacttttagGGACACACTGACGAGCTC Alignment from Spaln_aa2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC-----------------------------------CAGGGCCACACTGATGAGCTC ggggagacaaatggttagtatgctcttgcttactttcttttcaatacaagATTCCAGAACACTTTGGGGCAGTGAGAGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGGGCGTGAGTACTGCTACTTTACGTGTTCTTcaCAGGGACACACTGACGAGCTC Alignment from Spaln_nt2Genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATC-----------------------------------CAGGGCCACACTGATGAGCTC ggggagacaaatggttagtatgctcttgcttactttcttttcaatacaagATTCCAGAACACTTTGGGGCAGTGAGAGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGGGCGTGAGTACTGCTACTTTACGTGTTCTTCACAGGGACACACTGACGAGCTC Alignment from Pairagon ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAGGGC-----------------------------------CACACTGATGAGCTC ggggagacaaatggttagtatgctcttgcttactttcttttcaatacaagATTCCAGAACACTTTGGGGCAGTGAGAGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGGGCGTGAGTACTGCTACTTTACGTGTTCTTCACAGGGACACACTGACGAGCTC Alignment from Exonerate_protein2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGCTC ggggagacaaatggttagtatgctcttgcttactttcttttcaatacaagATTCCAGAACACTTTGGGGCAGTGAGAGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGggcgtgagtactgctactttacgtgttcttcacagGGACACACTGACGAGCTC Alignment from Exonerate_coding2genome ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAG GGCCACACTGATGAGCTC ggggagacaaatggttagtatgctcttgcttactttcttttcaatacaagATTCCAGAACACTTTGGGGCAGTGAGAGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGggcgtgagtactgctactttacgtgttcttcacagGGACACACTGACGAGCTC Alignment from GeneWise --------------------------------------------------ATTCCAGAACACTTTGGAGCTGTGAGGGCCATTGCTGAAGGGCTTGGCTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGCTTCTCCCCTGTTATCCAGGGC ---CACACTGATGAGCTC GGGGAGACAAATGGTTAGTATGCTCTTGCTTACTTTCTTTTCAATACAAGATTCCAGAACACTTTGGGGCAGTGAGAGCCATTGCTGAAGGGCTTGGTTCTGAGCTGCTGGTGGGAACCACAAAGAATGCATTACTGAGGGGAGATCTGGCTCAAGGTTTCTCCCCTGTTATCCAGGGCgtgagtactgctactttacgtgttcttcacagGGACACACTGACGAGCTC #### Eml3_ID2519_18 --> 2 - 0 Original Alignment atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgttgtgacacccacctctgcccctcccccacagat---TTGTACCTTGCAATAGGTTCACATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACCAAGTCCAGCCGCTTTGGCAGATGTATGgtattcatgctggggtagaagatagtatttgtccaactttggacacagta Alignment from CESAR atGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG taaatatgttgcccacccatgttgtacccacctctgcccctcccccacagat---TTGTACCTTGCAATAGGTTCACATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACCAAGTCCAGCCGCTTTGGCAGATGTATGgtattcatgctggggtagaagatagtatttgtccaactttggacacagta Alignment from Spaln_aa2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgttgtgacacccacctctgcccctcccccacagAT---TTGTACCTTGCAATAGGTTCACATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACCAAGTCCAGCCGCTTTGGCAGATGTATGgtattcatgctggggtagaagatagtatttgtccaactttggacacagta Alignment from Spaln_nt2Genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgttgtgacacccacctctgcccctcccccacagAT---TTGTACCTTGCAATAGGTTCACATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACCAAGTCCAGCCGCTTTGGCAGATGTATGgtattcatgctggggtagaagatagtatttgtccaactttggacacagta Alignment from Pairagon ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgttgtgacacccacctctgcccctcccccacagAT---TTGTACCTTGCAATAGGTTCACATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACCAAGTCCAGCCGCTTTGGCAGATGTATGgtattcatgctggggtagaagatagtatttgtccaactttggacacagta Alignment from Exonerate_protein2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgttgtgacacccacctctgcccctcccccacagAT---TTGTACCTTGCAATAGGTTCACATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACCAAGTCCAGCCGCTTTGGCAGATGTATGgtattcatgctggggtagaagatagtatttgtccaactttggacacagta Alignment from Exonerate_coding2genome ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgttgtgacacccacctctgcccctcccccacagAT---TTGTACCTTGCAATAGGTTCACATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACCAAGTCCAGCCGCTTTGGCAGATGTATGgtattcatgctggggtagaagatagtatttgtccaactttggacacagta Alignment from GeneWise ATGGGTTGTACCTGGCTATTGGTTCCCATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACTAAGTCCAGCCGCTTTGGCAGATGTATG atatgttgcccacccatgttgtgacacccacctctgcccctcccccacagAT---TTGTACCTTGCAATAGGTTCACATGACAACATGATCTACATCTATAGTGTTTCCAGTTGTGGCACCAAGTCCAGCCGCTTTGGCAGATGTATGgtattcatgctggggtagaagatagtatttgtccaactttggacacagta #### Fads1_ID2694_8 --> 0 - 2 Original Alignment ---------------------------GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag gaatccttggggatggtgaagacagtgccccaaccccacttctgctgcagTTTGGATTTCCAAATAACATGCACTCCGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTTACTTACATTTCACTGCCGGGGCTGAAGGGCTTCCTGGGGCTTTTTTTCATCGTCaggttggtacatgtggtgggatgtacaggtaggcttggacatcatggttagc Alignment from CESAR ---------------------------GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCag gaatccttggggatggtgaagacagtgccccaaccccacttctgctgcagTTTGGATTTCCAAATAACATGCACTCCGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTTACTTACATTTCACTGCCGGGGCTGAAGGGCTTCCTGGGGCTTTTTTTCATCGTCaggttggtacatgtggtgggatgtacaggtaggcttggacatcatggttagc Alignment from Spaln_aa2Genome GTGGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatccttggggatggtgaagacagtgccccaaccccacttctgctgcagtttggatttccaaataacatgcacTCCGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTTACTTACATTTCACTGCCGGGGCTGAAGGGCTTCCTGGGGCTTTTTTTCATCGTCAGgttggtacatgtggtgggatgtacaggtaggcttggacatcatggttagc Alignment from Spaln_nt2Genome GACTTGGCCT---GGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatccttggggatggtgaagacagtgccccaaccccacttctgctgcagtttggatttccaaataacatgcacTCCGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTTACTTACATTTCACTGCCGGGGCTGAAGGGCTTCCTGGGGCTTTTTTTCATCGTCAGgttggtacatgtggtgggatgtacaggtaggcttggacatcatggttagc Alignment from Pairagon ---------------------------GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatccttggggatggtgaagacagtgccccaaccccacttctgctgcagTTTGGATTTCCAAATAACATGCACTCCGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTTACTTACATTTCACTGCCGGGGCTGAAGGGCTTCCTGGGGCTTTTTTTCATCGTCAGgttggtacatgtggtgggatgtacaggtaggcttggacatcatggttagc Alignment from Exonerate_protein2genome ATGGGTGGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatccttggggatggtgaagacagtgccccaaccccacttctgctgcagtttggatttccaaataacatGCACTCCGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTTACTTACATTTCACTGCCGGGGCTGAAGGGCTTCCTGGGGCTTTTTTTCATCGTCAGgttggtacatgtggtgggatgtacaggtaggcttggacatcatggttagc Alignment from Exonerate_coding2genome ATGGGTGGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatccttggggatggtgaagacagtgccccaaccccacttctgctgcagtttggatttccaaataacatGCACTCCGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTTACTTACATTTCACTGCCGGGGCTGAAGGGCTTCCTGGGGCTTTTTTTCATCGTCAGgttggtacatgtggtgggatgtacaggtaggcttggacatcatggttagc Alignment from GeneWise ---------------------------GACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTCACTTACATGCCGCTGCTGGGGCTGAAAGGCTTCCTGGGCCTTTTCTTCATTGTCAG gaatccttggggatggtgaagacagtgccccaaccccacttctgctgcagTTTGGATTTCCAAATAACATGCACTCCGACTTGGCCTGGATGCTCAGCTTCTATGCCCGCATCTTCTTTACTTACATTTCACTGCCGGGGCTGAAGGGCTTCCTGGGGCTTTTTTTCATCGTCAGgttggtacatgtggtgggatgtacaggtaggcttggacatcatggttagc #### Fads1_ID2695_9 --> 1 - 0 Original Alignment gTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG catcatggttagctttgcctcttatcgattcatctccttccaccttccagg---CTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGACCCGGACCGAAATGTGGACTGGGTCTCCACCCAGgtaagatacagtccttgtagcccgcccttggctactgaagagggtagatg Alignment from CESAR gTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG ggacatcatggttagctttgcctctcgattcatctccttccaccttccagg---CTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGACCCGGACCGAAATGTGGACTGGGTCTCCACCCAGgtaagatacagtccttgtagcccgcccttggctactgaagagggtagatg Alignment from Spaln_aa2Genome GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG catcatggttagctttgcctcttatcgattcatctccttccaccttccagG---CTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGACCCGGACCGAAATGTGGACTGGGTCTCCACCCAGgtaagatacagtccttgtagcccgcccttggctactgaagagggtagatg Alignment from Spaln_nt2Genome GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG catcatggttagctttgcctcttatcgattcatctccttccaccttccagG---CTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGACCCGGACCGAAATGTGGACTGGGTCTCCACCCAGgtaagatacagtccttgtagcccgcccttggctactgaagagggtagatg Alignment from Pairagon GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG catcatggttagctttgcctcttatcgattcatctccttccaccttccagG---CTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGACCCGGACCGAAATGTGGACTGGGTCTCCACCCAGgtaagatacagtccttgtagcccgcccttggctactgaagagggtagatg Alignment from Exonerate_protein2genome GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG catcatggttagctttgcctcttatcgattcatctccttccaccttccagG---CTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGACCCGGACCGAAATGTGGACTGGGTCTCCACCCAGgtaagatacagtccttgtagcccgcccttggctactgaagagggtagatg Alignment from Exonerate_coding2genome GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG catcatggttagctttgcctcttatcgattcatctccttccaccttccagG---CTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGACCCGGACCGAAATGTGGACTGGGTCTCCACCCAGgtaagatacagtccttgtagcccgcccttggctactgaagagggtagatg Alignment from GeneWise GTTCCTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGATCACGACCGGAATGTGGACTGGGTCTCCACCCAG catcatggttagctttgcctcttatcgattcatctccttccaccttccagG---CTGGAAAGCAACTGGTTTGTGTGGGTGACACAGATGAACCATATCCCCATGCACATTGACCCGGACCGAAATGTGGACTGGGTCTCCACCCAGgtaagatacagtccttgtagcccgcccttggctactgaagagggtagatg #### Fads3_ID2666_9 --> 1 - 0 Original Alignment gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaacctaatcaaggatgctgtctctactacttctattgatcaggGTGCTGGAGAGCCACTGGTTCGTGTGGATCACACAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCT---gtgacatgtactgggaagcctgatgggagtatatactagccatggagtga Alignment from CESAR gGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaacctaatcaaggatgctgtctctactacttctattgatcaggGTGCTGGAGAGCCACTGGTTCGTGTGGATCACACAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCT---gtgacatgtactgggaagcctgatgggagtatatactagccatggag Alignment from Spaln_aa2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCT atggaataaacctaatcaaggatgctgtctctactacttctattgatcagGGTGCTGGAGAGCCACTGGTTCGTGTGGATCACACAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTgtgacatgtactgggaagcctgatgggagtatatactagccatggagtga Alignment from Spaln_nt2Genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCT----CAG atggaataaacctaatcaaggatgctgtctctactacttctattgatcagGGTGCTGGAGAGCCACTGGTTCGTGTGGATCACACAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTGTGACATgtactgggaagcctgatgggagtatatactagccatggagtga Alignment from Pairagon GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTC------------------------------------------------- atggaataaacctaatcaaggatgctgtctctactacttctattgatcagGGTGCTGGAGAGCCACTGGTTCGTGTGGATCACACAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTGTGACATGTACTGGGAAGCCTGATGGGAGTATATACTAGCCATGGAGTGA Alignment from Exonerate_protein2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaacctaatcaaggatgctgtctctactacttctattgatcagGGTGCTGGAGAGCCACTGGTTCGTGTGGATCACACAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTGTGacatgtactgggaagcctgatgggagtatatactagccatggagtga Alignment from Exonerate_coding2genome GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaacctaatcaaggatgctgtctctactacttctattgatcagGGTGCTGGAGAGCCACTGGTTCGTGTGGATCACACAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTGTGacatgtactgggaagcctgatgggagtatatactagccatggagtga Alignment from GeneWise GGTGCTGGAGAGCCACTGGTTCGTGTGGATCACGCAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGCTCTCAG atggaataaacctaatcaaggatgctgtctctactacttctattgatcagGGTGCTGGAGAGCCACTGGTTCGTGTGGATCACACAGATGAACCACATCCCCAAGGAGATTGGCCATGAAAAGCATCGGGACTGGGCAAGC---TCTgtgacatgtactgggaagcctgatgggagtatatactagccatggagtga #### Fads3_ID2667_10 --> 0 - 2 Original Alignment CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCAC---------------------------ca gccaaggtagtaagcaagttctctcccttgatatttctctctcccttcagTTGGCAGCCACCTGCAATGTGGAGTCATCACTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTTCAGATTGAGCACTATGTGAGCGGTGGTTTCGCTTTTACTcagtaagagtggcctggagggcttacttgctgggtccggacctagggctcag Alignment from CESAR CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCAC-ca gccaaggtagtaagcaagttctctcccttgatatttctctctcccttcagTTGGCAGCCACCTGCAATGTGGAGTCATCACTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTTCAGATTGAGCACTatgtgagcggtggtttcgcttttactcagtaagagtggcctggagggcttacttgctgggtccggacctagggctcag Alignment from Spaln_aa2Genome CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGA gccaaggtagtaagcaagttctctcccttgatatttctctctcccttcagTTGGCAGCCACCTGCAATGTGGAGTCATCACTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTTCAGATTGAgcactatgtgagcggtggtttcgcttttactcagtaagagtggcctggagggcttacttgctgggtccggacctagggctcag Alignment from Spaln_nt2Genome CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA- gccaaggtagtaagcaagttctctcccttgatatttctctctcccttcagTTGGCAGCCACCTGCAATGTGGAGTCATCACTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTTCAGATTGAGCACTATgtgagcggtggtttcgcttttactcagtaagagtggcctggagggcttacttgctgggtccggacctagggctcag Alignment from Pairagon CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCA- gccaaggtagtaagcaagttctctcccttgatatttctctctcccttcagTTGGCAGCCACCTGCAATGTGGAGTCATCACTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTTCAGATTGAGCACTATgtgagcggtggtttcgcttttactcagtaagagtggcctggagggcttacttgctgggtccggacctagggctcag Alignment from Exonerate_protein2genome CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCAC gccaaggtagtaagcaagttctctcccttgatatttctctctcccttcagTTGGCAGCCACCTGCAATGTGGAGTCATCACTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTTCAGATTGAGCACTATgtgagcggtggtttcgcttttactcagtaagagtggcctggagggcttacttgctgggtccggacctagggctcag Alignment from Exonerate_coding2genome CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCACCAC gccaaggtagtaagcaagttctctcccttgatatttctctctcccttcagTTGGCAGCCACCTGCAATGTGGAGTCATCACTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTTCAGATTGAGCACTATgtgagcggtggtttcgcttttactcagtaagagtggcctggagggcttacttgctgggtccggacctagggctcag Alignment from GeneWise CTGGCAGCCACCTGCAATGTGGAACCTTCGCTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTCCAGATTGAGCAC---------------------------CA gccaaggtagtaagcaagttctctcccttgatatttctctctcccttcagTTGGCAGCCACCTGCAATGTGGAGTCATCACTCTTCATTGACTGGTTCAGCGGGCACCTCAATTTTCAGATTGAGCACTATGTGAGCGGTGGTTTCGCTTTTACTCAgtaagagtggcctggagggcttacttgctgggtccggacctagggctcag #### Fam160b1_ID12353_4 --> 0 - 0 Original Alignment TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG gtatcgtggacctttctattgcagcttctgagtctcttctttccttgtag------------------------GTTTTAGTACTCTATACCAAGCTTCTGGAACGAATCCAGCAACCACTACTTCCACACGTCAATGTGCACAGGCCTGTGCAGgtaaggattctccctaagaataaaaatagtggagaaaaatatcataacat Alignment from CESAR TGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG gtcctgctgcaaacatttgaatatgttctgagtctcttctttccttgtag------------------------GTTTTAGTACTCTATACCAAGCTTCTGGAACGAATCCAGCAACCACTACTTCCACACGTCAATGTGCACAGGCCTGTGCAGgtaaggattctccctaagaataaaaatagtggagaaaaatatcataacat Alignment from Spaln_aa2Genome GTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG gtatcgtggacctttctattgcagcttctgagtctcttctttccttgtagGTTTTAGTACTCTATACCAAGCTTCTGGAACGAATCCAGCAACCACTACTTCCACACGTCAATGTGCACAGGCCTGTGCAGgtaaggattctccctaagaataaaaatagtggagaaaaatatcataacat Alignment from Spaln_nt2Genome GTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG gtatcgtggacctttctattgcagcttctgagtctcttctttccttgtagGTTTTAGTACTCTATACCAAGCTTCTGGAACGAATCCAGCAACCACTACTTCCACACGTCAATGTGCACAGGCCTGTGCAGgtaaggattctccctaagaataaaaatagtggagaaaaatatcataacat Alignment from Pairagon ACTGCCCTCCAGGAATGAAGCAGCAGGTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG gtatcgtggacctttctattgcagcttctgagtctcttctttccttgtag--------------------------GTTTTAGTACTCTATACCAAGCTTCTGGAACGAATCCAGCAACCACTACTTCCACACGTCAATGTGCACAGGCCTGTGCAGgtaaggattctccctaagaataaaaatagtggagaaaaatatcataacat Alignment from Exonerate_protein2genome GTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG gtatcgtggacctttctattgcagcttctgagtctcttctttccttgtagGTTTTAGTACTCTATACCAAGCTTCTGGAACGAATCCAGCAACCACTACTTCCACACGTCAATGTGCACAGGCCTGTGCAGgtaaggattctccctaagaataaaaatagtggagaaaaatatcataacat Alignment from Exonerate_coding2genome GTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG gtatcgtggacctttctattgcagcttctgagtctcttctttccttgtagGTTTTAGTACTCTATACCAAGCTTCTGGAACGAATCCAGCAACCACTACTTCCACACGTCAATGTGCACAGGCCTGTGCAGgtaaggattctccctaagaataaaaatagtggagaaaaatatcataacat Alignment from GeneWise GTTTTGGTGTTCTATACCAAGCTTCTGGGACGAATCCGGCAGCCCCTGCTTCCACACATCAACGTACACAGGCCTGTGCAG gtatcgtggacctttctattgcagcttctgagtctcttctttccttgtagGTTTTAGTACTCTATACCAAGCTTCTGGAACGAATCCAGCAACCACTACTTCCACACGTCAATGTGCACAGGCCTGTGCAGgtaaggattctccctaagaataaaaatagtggagaaaaatatcataacat #### Fam160b1_ID12360_11 --> 0 - 2 Original Alignment ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCgt atggtgcctgactggaaagttcccctcaacatcttattcttcatgcctagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATA---------gtgtaagggtcccgtatgttcactctgtaagtggcatctccccagccaggag Alignment from CESAR ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCgt atggtgcctgactggaaagttcccctcaacatcttattcttcatgcctagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATA---------gtgtaagggtcccgtatgttcactctgtaagtggcatctccccagccaggag Alignment from Spaln_aa2Genome ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGC atggtgcctgactggaaagttcccctcaacatcttattcttcatgcctagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGTgtaagggtcccgtatgttcactctgtaagtggcatctccccagccaggag Alignment from Spaln_nt2Genome ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGC atggtgcctgactggaaagttcccctcaacatcttattcttcatgcctagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGTgtaagggtcccgtatgttcactctgtaagtggcatctccccagccaggag Alignment from Pairagon ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGCAGGCGCCGT atggtgcctgactggaaagttcccctcaacatcttattcttcatgcctagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATA---------GTgtaagggtcccgtatgttcactctgtaagtggcatctccccagccaggag Alignment from Exonerate_protein2genome ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGC atggtgcctgactggaaagttcccctcaacatcttattcttcatgcctagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGTgtaagggtcccgtatgttcactctgtaagtggcatctccccagccaggag Alignment from Exonerate_coding2genome ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGC atggtgcctgactggaaagttcccctcaacatcttattcttcatgcctagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGTgtaagggtcccgtatgttcactctgtaagtggcatctccccagccaggag Alignment from GeneWise ATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAAGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCGGAAGACAAGGACGTGGTGGAGAACGGGCTGATAGC atggtgcctgactggaaagttcccctcaacatcttattcttcatgcctagATCAGCATCATGACCCTGAGGATGTTTGAGCATCTCCTACAAAAGCCCAATGAACACATCCTCTACAACCTGGTCTTGAGAAACCTGGAGGAAAGAAACTATACGGAGAACAAACCTTCCTGCCCAGAAGACAAGGATGTGGTGGAGAATGGGCTGATAGTgtaagggtcccgtatgttcactctgtaagtggcatctccccagccaggag #### Fam160b1_ID12361_12 --> 1 - 2 Original Alignment aGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAACag tgagaaaatatcataataagtggtgctacgcctcatgctcctacctctagaGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACAGAAGTGCATAAAGTG------aggtaagtcaggctcacatgattgcggtgagtgtgtcatgcatttgagctgg Alignment from CESAR aGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAACag tgagaaaatatcataataagtggtgctacgcctcatgctcctacctctagaGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACAGAAGTGCATAAAGTG------aggtaagtcaggctcacatgattgcggtgagtgtgtcatgcatttgagctgg Alignment from Spaln_aa2Genome AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGT tgagaaaatatcataataagtggtgctacgcctcatgctcctacctctagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACAGAAGTGCATAAAGTGAGgtaagtcaggctcacatgattgcggtgagtgtgtcatgcatttgagctgg Alignment from Spaln_nt2Genome AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAACAG tgagaaaatatcataataagtggtgctacgcctcatgctcctacctctagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACAGAAGTGCATAAAGTG------AGgtaagtcaggctcacatgattgcggtgagtgtgtcatgcatttgagctgg Alignment from Pairagon AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTGGTCAACAG tgagaaaatatcataataagtggtgctacgcctcatgctcctacctctagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACAGAAGTGCATAAAGTG------AGgtaagtcaggctcacatgattgcggtgagtgtgtcatgcatttgagctgg Alignment from Exonerate_protein2genome AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAA tgagaaaatatcataataagtggtgctacgcctcatgctcctacctctagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACAGAAGTGCATAAAgtgaggtaagtcaggctcacatgattgcggtgagtgtgtcatgcatttgagctgg Alignment from Exonerate_coding2genome AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAA tgagaaaatatcataataagtggtgctacgcctcatgctcctacctctagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACAGAAGTGCATAAAgtgaggtaagtcaggctcacatgattgcggtgagtgtgtcatgcatttgagctgg Alignment from GeneWise AGATCTGGAGGAAGATCCATTATTTACTGACATTTCACCAGATAACACTCTGCCCAACCAAGAGTGGATTTGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACGGAAGTGCATAAAGTG-- tgagaaaatatcataataagtggtgctacgcctcatgctcctacctctagAGATCTAGAAGAAGATCCATTATTTACTGATATTTCACCAGACAACACTCTGCCCAACCAAGAGTGGATATGTTCACCCCGCACCAGCCCAGACCATCCCAAAAATGATGGCAAGACAGAAGTGCATAAAGTGAGgtaagtcaggctcacatgattgcggtgagtgtgtcatgcatttgagctgg #### Fau_ID1402_2 --> 0 - 1 Original Alignment GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGA---------------------------g cacaggaaaagtttgtgtatatgtagaccaccctgtcttactctttgcagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTTGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCCGACCACTCTGGAGGTAGCAGGCCGCATGCTTGGAATCCATGGGGAAGCTACGGTTGCTCGGggtaagcggtgggaggttagttcagtgctttttttcagagctaagtgaata Alignment from CESAR GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGAg cacaggaaaagtttgtgtatatgtagaccaccctgtcttactctttgcagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTTGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCCGACCACTCTGGAGGTAGCAGGCCGCATGCTTGGAatccatggggaagctacggttgctcggggtaagcggtgggaggttagttcagtgctttttttcagagctaagtgaata Alignment from Spaln_aa2Genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGA---------------------GGTAAAG cacaggaaaagtttgtgtatatgtagaccaccctgtcttactctttgcagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTTGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCCGACCACTCTGGAGGTAGCAGGCCGCATGCTTGGAATCCATGGGGAAGCTACGGTTGCTCGGGgtaagcggtgggaggttagttcagtgctttttttcagagctaagtgaata Alignment from Spaln_nt2Genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCT-----------GGGAG cacaggaaaagtttgtgtatatgtagaccaccctgtcttactctttgcagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTTGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCCGACCACTCTGGAGGTAGCAGGCCGCATGCTTGGAATCCATGGGGAAgctacggttgctcggggtaagcggtgggaggttagttcagtgctttttttcagagctaagtgaata Alignment from Pairagon GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGC-----------------------------------------TGGGAG cacaggaaaagtttgtgtatatgtagaccaccctgtcttactctttgcagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTTGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCCGACCACTCTGGAGGTAGCAGGCCGCATGCTTGGAATCCATGGGGAAGCTACGGTTGCTCGGGGTAAGCGGTGGGAGgttagttcagtgctttttttcagagctaagtgaata Alignment from Exonerate_protein2genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGAGGTAAAG cacaggaaaagtttgtgtatatgtagaccaccctgtcttactctttgcagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTTGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCCGACCACTCTGGAGGTAGCAGGCCGCATGCTTGGAATCCATGgggaagctacggttgctcggggtaagcggtgggaggttagttcagtgctttttttcagagctaagtgaata Alignment from Exonerate_coding2genome GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGAGGTAAAG cacaggaaaagtttgtgtatatgtagaccaccctgtcttactctttgcagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTTGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCCGACCACTCTGGAGGTAGCAGGCCGCATGCTTGGAATCCATGgggaagctacggttgctcggggtaagcggtgggaggttagttcagtgctttttttcagagctaagtgaata Alignment from GeneWise GATCATGTGGCCTCCCTGGAAGGCATTGCCCCCGAAGATCAAGTCGTGCTTCTGGCAGGCTCGCCGCTGGAGGATGAGGCCACCCTAGGCCAGTGTGGCGTAGAGGCCCTGACCACTCTGGAAGTAGCAGGCCGCATGCTGGGAGGTAAAGTTCACGGTTCCCTGGCTCGGGCTGGAAAAGTGAGAGGTCAGACTCCCAAG cacaggaaaagtttgtgtatatgtagaccaccctgtcttactctttgcagGATCATGTGGCCTCCCTGGAAGGCATGGCCCCTGAAGATCAAGCTGTGCTTCTTGCAGGCTCACCACTGGAAGATGAGGCCACCCTGGGCCAGTGTGGTGTAGAGGCCCCGACCACTCTGGAGGTAGCAGGCCGCATGCTTGGA------ATCCATGGGGAAGCTACGGTTGCTCGGGGTAAGCGGTGGGAGGTTAGTTCAgtgctttttttcagagctaagtgaata #### Fgf8_ID9567_2 --> 1 - 0 Original Alignment gCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCCAG gccccatccgcttcttgagcctctttccgatggttctgcccctcccccaggTTGTTGCAATTGCTGGTTCTCTGCCTCCAA------gtgagtgcataaagtgcacccaagtaaggagtgagaggcaggaggcagag Alignment from CESAR gCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCCAG gccccatccgcttcttgagcctctttccgatggttctgcccctcccccaggTTGTTGCAATTGCTGGTTCTCTGCCTCCAA------gtgagtgcataaagtgcacccaagtaaggagtgagaggcaggag Alignment from Spaln_aa2Genome GCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCCAG gccccatccgcttcttgagcctctttccgatggttctgcccctcccccagGTTGTTGCAATTGCTGGTTCTCTGCCTCCAAGTGAGTgcataaagtgcacccaagtaaggagtgagaggcaggaggcagag Alignment from Spaln_nt2Genome GCTGTTGCACTTGCTGGTTCTCTGCCTCCAA gccccatccgcttcttgagcctctttccgatggttctgcccctcccccagGTTGTTGCAATTGCTGGTTCTCTGCCTCCAAgtgagtgcataaagtgcacccaagtaaggagtgagaggcaggaggcagag Alignment from Pairagon GCTGTTGCACTTGCTGGTTCTCTGCCTCCAA gccccatccgcttcttgagcctctttccgatggttctgcccctcccccagGTTGTTGCAATTGCTGGTTCTCTGCCTCCAAgtgagtgcataaagtgcacccaagtaaggagtgagaggcaggaggcagag Alignment from Exonerate_protein2genome GCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCC gccccatccgcttcttgagcctctttccgatggttctgcccctcccccagGTTGTTGCAATTGCTGGTTCTCTGCCTCCAAGTGAgtgcataaagtgcacccaagtaaggagtgagaggcaggaggcagag Alignment from Exonerate_coding2genome GCTGTTGCACTTGCTGGTTCTCTGCCTCCAAGCCC gccccatccgcttcttgagcctctttccgatggttctgcccctcccccagGTTGTTGCAATTGCTGGTTCTCTGCCTCCAAGTGAgtgcataaagtgcacccaagtaaggagtgagaggcaggaggcagag Alignment from GeneWise gccccatccgcttcttgagcctctttccgatggttctgcccctcccccaggttgttgcaattgctggttctctgcctccaagtgagtgcataaagtgcacccaagtaaggagtgagaggcaggaggcagag #### Fibp_ID1005_2 --> 2 - 2 Original Alignment tgAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAG---------------ag tggaacacccggggggcctctagggtcttcttgaccttacttcgcaacagtgAATGATGCAGTGGCTCTGCGAGTACGTTCTGGAATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTGCAGAGTGACACCATGGACCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATGCACCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGGTTCCTCCCTCCCGCCAGACGCTCCTCATCGAGATGGACGTCAGAAATaggtaagtaacagggtggtgggtggggtgggtactggtaggggtgtcagtca Alignment from CESAR tgAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAG---------------ag tggaacacccggggggcctctagggtcttcttgaccttacttcgcaacagtgAATGATGCAGTGGCTCTGCGAGTACGTTCTGGAATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTGCAGAGTGACACCATGGACCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATGCACCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGGTTCCTCCCTCCCGCCAGACGCTCCTCATCGAGATGGACGTCAGAAATaggtaagtaacagggtggtgggtggggtgggtactggtaggggtgtcagtca Alignment from Spaln_aa2Genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAGG-------------- tggaacacccggggggcctctagggtcttcttgaccttacttcgcaacagTGAATGATGCAGTGGCTCTGCGAGTACGTTCTGGAATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTGCAGAGTGACACCATGGACCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATGCACCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGGTTCCTCCCTCCCGCCAGACGCTCCTCATCGAGATGGACGTCAGAAATAGgtaagtaacagggtggtgggtggggtgggtactggtaggggtgtcagtca Alignment from Spaln_nt2Genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG---- tggaacacccggggggcctctagggtcttcttgaccttacttcgcaacagTGAATGATGCAGTGGCTCTGCGAGTACGTTCTGGAATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTGCAGAGTGACACCATGGACCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATGCACCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGGTTCCTCCCTCCCGCCAGACGCTCCTCATCGAGATGGACgtcagaaataggtaagtaacagggtggtgggtggggtgggtactggtaggggtgtcagtca Alignment from Pairagon TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAG---------------AG tggaacacccggggggcctctagggtcttcttgaccttacttcgcaacagTGAATGATGCAGTGGCTCTGCGAGTACGTTCTGGAATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTGCAGAGTGACACCATGGACCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATGCACCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGGTTCCTCCCTCCCGCCAGACGCTCCTCATCGAGATGGACGTCAGAAATAGgtaagtaacagggtggtgggtggggtgggtactggtaggggtgtcagtca Alignment from Exonerate_protein2genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG tggaacacccggggggcctctagggtcttcttgaccttacttcgcaacagTGAATGATGCAGTGGCTCTGCGAGTACGTTCTGGAATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTGCAGAGTGACACCATGGACCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATGCACCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGGTTCCTCCCTCCCGCCAGACGCTCCTCATCGAGATggacgtcagaaataggtaagtaacagggtggtgggtggggtgggtactggtaggggtgtcagtca Alignment from Exonerate_coding2genome TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAGAG tggaacacccggggggcctctagggtcttcttgaccttacttcgcaacagTGAATGATGCAGTGGCTCTGCGAGTACGTTCTGGAATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTGCAGAGTGACACCATGGACCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATGCACCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGGTTCCTCCCTCCCGCCAGACGCTCCTCATCGAGATggacgtcagaaataggtaagtaacagggtggtgggtggggtgggtactggtaggggtgtcagtca Alignment from GeneWise TGAACGATGCAGTGGCTCTGCGAGTACGCTCCGGAATCTTGGAGCAGACGGGAGCCACCACAGGAGTGCTGCAGAGCGACACCATGGACCACTACCGCACCTTTCACATGCTTGAGCGTCTGCTGCACGCGCCGCCGAAGCTGCTGCACCAGCTCATCTTCCAGATTCCTCCCTCCCGACAGACACTCCTCATCGAG---------------AG tggaacacccggggggcctctagggtcttcttgaccttacttcgcaacagTGAATGATGCAGTGGCTCTGCGAGTACGTTCTGGAATTTTAGAGCAGACTGGAGCCACCACAGGAGTGCTGCAGAGTGACACCATGGACCACTACCGCACCTTTCGCATGCTTGAGCGACTGCTACATGCACCCCCAAAGCTCCTGCATCAGCTCATCTTCCAGGTTCCTCCCTCCCGCCAGACGCTCCTCATCGAGATGGACGTCAGAAATAGgtaagtaacagggtggtgggtggggtgggtactggtaggggtgtcagtca #### Fibp_ID1009_6 --> 2 - 2 Original Alignment acTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGag caagatggtttatgcatatacaacaagtccaccgtgtccctttcttctagac---CAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTGGACCTGCATAAGaggtaagtgtggggtgcatgaggcataggatacaacacacttagtttatagc Alignment from CESAR acTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGag gcccaagatggtttatgcatatacaagtccaccgtgtccctttcttctagac---CAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTGGACCTGCATAAGaggtaagtgtggggtgcatgaggcataggatacaacacacttagtttatagc Alignment from Spaln_aa2Genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caagatggtttatgcatatacaacaagtccaccgtgtccctttcttctagAC---CAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAGgtaagtgtggggtgcatgaggcataggatacaacacacttagtttatagc Alignment from Spaln_nt2Genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caagatggtttatgcatatacaacaagtccaccgtgtccctttcttctagAC---CAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAGgtaagtgtggggtgcatgaggcataggatacaacacacttagtttatagc Alignment from Pairagon ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caagatggtttatgcatatacaacaagtccaccgtgtccctttcttctagAC---CAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAGgtaagtgtggggtgcatgaggcataggatacaacacacttagtttatagc Alignment from Exonerate_protein2genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caagatggtttatgcatatacaacaagtccaccgtgtccctttcttctagAC---CAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAGgtaagtgtggggtgcatgaggcataggatacaacacacttagtttatagc Alignment from Exonerate_coding2genome ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caagatggtttatgcatatacaacaagtccaccgtgtccctttcttctagAC---CAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAGgtaagtgtggggtgcatgaggcataggatacaacacacttagtttatagc Alignment from GeneWise ACTCTCAGGTGGACGACATGGATGTGGACTTAGATAAGGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTCGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAG caagatggtttatgcatatacaacaagtccaccgtgtccctttcttctagAC---CAGGTGGATGACATGGATGTTGACTTAGATAAAGAGTTTCTCCAAGACTTGAAGGAGCTCAAGGTTCTTGTGGCTGACAAGGACCTCCTGGACCTGCATAAGAGgtaagtgtggggtgcatgaggcataggatacaacacacttagtttatagc #### Fkbp2_ID1946_3 --> 1 - 1 Original Alignment g------ATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGg tgggccatgggtctgggcatttcaggtggcttgtgtatattttgctacaggGTCCGAATGTGTGAAGGAGAAAGGCGGAAGTTGGTGATCCCATCAGAGCTGggtaactggacatggtggttgggaggtaatgggatctggagagggcttaaa Alignment from CESAR g------ATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGg tgggccatgggtctgggcatttcaggtggcttgtgtatattttgctacaggGTCCGAATGTGTGAAGGAGAAAGGCGGAAGTTGGTGATCCCATCAGAGCTGggtaactggacatggtggttgggaggtaatgggatctggagagggcttaaa Alignment from Spaln_aa2Genome GCTGGGGATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG tgggccatgggtctgggcatttcaggtggcttgtgtatattttgctacagGGTCCGAATGTGTGAAGGAGAAAGGCGGAAGTTGGTGATCCCATCAGAGCTGGgtaactggacatggtggttgggaggtaatgggatctggagagggcttaaa Alignment from Spaln_nt2Genome GATGTGTGAA------GGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG tgggccatgggtctgggcatttcaggtggcttgtgtatattttgctacagGGTCCGAATGTGTGAAGGAGAAAGGCGGAAGTTGGTGATCCCATCAGAGCTGGgtaactggacatggtggttgggaggtaatgggatctggagagggcttaaa Alignment from Pairagon ---------------------------------------------------------ATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG TGGGCCATGGGTCTGGGCATTTCAGGTGGCTTGTGTATATTTTGCTACAGGGTCCGAATGTGTGAAGGAGAAAGGCGGAAGTTGGTGATCCCATCAGAGCTGGgtaactggacatggtggttgggaggtaatgggatctggagagggcttaaa Alignment from Exonerate_protein2genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG tgggccatgggtctgggcatttcaggtggcttgtgtatattttgctacagggtccgAATGTGTGAAGGAGAAAGGCGGAAGTTGGTGATCCCATCAGAGCTGGgtaactggacatggtggttgggaggtaatgggatctggagagggcttaaa Alignment from Exonerate_coding2genome GATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG tgggccatgggtctgggcatttcaggtggcttgtgtatattttgctacagggtccgAATGTGTGAAGGAGAAAGGCGGAAGTTGGTGATCCCATCAGAGCTGGgtaactggacatggtggttgggaggtaatgggatctggagagggcttaaa Alignment from GeneWise ----GGGATGTGTGAAGGGGAAAAGCGGAAGTTGGTGATCCCATCCGAGCTGG tgggccatgggtctgggcatttcaggtggcttgtgtatattttgctacagGGTCCGAATGTGTGAAGGAGAAAGGCGGAAGTTGGTGATCCCATCAGAGCTGGgtaactggacatggtggttgggaggtaatgggatctggagagggcttaaa #### Fkbp2_ID1947_2 --> 0 - 2 Original Alignment ------GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg tggagcaacctctccttactagtttttctagccgtcttcttcttcctaagGGTGCCGGAAAGCTAGAAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgggtgaggctggtctgtggtacatgttgtagtgagtgctacagcaagtgagc Alignment from CESAR ------GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgg tggagcaacctctccttactagtttttctagccgtcttcttcttcctaagGGTGCCGGAAAGCTAGAAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGgggtgaggctggtctgtggtacatgttgtagtgagtgctacagcaagtgagc Alignment from Spaln_aa2Genome GGAAAGCTAGAA------GATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG tggagcaacctctccttactagtttttctagccgtcttcttcttcctaagGGTGCCGGAAAGCTAGAAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGGgtgaggctggtctgtggtacatgttgtagtgagtgctacagcaagtgagc Alignment from Spaln_nt2Genome CGGGAAAGCTA----GAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG tggagcaacctctccttactagtttttctagccgtcttcttcttcctaagGGTGCCGGAAAGCTAGAAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGGgtgaggctggtctgtggtacatgttgtagtgagtgctacagcaagtgagc Alignment from Pairagon -------------------------GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG tggagcaacctctccttactagtttttctagCCGTCTTCTTCTTCCTAAGGGTGCCGGAAAGCTAGAAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGGgtgaggctggtctgtggtacatgttgtagtgagtgctacagcaagtgagc Alignment from Exonerate_protein2genome ------GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG tggagcaacctctccttactagtttttctagccgtcttcttcttcctaagGGTGCCGGAAAGCTAGAAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGGgtgaggctggtctgtggtacatgttgtagtgagtgctacagcaagtgagc Alignment from Exonerate_coding2genome ------GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG tggagcaacctctccttactagtttttctagccgtcttcttcttcctaagGGTGCCGGAAAGCTAGAAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGGgtgaggctggtctgtggtacatgttgtagtgagtgctacagcaagtgagc Alignment from GeneWise ------GGAAAGCTAGAAGATGGGACGGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTGTTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGG tggagcaacctctccttactagtttttctagccgtcttcttcttcctaagGGTGCCGGAAAGCTAGAAGATGGGACAGAGTTTGACAGCAGCCTACCACAGAACCAGCCCTTTATTTTCTCCCTTGGCACTGGCCAGGTTATCAAGGGCTGGGACCAGGGGCTGCTGGGgtgaggctggtctgtggtacatgttgtagtgagtgctacagcaagtgagc #### Ganab_ID2469_8 --> 0 - 1 Original Alignment CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg ggttgtaagtgggactgtgcgcctgaacccagcgcctctgcctgttttag---------------GAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtaatcgattgggcaagaccaaagagaagtgcctcccttcactcttccca Alignment from CESAR CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATg ggggaaagataactgggttgtaagtaacccagcgcctctgcctgttttag---------------GAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATggtaatcgattgggcaagaccaaagagaagtgcctgctgttctgtttaccg Alignment from Spaln_aa2Genome GAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggttgtaagtgggactgtgcgcctgaacccagcgcctctgcctgttttagGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtaatcgattgggcaagaccaaagagaagtgcctcccttcactcttccca Alignment from Spaln_nt2Genome -AAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggttgtaagtgggactgtgcgcctgaacccagcgcctctgcctgttttagGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtaatcgattgggcaagaccaaagagaagtgcctcccttcactcttccca Alignment from Pairagon CCAGAGGAGACCCAGGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggttgtaagtgggactgtgcgcctgaacccagcgcctctgcctgttttag---------------GAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtaatcgattgggcaagaccaaagagaagtgcctcccttcactcttccca Alignment from Exonerate_protein2genome GAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggttgtaagtgggactgtgcgcctgaacccagcgcctctgcctgttttagGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtaatcgattgggcaagaccaaagagaagtgcctcccttcactcttccca Alignment from Exonerate_coding2genome GAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTATG ggttgtaagtgggactgtgcgcctgaacccagcgcctctgcctgttttagGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGgtaatcgattgggcaagaccaaagagaagtgcctcccttcactcttccca Alignment from GeneWise ---AAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAGACATTCAAAACACATTCTGACAGCAAGCCTTAT--------------------------------------------------- ggttgtaagtgggactgtgcgcctgaacccagcgcctctgcctgttttagGAAAAGGCTGAGAAGGATGAGCCAGGAGCCTGGGAGGAAACATTCAAAACACCTTCTGACAGCAAGCCTTATGGTAATCGATTGGGCAAGACCAAAGAGAAGTGCCTCCCTTCACTCTTCCCA #### Ganab_ID2470_9 --> 2 - 2 Original Alignment gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga gggattgggcaagaccaaagagaagtgcctgctgttctgtttaccgaaaggcCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCTTGAGACTG---------gagtaagacctcacagtcgcatggtaacgcaaggatggggttaacagaggca Alignment from CESAR gcCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTga tcgattgggcaagaccaaagagaagtgcctgctgttctgtttaccgaaaggcCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCTTGAGACTG---------gagtaagacctcacagtcgcatggtaacgcaaggatggggttaacagaggca Alignment from Spaln_aa2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAA gggattgggcaagaccaaagagaagtgcctgctgttctgtttaccgaaagGCCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCTTGAGACTGGAgtaagacctcacagtcgcatggtaacgcaaggatggggttaacagaggca Alignment from Spaln_nt2Genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAA gggattgggcaagaccaaagagaagtgcctgctgttctgtttaccgaaagGCCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCTTGAGACTGGAgtaagacctcacagtcgcatggtaacgcaaggatggggttaacagaggca Alignment from Pairagon GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gggattgggcaagaccaaagagaagtgcctgctgttctgtttaccgaaagGCCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCTTGAGACTG---------GAgtaagacctcacagtcgcatggtaacgcaaggatggggttaacagaggca Alignment from Exonerate_protein2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gggattgggcaagaccaaagagaagtgcctgctgttctgtttaccgaaagGCCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCTTGAGACTGGAGTAAGACCTcacagtcgcatggtaacgcaaggatggggttaacagaggca Alignment from Exonerate_coding2genome GCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAAGGTCACTGA gggattgggcaagaccaaagagaagtgcctgctgttctgtttaccgaaagGCCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCTTGAGACTGGAGTAAGACCTcacagtcgcatggtaacgcaaggatggggttaacagaggca Alignment from GeneWise -------------------------------------------------GGCCCCACGTCTGTAGGTTTGGACTTTTCTCTGCCAGGAATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCCTGAGACTGAA GGGATTGGGCAAGACCAAAGAGAAGTGCCTGCTGTTCTGTTTACCGAAAGGCCCCATGTCTGTTGGTTTGGACTTTTCTCTGCCATGGATGGAACATGTGTATGGGATCCCTGAGCATGCTGACAGCTTGAGACTGGAgtaagacctcacagtcgcatggtaacgcaaggatggggttaacagaggca #### Ganab_ID2473_12 --> 2 - 0 Original Alignment ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG------------------------ cttaagttttgctctttcaccagcccgacactcatatctcctcgttccagggACCCAGGCATTGCCCCCACTCTCCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCGGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGAAGTTTATATTAAGCTTCATAAGGCTAgtaagggggtgctgtagctgtgagggtgcctcttgtatagtgttggggac Alignment from CESAR ggACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG------------------------ cttaagttttgctctttcaccagcccgacactcatatctcctcgttccagggACCCAGGCATTGCCCCCACTCTCCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCGGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGAAGTTTATATTAAGCTTCATAAGGCTAgtaagggggtgctgtagctgtgagggtgcctcttgtatagtgttggggac Alignment from Spaln_aa2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG------CTGG cttaagttttgctctttcaccagcccgacactcatatctcctcgttccagGGACCCAGGCATTGCCCCCACTCTCCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCGGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGAAGTTTATATTAAgcttcataaggctagtaagggggtgctgtagctgtgagggtgcctcttgtatagtgttggggac Alignment from Spaln_nt2Genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAA G cttaagttttgctctttcaccagcccgacactcatatctcctcgttccagGGACCCAGGCATTGCCCCCACTCTCCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCGGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGAAgtttatattaagcttcataaggctagtaagggggtgctgtagctgtgagggtgcctcttgtatagTgttggggac Alignment from Pairagon GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG------------------------ cttaagttttgctctttcaccagcccgacactcatatctcctcgttccagGGACCCAGGCATTGCCCCCACTCTCCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCGGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGAAGTTTATATTAAGCTTCATAAGGCTAgtaagggggtgctgtagctgtgagggtgcctcttgtatagtgttggggac Alignment from Exonerate_protein2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcaccagcccgacactcatatctcctcgttccagGGACCCAGGCATTGCCCCCACTCTCCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCGGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGAAGtttatattaagcttcataaggctagtaagggggtgctgtagctgtgagggtgcctcttgtatagtgttggggac Alignment from Exonerate_coding2genome GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG cttaagttttgctctttcaccagcccgacactcatatctcctcgttccagGGACCCAGGCATTGCCCCCACTCTCCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCGGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGAAGtttatattaagcttcataaggctagtaagggggtgctgtagctgtgagggtgcctcttgtatagtgttggggac Alignment from GeneWise GGACCCAGGCATTGCCCCCACTCTTCTCCCTCGGCTATCACCAGAGTCGCTGGAACTACCGGGATGAGGCTGATGTTTTGGAAGTGGATCAGGGTTTTGATGATCACAACATGCCTTGTGATGTCATTTGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACTTGGGACCCCACCCGATTTCCTCAGCCCCTCAATATGCTTGAGCACTTGGCTTCCAAGAGGCGGAAG---------------------CTG cttaagttttgctctttcaccagcccgacactcatatctcctcgttccagGGACCCAGGCATTGCCCCCACTCTCCTCCCTTGGCTATCACCAAAGTCGCTGGAACTACCGTGATGAGGCGGATGTCTTGGAAGTGGATCAGGGTTTTGATGATCATAACATGCCCTGTGATGTCATATGGTTGGACATTGAACATGCTGATGGCAAGCGGTACTTCACCTGGGACCCCACCCGATTCCCCCAGCCACTCAATATGCTTGATCACCTGGCTTCCAAGAGGCGGAAGTTTATATTAAGCTTCATAAGGCTAgtaagggggtgctgtagctgtgagggtgcctcttgtatagtgttggggac #### Ganab_ID2474_13 --> 0 - 1 Original Alignment CTGGTGGCCATTGTGGACCCCCACATCAAGGTA------GACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCA------g ggacggccatggtagcctcaacaatttcttctttctctttgtaaaataagCTAGTGGCTATTGTGGACCCCCACATCAAGGTTAAGGTAGACTCTGGCTACCGAGTTCATGAAGAATTGCAAAACCATGGACTGTATGTTAAGACTCGGGATGGCTCTGATTATGAGGGCTGGTGCTGGCCAATCTGGggtaggtccagctggaggggaggctatgaagcagtcaaagaggcaaagata Alignment from CESAR CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCA------g ggacggccatggtagcctcaacaatttcttctttctctttgtaaaataagCTAGTGGCTATTGTGGACCCCCACATCAAGGTTAAGGTAGACTCTGGCTACCGAGTTCATGAAGAATTGCAAAACCATGGACTGTATGTTAAGACTCGGGATGGCTCTGATTATGAGGGCTGGTGCTGGCCAATCTGGggtaggtccagctggaggggaggctatgaagcagtcaaagaggcaaagata Alignment from Spaln_aa2Genome CTGGTGGCCATTGTGGACCCCCAC------ATCAAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCA------G ggacggccatggtagcctcaacaatttcttctttctctttgtaaaataagCTAGTGGCTATTGTGGACCCCCACATCAAGGTTAAGGTAGACTCTGGCTACCGAGTTCATGAAGAATTGCAAAACCATGGACTGTATGTTAAGACTCGGGATGGCTCTGATTATGAGGGCTGGTGCTGGCCAATCTGGGgtaggtccagctggaggggaggctatgaagcagtcaaagaggcaaagata Alignment from Spaln_nt2Genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCA------G ggacggccatggtagcctcaacaatttcttctttctctttgtaaaataagCTAGTGGCTATTGTGGACCCCCACATCAAGGTTAAGGTAGACTCTGGCTACCGAGTTCATGAAGAATTGCAAAACCATGGACTGTATGTTAAGACTCGGGATGGCTCTGATTATGAGGGCTGGTGCTGGCCAATCTGGGgtaggtccagctggaggggaggctatgaagcagtcaaagaggcaaagata Alignment from Pairagon CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGC--------------------------------------------------------------- ggacggccatggtagcctcaacaatttcttctttctctttgtaaaataagCTAGTGGCTATTGTGGACCCCCACATCAAGGTTAAGGTAGACTCTGGCTACCGAGTTCATGAAGAATTGCAAAACCATGGACTGTATGTTAAGACTCGGGATGGCTCTGATTATGAGGGCTGGTGCTGGCCAATCTGGGGTAGGTCCAGCTGGAGGGGAGGCTATGAAGCAGTCAAAGAGGCAAAGATA Alignment from Exonerate_protein2genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTG ggacggccatggtagcctcaacaatttcttctttctctttgtaaaataagCTAGTGGCTATTGTGGACCCCCACATCAAGGTTAAGGTAGACTCTGGCTACCGAGTTCATGAAGAATTGCAAAACCATGGACTGTATGTTAAGACTCGGGATGGCTCTGATTATGAGGGCTGGTGCTGgccaatctggggtaggtccagctggaggggaggctatgaagcagtcaaagaggcaaagata Alignment from Exonerate_coding2genome CTGGTGGCCATTGTGGACCCCCACATC------AAGGTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTG ggacggccatggtagcctcaacaatttcttctttctctttgtaaaataagCTAGTGGCTATTGTGGACCCCCACATCAAGGTTAAGGTAGACTCTGGCTACCGAGTTCATGAAGAATTGCAAAACCATGGACTGTATGTTAAGACTCGGGATGGCTCTGATTATGAGGGCTGGTGCTGgccaatctggggtaggtccagctggaggggaggctatgaagcagtcaaagaggcaaagata Alignment from GeneWise CTGGTGGCCATTGTGGACCCCCACATCAAG------GTAGACTCTGGCTACCGAGTTCACGAAGAATTGCGAAACCATGGGCTGTATGTTAAAACTCGGGATGGCTCTGATTACGAGGGCTGGTGCTGGCCA------G ggacggccatggtagcctcaacaatttcttctttctctttgtaaaataagCTAGTGGCTATTGTGGACCCCCACATCAAGGTTAAGGTAGACTCTGGCTACCGAGTTCATGAAGAATTGCAAAACCATGGACTGTATGTTAAGACTCGGGATGGCTCTGATTATGAGGGCTGGTGCTGGCCAATCTGGGgtaggtccagctggaggggaggctatgaagcagtcaaagaggcaaagata #### Ganab_ID2475_14 --> 2 - 0 Original Alignment gcTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG aagcagtcaaagaggcaaagatattcactgaaactgtcaccctatcctaggc---GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtgaggaagactatccatatgtcctctgtttttgtaaattgccttcatta Alignment from CESAR gcTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG atgaagcagtcaaagaggcaaagatcactgaaactgtcaccctatcctaggc---GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtgaggaagactatccatatgtcctctgtttttgtaaattgccttcatta Alignment from Spaln_aa2Genome GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG aagcagtcaaagaggcaaagatattcactgaaactgtcaccctatcctagGC---GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtgaggaagactatccatatgtcctctgtttttgtaaattgccttcatta Alignment from Spaln_nt2Genome GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG aagcagtcaaagaggcaaagatattcactgaaactgtcaccctatcctagGC---GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtgaggaagactatccatatgtcctctgtttttgtaaattgccttcatta Alignment from Pairagon GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG aagcagtcaaagaggcaaagatattcactgaaactgtcaccctatcctagGC---GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtgaggaagactatccatatgtcctctgtttttgtaaattgccttcatta Alignment from Exonerate_protein2genome GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG aagcagtcaaagaggcaaagatattcactgaaactgtcaccctatcctagGC---GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtgaggaagactatccatatgtcctctgtttttgtaaattgccttcatta Alignment from Exonerate_coding2genome GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG aagcagtcaaagaggcaaagatattcactgaaactgtcaccctatcctagGC---GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtgaggaagactatccatatgtcctctgtttttgtaaattgccttcatta Alignment from GeneWise GCTCAGCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAG aagcagtcaaagaggcaaagatattcactgaaactgtcaccctatcctagGC---GCTAGTTACCCTGACTTCACTAATCCAAGGATGAGGGCCTGGTGGTCTAACATGTTCAGCTTTGACAATTATGAGgtgaggaagactatccatatgtcctctgtttttgtaaattgccttcatta #### Ganab_ID2478_17 --> 2 - 1 Original Alignment gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg gaccgagttccttgccatgtatcaggctaacaatttccctttcctaacaggaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCC---------ggtaagggaagggatgaagggagacatttggggtattgctttggacatttg Alignment from CESAR gaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAg gaccgagttccttgccatgtatcaggctaacaatttccctttcctaacaggaGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCC---------ggtaagggaagggatgaagggagacatttggggtattgctttggacatttg Alignment from Spaln_aa2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCC- gaccgagttccttgccatgtatcaggctaacaatttccctttcctaacagGAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCGgtaagggaagggatgaagggagacatttggggtattgctttggacatttg Alignment from Spaln_nt2Genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCT gaccgagttccttgccatgtatcaggctaacaatttccctttcctaacagGAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCGgtaagggaagggatgaagggagacatttggggtattgctttggacatttg Alignment from Pairagon GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG gaccgagttccttgccatgtatcaggctaacaatttccctttcctaacagGAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCC---------Ggtaagggaagggatgaagggagacatttggggtattgctttggacatttg Alignment from Exonerate_protein2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG gaccgagttccttgccatgtatcaggctaacaatttccctttcctaacagGAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCGGTAAGGGAAgggatgaagggagacatttggggtattgctttggacatttg Alignment from Exonerate_coding2genome GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCTTCTGTGGAG gaccgagttccttgccatgtatcaggctaacaatttccctttcctaacagGAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCGGTAAGGGAAgggatgaagggagacatttggggtattgctttggacatttg Alignment from GeneWise GAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCCTATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCT gaccgagttccttgccatgtatcaggctaacaatttccctttcctaacagGAGCTGTGTGGACAGGGGACAACACTGCCGAATGGGATCATTTGAAGATCTCTATCCATATGTGTCTCAGCCTGGCACTGGTGGGGCTTTCCGgtaagggaagggatgaagggagacatttggggtattgctttggacatttg #### Ganab_ID2482_21 --> 0 - 0 Original Alignment GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagaatccctatgtactgggtgaagacatctttctcatgtcacagGTGTGGTATGACATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGC---gtgagaagtatgtctctctagctaccatctctgtttgcttgtcctttccc Alignment from CESAR GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagaatccctatgtactgggtgaagacatctttctcatgtcacagGTGTGGTATGACATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGC---gtgagaagtatgtctctctagctaccatctctgtttgcttgtccttt Alignment from Spaln_aa2Genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGC aaacatagaatccctatgtactgggtgaagacatctttctcatgtcacagGTGTGGTATGACATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCgtgagaagtatgtctctctagctaccatctctgtttgcttgtcctttccc Alignment from Spaln_nt2Genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGC aaacatagaatccctatgtactgggtgaagacatctttctcatgtcacagGTGTGGTATGACATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCgtgagaagtatgtctctctagctaccatctctgtttgcttgtcctttccc Alignment from Pairagon GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGC aaacatagaatccctatgtactgggtgaagacatctttctcatgtcacagGTGTGGTATGACATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCgtgagaagtatgtctctctagctaccatctctgtttgcttgtcctttccc Alignment from Exonerate_protein2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagaatccctatgtactgggtgaagacatctttctcatgtcacagGTGTGGTATGACATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCGTGagaagtatgtctctctagctaccatctctgtttgcttgtcctttccc Alignment from Exonerate_coding2genome GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagaatccctatgtactgggtgaagacatctttctcatgtcacagGTGTGGTATGACATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTGAGCGTGagaagtatgtctctctagctaccatctctgtttgcttgtcctttccc Alignment from GeneWise GTGTGGTATGACATTCAGAGCTATCAGAAGCATCATGGGCCCCAGACCTTGTATCTGCCAGTAACTTTGAGCAGT aaacatagaatccctatgtactgggtgaagacatctttctcatgtcacagGTGTGGTATGACATTCAGAGCTATCAGAAACATCATGGGCCCCAAACCTTGTATCTGCCAGTAACTTTG---AGCgtgagaagtatgtctctctagctaccatctctgtttgcttgtcctttccc #### Ganab_ID2485_24 --> 1 - 1 Original Alignment tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg tgcccatttctccaagtggaacagcgcgagtctttctcctctatacccagt---------CCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAggtaagcgataggtccagcattgaaattgagagaagaagcagtagcagggt Alignment from CESAR tTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAg tgcccttgctgcccatttctccaaggcgagtctttctcctctatacccagt---------CCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAggtaagcgataggtccagcattgaaattgagagaagaagcagtagcagggt Alignment from Spaln_aa2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgcccatttctccaagtggaacagcgcgagtctttctcctctatacccagT---------CCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGgtaagcgataggtccagcattgaaattgagagaagaagcagtagcagggt Alignment from Spaln_nt2Genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgcccatttctccaagtggaacagcgcgagtctttctcctctatacccagT---------CCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGgtaagcgataggtccagcattgaaattgagagaagaagcagtagcagggt Alignment from Pairagon TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgcccatttctccaagtggaacagcgcgagtctttctcctctatacccagT---------CCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGgtaagcgataggtccagcattgaaattgagagaagaagcagtagcagggt Alignment from Exonerate_protein2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgcccatttctccaagtggaacagcgcgagtctttctcctcTATACCCAGTCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGgtaagcgataggtccagcattgaaattgagagaagaagcagtagcagggt Alignment from Exonerate_coding2genome TTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgcccatttctccaagtggaacagcgcgagtctttctcctcTATACCCAGTCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGgtaagcgataggtccagcattgaaattgagagaagaagcagtagcagggt Alignment from GeneWise ---GTCTCTAGTTCAGCAGACCCCAAAGGCCACCTTGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCAGCTGTGGTGCTCCAGACCAAAG tgcccatttctccaagtggaacagcgcgagTCTTTCTCCTCTATACCCAGTCCCAAGGGCCACCTGGAGACACCTATTTGGATTGAGCGAGTAGTCATCATGGGGGCTGGAAAGCCAGCTGCTGTGGTGCTCCAGACAAAAGgtaagcgataggtccagcattgaaattgagagaagaagcagtagcagggt #### Gbf1_ID9795_14 --> 0 - 1 Original Alignment ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt aggtgaagtatattcctaccacaagtctacccccaccttccccaccgcagTCTTCTAATGCCTTCCCTGTATCTGGTCAGCTCTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACATTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAAAAAGAGACACCTAGACCTGGTTTTGAGGCAGTGGATGGCAACCCAGATGCTAACAAGtgtacccagcatcttatactgttcttattctttttcttttttgtccttact Alignment from CESAR ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGt aggtgaagtatattcctaccacaagtctacccccaccttccccaccgcagTCTTCTAATGCCTTCCCTGTATCTGGTCAGCTCTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACATTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAAAAAGAGACACCTAGACCTGGTTTTGAGGCAGTGGATGGCAACCCAGATGCTAACAAGtgtacccagcatcttatactgttcttattctttttcttttttgtccttact Alignment from Spaln_aa2Genome ----AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctaccacaagtctacccccaccttccccaccgcagTCTTCTAATGCCTTCCCTGTATCTGGTCAGCTCTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACATTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAAAAAGAGACACCTAGACCTGGTTTTGAGGCAGTGGATGGCAACCCAGATGCTAACAAGTgtacccagcatcttatactgttcttattctttttcttttttgtccttact Alignment from Spaln_nt2Genome ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctaccacaagtctacccccaccttccccaccgcagTCTTCTAATGCCTTCCCTGTATCTGGTCAGCTCTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACATTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAAAAAGAGACACCTAGACCTGGTTTTGAGGCAGTGGATGGCAACCCAGATGCTAACAAGTgtacccagcatcttatactgttcttattctttttcttttttgtccttact Alignment from Pairagon ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctaccacaagtctacccccaccttccccaccgcagTCTTCTAATGCCTTCCCTGTATCTGGTCAGCTCTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACATTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAAAAAGAGACACCTAGACCTGGTTTTGAGGCAGTGGATGGCAACCCAGATGCTAACAAGTgtacccagcatcttatactgttcttattctttttcttttttgtccttact Alignment from Exonerate_protein2genome ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctaccacaagtctacccccaccttccccaccgcagTCTTCTAATGCCTTCCCTGTATCTGGTCAGCTCTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACATTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAAAAAGAGACACCTAGACCTGGTTTTGAGGCAGTGGATGGCAACCCAGATGCTAACAAGTgtacccagcatcttatactgttcttattctttttcttttttgtccttact Alignment from Exonerate_coding2genome ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctaccacaagtctacccccaccttccccaccgcagTCTTCTAATGCCTTCCCTGTATCTGGTCAGCTCTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACATTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAAAAAGAGACACCTAGACCTGGTTTTGAGGCAGTGGATGGCAACCCAGATGCTAACAAGTgtacccagcatcttatactgttcttattctttttcttttttgtccttact Alignment from GeneWise ------AATGCCTTTCCTGTGTCTGGTCAGCTTTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACAGTTATTGACAGCACTGAGTCTCATTGTCAGGCCAAAGTCCTCAACACCCTCAACCAGCAAGAGAAGAAAGAGACAGCCAGACCTGGCTTTGAGGCAGTGGATGGCAACCCAGAAACTAACAAGT aggtgaagtatattcctaccacaagtctacccccaccttccccaccgcagTCTTCTAATGCCTTCCCTGTATCTGGTCAGCTCTATACAACACACCTGCTGTCTCTTGATGCCCTTTTGACATTTATTGACAGCACTGAGTCTCATTCTCAGGCCAAAGTCCTCAATACCCTCAACCAGCAAGAGAAAAAAGAGACACCTAGACCTGGTTTTGAGGCAGTGGATGGCAACCCAGATGCTAACAAGTgtacccagcatcttatactgttcttattctttttcttttttgtccttact #### Gbf1_ID9800_19 --> 0 - 0 Original Alignment ------------------------------AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggatgttaatacatctctcccttcactgtccccagCCCAGATCAACGAACTGCAGCCACTTGTCCAGTTGTAATGGCTCCCCTTTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGGTGTTATCATGCTTAACACTGACCAGCACAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAGgtattgttgaaacagaagatccgtacagctttgaaagtgtcaacaatacc Alignment from CESAR atacagcctgcccacaggagaatgtacatatgggaaatgataacaatggac Alignment from Spaln_aa2Genome -TGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggatgttaatacatctctcccttcactgtccccagcccagatcaacgaactgcagccacttgtccagTTGTAATGGCTCCCCTTTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGGTGTTATCATGCTTAACACTGACCAGCACAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAGgtattgttgaaacagaagatccgtacagctttgaaagtgtcaacaatacc Alignment from Spaln_nt2Genome GTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggatgttaatacatctctcccttcactgtccccagcccagatcaacgaactgcagccacttgtccagTTGTAAT-GGCTCCCCTTTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGGTGTTATCATGCTTAACACTGACCAGCACAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAGgtattgttgaaacagaagatccgtacagctttgaaagtgtcaacaatacc Alignment from Pairagon ----------AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggatgttaatacatctctcccttcactgtccccagcccagatcaacgaactgcagCCACTTGTCCAGTTGTAATGGCTCCCCTTTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGGTGTTATCATGCTTAACACTGACCAGCACAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAGgtattgttgaaacagaagatccgtacagctttgaaagtgtcaacaatacc Alignment from Exonerate_protein2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggatgttaatacatctctcccttcactgtccccagcccagatcaacgaactgcagccacttgtccAGTTGTAATGGCTCCCCTTTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGGTGTTATCATGCTTAACACTGACCAGCACAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAGgtattgttgaaacagaagatccgtacagctttgaaagtgtcaacaatacc Alignment from Exonerate_coding2genome AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggatgttaatacatctctcccttcactgtccccagcccagatcaacgaactgcagccacttgtccAGTTGTAATGGCTCCCCTTTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGGTGTTATCATGCTTAACACTGACCAGCACAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAGgtattgttgaaacagaagatccgtacagctttgaaagtgtcaacaatacc Alignment from GeneWise ------------------------------AGTTGTAATGGCTCCCCATTTGCTAATAGTGATGCCTGCTTTGCCCTGGCCTATGCTGTCATCATGCTTAACACTGACCAACATAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAG ttagttgtcggaaaaggatgttaatacatctctcccttcactgtccccagCCCAGATCAACGAACTGCAGCCACTTGTCCAGTTGTAATGGCTCCCCTTTTGCTAATAGTGATGCCTGCTTTGCCCTAGCCTATGGTGTTATCATGCTTAACACTGACCAGCACAACCACAATGTTCGAAAGCAGAATGCACCCATGACCCTGGAGgtattgttgaaacagaagatccgtacagctttgaaagtgtcaacaatacc #### Gbf1_ID9806_25 --> 1 - 0 Original Alignment a---------GGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG gtagtagttgtcagaatgtcagcactcactccccaaccccttccccccagaCTAAAAGATGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACAGAGAACCAGGAGGCTAAGAGAGTGGCCTTAGACTGTATTAAGgtaaaagattgctctctcatgggaactcctaaagagctgtgaccctatga Alignment from CESAR a---------GGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG gtagtagttgtcagaatgtcagcactcactccccaaccccttccccccagaCTAAAAGATGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACAGAGAACCAGGAGGCTAAGAGAGTGGCCTTAGACTGTATTAAGgtaaaagattgctctctcatgggaactcctaaagagctgtgaccctatga Alignment from Spaln_aa2Genome AGGAGAGTCAACA---------GTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG gtagtagttgtcagaatgtcagcactcactccccaaccccttccccccagACTAAAAGATGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACAGAGAACCAGGAGGCTAAGAGAGTGGCCTTAGACTGTATTAAGgtaaaagattgctctctcatgggaactcctaaagagctgtgaccctatga Alignment from Spaln_nt2Genome AGGAGAGTCA-ACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG gtagtagttgtcagaatgtcagcactcactccccaaccccttccccccagactaaaagATGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACAGAGAACCAGGAGGCTAAGAGAGTGGCCTTAGACTGTATTAAGgtaaaagattgctctctcatgggaactcctaaagagctgtgaccctatga Alignment from Pairagon A---------GGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG gtagtagttgtcagaatgtcagcactcactccccaaccccttccccccagACTAAAAGATGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACAGAGAACCAGGAGGCTAAGAGAGTGGCCTTAGACTGTATTAAGgtaaaagattgctctctcatgggaactcctaaagagctgtgaccctatga Alignment from Exonerate_protein2genome A---------GGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG gtagtagttgtcagaatgtcagcactcactccccaaccccttccccccagACTAAAAGATGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACAGAGAACCAGGAGGCTAAGAGAGTGGCCTTAGACTGTATTAAGgtaaaagattgctctctcatgggaactcctaaagagctgtgaccctatga Alignment from Exonerate_coding2genome A---------GGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG gtagtagttgtcagaatgtcagcactcactccccaaccccttccccccagACTAAAAGATGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACAGAGAACCAGGAGGCTAAGAGAGTGGCCTTAGACTGTATTAAGgtaaaagattgctctctcatgggaactcctaaagagctgtgaccctatga Alignment from GeneWise -------CGAGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGTCCTGAGCAGTCCAGTGTACGGGGTCCATCTACAGAGAACCAAGAGGCCAAGAGAGTGGCCTTGGACTGTATCAAG gtagtagttgtcagaatgtcagcactcactccccaaccccttccccccagACTAAAAGATGGAGAGTCAACAGTTCTTAGCTTTGTAAGCTGGCTGACATTGAGTGGCCCTGAGCAGTCCAGTGTCCGGGGTCCATCTACAGAGAACCAGGAGGCTAAGAGAGTGGCCTTAGACTGTATTAAGgtaaaagattgctctctcatgggaactcctaaagagctgtgaccctatga #### Gbf1_ID9807_26 --> 0 - 0 Original Alignment CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG--- cctgaactttcttcctttgtcatggatcctaaaatctgctctcctcctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGATgtaagttatgaacagatctgagaaaggcaaaacggtggtgatgcagcctc Alignment from CESAR CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG--- cctgaactttcttcctttgtcatggatcctaaaatctgctctcctcctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGATgtaagttatgaacagatctgagaaaggcaaaacggtggtgatgcagcctc Alignment from Spaln_aa2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG--- cctgaactttcttcctttgtcatggatcctaaaatctgctctcctcctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGATgtaagttatgaacagatctgagaaaggcaaaacggtggtgatgcagcctc Alignment from Spaln_nt2Genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG--- cctgaactttcttcctttgtcatggatcctaaaatctgctctcctcctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGATgtaagttatgaacagatctgagaaaggcaaaacggtggtgatgcagcctc Alignment from Pairagon CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG--- cctgaactttcttcctttgtcatggatcctaaaatctgctctcctcctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGATgtaagttatgaacagatctgagaaaggcaaaacggtggtgatgcagcctc Alignment from Exonerate_protein2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG--- cctgaactttcttcctttgtcatggatcctaaaatctgctctcctcctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGATgtaagttatgaacagatctgagaaaggcaaaacggtggtgatgcagcctc Alignment from Exonerate_coding2genome CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAG--- cctgaactttcttcctttgtcatggatcctaaaatctgctctcctcctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGATgtaagttatgaacagatctgagaaaggcaaaacggtggtgatgcagcctc Alignment from GeneWise CAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGCT cctgaactttcttcctttgtcatggatcctaaaatctgctctcctcctagCAATGTGACCCAGAAAAAATGATCACAGAAAGCAAGTTCCTCCAGCTGGAATCACTGCAGGAGCTCATGAAGGATgtaagttatgaacagatctgagaaaggcaaaacggtggtgatgcagcctc #### Gbf1_ID9815_34 --> 2 - 0 Original Alignment gaATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacttgtgcacatacacactctctccctggtgtttggtgttttgctgtagga---GCCTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCCTGACATATCTACAGCGAGCGCTTCTGGTGCATGATCTGCAGAAGCTAGATGCCCTGGAGTGGGAGTCATGTTTTAACAAGgtgagcctctcctcttaagagaaagttcagataacaaggcaaaaaggttg Alignment from CESAR gaATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG acacacttgtgcacatacacactctcctggtgtttggtgttttgctgtagga---GCCTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCCTGACATATCTACAGCGAGCGCTTCTGGTGCATGATCTGCAGAAGCTAGATGCCCTGGAGTGGGAGTCATGTTTTAACAAGgtgagcctctcctcttaagagaaagttcagataacaaggcaaaaaggttg Alignment from Spaln_aa2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacttgtgcacatacacactctctccctggtgtttggtgttttgctgtagGA---GCCTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCCTGACATATCTACAGCGAGCGCTTCTGGTGCATGATCTGCAGAAGCTAGATGCCCTGGAGTGGGAGTCATGTTTTAACAAGgtgagcctctcctcttaagagaaagttcagataacaaggcaaaaaggttg Alignment from Spaln_nt2Genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacttgtgcacatacacactctctccctggtgtttggtgttttgctgtagGA---GCCTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCCTGACATATCTACAGCGAGCGCTTCTGGTGCATGATCTGCAGAAGCTAGATGCCCTGGAGTGGGAGTCATGTTTTAACAAGgtgagcctctcctcttaagagaaagttcagataacaaggcaaaaaggttg Alignment from Pairagon GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacttgtgcacatacacactctctccctggtgtttggtgttttgctgtagGA---GCCTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCCTGACATATCTACAGCGAGCGCTTCTGGTGCATGATCTGCAGAAGCTAGATGCCCTGGAGTGGGAGTCATGTTTTAACAAGgtgagcctctcctcttaagagaaagttcagataacaaggcaaaaaggttg Alignment from Exonerate_protein2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacttgtgcacatacacactctctccctggtgtttggtgttttgctgtagGA---GCCTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCCTGACATATCTACAGCGAGCGCTTCTGGTGCATGATCTGCAGAAGCTAGATGCCCTGGAGTGGGAGTCATGTTTTAACAAGgtgagcctctcctcttaagagaaagttcagataacaaggcaaaaaggttg Alignment from Exonerate_coding2genome GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacttgtgcacatacacactctctccctggtgtttggtgttttgctgtagGA---GCCTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCCTGACATATCTACAGCGAGCGCTTCTGGTGCATGATCTGCAGAAGCTAGATGCCCTGGAGTGGGAGTCATGTTTTAACAAGgtgagcctctcctcttaagagaaagttcagataacaaggcaaaaaggttg Alignment from GeneWise GAATCGCCTGCTTATGCTGTGACGCCCGGCGCCAGGTACGGATGCAGGCCCTGACATATCTGCAGCGAGCCCTTCTGGTGCATGACCTACAGAAGCTAGATGCCCTGGAGTGGGAGTCCTGTTTTAACAAG cacttgtgcacatacacactctctccctggtgtttggtgttttgctgtagGA---GCCTGCTTATGCTGTGATGCCCGACGCCAGGTACGGATGCAGGCCCTGACATATCTACAGCGAGCGCTTCTGGTGCATGATCTGCAGAAGCTAGATGCCCTGGAGTGGGAGTCATGTTTTAACAAGgtgagcctctcctcttaagagaaagttcagataacaaggcaaaaaggttg #### Gbf1_ID9816_35 --> 0 - 0 Original Alignment GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acgcccaactggctgggctaatgtgttttctactgttgattgcttcctag---CTGTTTCCTCTCCTGACCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGgtacatgttttccactctgcccccatctctctgcctcaaacctccttttc Alignment from CESAR GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG cccacgcccaactggctgggctaatttttctactgttgattgcttcctag---CTGTTTCCTCTCCTGACCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGgtacatgttttccactctgcccccatctctctgcctcaaacctccttttc Alignment from Spaln_aa2Genome GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acgcccaactggctgggctaatgtgttttctactgttgattgcttcctag---CTGTTTCCTCTCCTGACCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGgtacatgttttccactctgcccccatctctctgcctcaaacctccttttc Alignment from Spaln_nt2Genome TCCT-----CTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acgcccaactggctgggctaatgtgttttctactgttgattgcttcctagCTGTTTCCTCTCCTGACCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGgtacatgttttccactctgcccccatctctctgcctcaaacctccttttc Alignment from Pairagon GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acgcccaactggctgggctaatgtgttttctactgttgattgcttcctag---CTGTTTCCTCTCCTGACCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGgtacatgttttccactctgcccccatctctctgcctcaaacctccttttc Alignment from Exonerate_protein2genome CTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acgcccaactggctgggctaatgtgttttctactgttgattgcttcctagCTGTTTCCTCTCCTGACCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGgtacatgttttccactctgcccccatctctctgcctcaaacctccttttc Alignment from Exonerate_coding2genome CTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acgcccaactggctgggctaatgtgttttctactgttgattgcttcctagCTGTTTCCTCTCCTGACCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGgtacatgttttccactctgcccccatctctctgcctcaaacctccttttc Alignment from GeneWise GTGCTGTTTCCTCTCCTGACCAAGCTTTTGGAAAATATCAGCCCTGCAGATGTGGGCGGGATGGAGGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAG acgcccaactggctgggctaatgtgttttctactgttgattgcttcctagCTG---TTTCCTCTCCTGACCAAGCTCTTGGAAAATATCAGCCCTGCAGATGTGGGTGGGATGGAAGAGACCCGGATGCGGGCTTCCACACTGCTCTCAAAGgtacatgttttccactctgcccccatctctctgcctcaaacctccttttc #### Gbf1_ID9817_36 --> 0 - 0 Original Alignment GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- cgatagaagcctcatctactacccttgtacttgcacattctttcctgcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTACGgtgagccctgccttgagccagttttgtttgagcatttcttctcacactgg Alignment from CESAR GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- cgatagaagcctcatctactacccttgtacttgcacattctttcctgcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTACGgtgagccctgccttgagccagttttgtttgagcatttcttctcacactgg Alignment from Spaln_aa2Genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- cgatagaagcctcatctactacccttgtacttgcacattctttcctgcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTACGgtgagccctgccttgagccagttttgtttgagcatttcttctcacactgg Alignment from Spaln_nt2Genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCT---G cgatagaagcctcatctactacccttgtacttgcacattctttcctgcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTACGgtgagccctgccttgagccagttttgtttgagcatttcttctcacactgg Alignment from Pairagon GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCT------------------------------------------------------ cgatagaagcctcatctactacccttgtacttgcacattctttcctgcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTACGGTGAGCCCTGCCTTGAGCCAGTTTTGTTTGAGCATTTCTTCTCACACTGG Alignment from Exonerate_protein2genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- cgatagaagcctcatctactacccttgtacttgcacattctttcctgcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTACGgtgagccctgccttgagccagttttgtttgagcatttcttctcacactgg Alignment from Exonerate_coding2genome GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTG--- cgatagaagcctcatctactacccttgtacttgcacattctttcctgcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTACGgtgagccctgccttgagccagttttgtttgagcatttcttctcacactgg Alignment from GeneWise GTCTTCCTGCAGCATCTGTCTCCACTGCTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTGTCA cgatagaagcctcatctactacccttgtacttgcacattctttcctgcagGTCTTCCTGCAGCATCTGTCTCCATTGTTGTCACTGTCCACCTTTGCTGCCCTGTGGCTCACTATCCTAGACTTCATGGACAAGTACATGCATGCAGGTTCCAGTGATTTGCTTACGgtgagccctgccttgagccagttttgtttgagcatttcttctcacactgg #### Gbf1_ID9818_37 --> 0 - 1 Original Alignment ---TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg gcctccatcttaaagcactactcctcttctttgaattctcatcatcacagTACTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCACTGCTCTCTGGGAGATCACATGGGAGCGCATTGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGggtgagcgcgcatttgatctcaactcctctgttcactgtgctaagaattat Alignment from CESAR ---TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGg gcctccatcttaaagcactactcctcttctttgaattctcatcatcacagTACTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCACTGCTCTCTGGGAGATCACATGGGAGCGCATTGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGggtgagcgcgcatttgatctcaactcctctgttcactgtgctaagaattat Alignment from Spaln_aa2Genome TCAGAAGCTATC---CCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG gcctccatcttaaagcactactcctcttctttgaattctcatcatcacagTACTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCACTGCTCTCTGGGAGATCACATGGGAGCGCATTGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGGgtgagcgcgcatttgatctcaactcctctgttcactgtgctaagaattat Alignment from Spaln_nt2Genome GTCAGAAGCT--ATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG gcctccatcttaaagcactactcctcttctttgaattctcatcatcacagTACTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCACTGCTCTCTGGGAGATCACATGGGAGCGCATTGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGGgtgagcgcgcatttgatctcaactcctctgttcactgtgctaagaattat Alignment from Pairagon ----------------------------------------------------GTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG GCCTCCATCTTAAAGCACTACTCCTCTTCTTTGAATTCTCATCATCACAGTACTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCACTGCTCTCTGGGAGATCACATGGGAGCGCATTGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGGgtgagcgcgcatttgatctcaactcctctgttcactgtgctaagaattat Alignment from Exonerate_protein2genome CTGTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG gcctccatcttaaagcactactcctcttctttgaattctcatcatcacagTACTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCACTGCTCTCTGGGAGATCACATGGGAGCGCATTGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGGgtgagcgcgcatttgatctcaactcctctgttcactgtgctaagaattat Alignment from Exonerate_coding2genome CTGTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG gcctccatcttaaagcactactcctcttctttgaattctcatcatcacagTACTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCACTGCTCTCTGGGAGATCACATGGGAGCGCATTGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGGgtgagcgcgcatttgatctcaactcctctgttcactgtgctaagaattat Alignment from GeneWise ---TCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCTCTGCTCTCTGGGAGATTACCTGGGAGCGCATCGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGG gcctccatcttaaagcactactcctcttctttgaattctcatcatcacagTACTCAGAAGCTATCCCCGAGTCTCTGAAGAACATGCTGCTGGTGATGGACACAGCGGAGATTTTCCACAGTGCAGATGCAAGAGGAGGAGGCCCCACTGCTCTCTGGGAGATCACATGGGAGCGCATTGACTGCTTCTTGCCACACTTGCGTGACGAGCTCTTCAAGCAGACTGTCATCCAGGgtgagcgcgcatttgatctcaactcctctgttcactgtgctaagaattat #### Gldc_ID6402_13 --> 1 - 0 Original Alignment cTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG gtatgaggactggcctgactcttatttacataattgtgtgatttttccagtTATCACTCAGAAACCAATCTTGTCCGTTACATGAAGAAACTGGAGAACCAAGACATCTCCCTTGTGCACAGTATGATCCCA---gtataaagtgtgtgtgtggctagccatatacacctgtaggtcaaattcaa Alignment from CESAR cTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG------ gtatgaggactggcctgactcttatttacataattgtgtgatttttccagtTATCACTCAGAAACCAATCTTGTCCGTTACATGAAGAAACTGGAGAACCAAGACATCTCCCTTGTGCACAGTATGATCCCAGTATAAAGTgtgtgtgtggctagccatatacacctgtaggtcaaattcaa Alignment from Spaln_aa2Genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCA gtatgaggactggcctgactcttatttacataattgtgtgatttttccagTTATCACTCAGAAACCAATCTTGTCCGTTACATGAAGAAACTGGAGAACCAAGACATCTCCCTTGTGCACAGTATGATCCCAgtataaagtgtgtgtgtggctagccatatacacctgtaggtcaaattcaa Alignment from Spaln_nt2Genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG---- gtatgaggactggcctgactcttatttacataattgtgtgatttttccagTTATCACTCAGAAACCAATCTTGTCCGTTACATGAAGAAACTGGAGAACCAAGACATCTCCCTTGTGCACAGTATGATCCCAGTATAAAgtgtgtgtgtggctagccatatacacctgtaggtcaaattcaa Alignment from Pairagon CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCA gtatgaggactggcctgactcttatttacataattgtgtgatttttccagTTATCACTCAGAAACCAATCTTGTCCGTTACATGAAGAAACTGGAGAACCAAGACATCTCCCTTGTGCACAGTATGATCCCAgtataaagtgtgtgtgtggctagccatatacacctgtaggtcaaattcaa Alignment from Exonerate_protein2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG gtatgaggactggcctgactcttatttacataattgtgtgatttttccagTTATCACTCAGAAACCAATCTTGTCCGTTACATGAAGAAACTGGAGAACCAAGACATCTCCCTTGTGCACAGTATGATCCCAGTAtaaagtgtgtgtgtggctagccatatacacctgtaggtcaaattcaa Alignment from Exonerate_coding2genome CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCACTG gtatgaggactggcctgactcttatttacataattgtgtgatttttccagTTATCACTCAGAAACCAATCTTGTCCGTTACATGAAGAAACTGGAGAACCAAGACATCTCCCTTGTGCACAGTATGATCCCAGTAtaaagtgtgtgtgtggctagccatatacacctgtaggtcaaattcaa Alignment from GeneWise CTATCACTCAGAAACTAATCTTGTCCGGTATATGAAGAAACTGGAGAACAAAGACATCTCCCTCGTTCACAGCATGATCCCA gtatgaggactggcctgactcttatttacataattgtgtgatttttccagTTATCACTCAGAAACCAATCTTGTCCGTTACATGAAGAAACTGGAGAACCAAGACATCTCCCTTGTGCACAGTATGATCCCAgtataaagtgtgtgtgtggctagccatatacacctgtaggtcaaattcaa #### Gpr137_ID1885_6 --> 0 - 2 Original Alignment AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag aatgctacagtgagccagtctacgtcggagatgtctgtcttttcttccag------------------AATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGCCACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCaggtagaggtctctaccctggaagaagcgtgtgaagattcagcctgcctcca Alignment from CESAR AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCag ttatggcagcagaagaataatgctacggagatgtctgtcttttcttccag------------------AATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGCCACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCaggtagaggtctctaccctggaagaagcgtgtgaagattcagcctgcctcca Alignment from Spaln_aa2Genome AATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG aatgctacagtgagccagtctacgtcggagatgtctgtcttttcttccagAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGCCACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtagaggtctctaccctggaagaagcgtgtgaagattcagcctgcctcca Alignment from Spaln_nt2Genome AATCCTC-- AATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG AATGCTACAgtgagccagtctacgtcggagatgtctgtcttttcttccagAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGCCACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtagaggtctctaccctggaagaagcgtgtgaagattcagcctgcctcca Alignment from Pairagon AGCACCAGTCGAATCCTCAATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG aatgctacagtgagccagtctacgtcggagatgtctgtcttttcttccag------------------AATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGCCACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtagaggtctctaccctggaagaagcgtgtgaagattcagcctgcctcca Alignment from Exonerate_protein2genome AATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG aatgctacagtgagccagtctacgtcggagatgtctgtcttttcttccagAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGCCACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtagaggtctctaccctggaagaagcgtgtgaagattcagcctgcctcca Alignment from Exonerate_coding2genome AATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG aatgctacagtgagccagtctacgtcggagatgtctgtcttttcttccagAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGCCACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtagaggtctctaccctggaagaagcgtgtgaagattcagcctgcctcca Alignment from GeneWise AATGGGCAGGTTTTTGGCTCCCGATCCTACTTCTTTGACCGGGCTGGCCACTGTGAGGATGAGGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAG aatgctacagtgagccagtctacgtcggagatgtctgtcttttcttccagAATGGGCAGGTTTTCGGCTCCCGATCCTACTTCTTTGACAGGGCTGGCCACTGTGAGGATGATGGCTGCTCCTGGGAGCATAGCCGGAGTGAGAGCACCAGgtagaggtctctaccctggaagaagcgtgtgaagattcagcctgcctcca #### Gpr137_ID1887_4 --> 0 - 0 Original Alignment GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG ccctctctgtaaagatctcgtttttgcgcatacagatgttatctcctcag------------TGTCAGGTGGCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCTCTGGCCTCGGCCCCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgaatactatatagcttgcttctggctgaccaggtccttgccatcagcc Alignment from CESAR GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG atctaggagcccccctctctgtaaagcgcatacagatgttatctcctcag------------TGTCAGGTGGCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCTCTGGCCTCGGCCCCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgaatactatatagcttgcttctggctgaccaggtccttgccatcagcc Alignment from Spaln_aa2Genome TGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG ccctctctgtaaagatctcgtttttgcgcatacagatgttatctcctcagTGTCAGGTGGCTGCCATA---GGGGCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCTCTGGCCTCGGCCCCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgaatactatatagcttgcttctggctgaccaggtccttgccatcagcc Alignment from Spaln_nt2Genome TGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG ccctctctgtaaagatctcgtttttgcgcatacagatgttatctcctcagTGTCAGGTGGCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCTCTGGCCTCGGCCCCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgaatactatatagcttgcttctggctgaccaggtccttgccatcagcc Alignment from Pairagon GGGACCAGCGTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG ccctctctgtaaagatctcgtttttgcgcatacagatgttatctcctcag------------TGTCAGGTGGCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCTCTGGCCTCGGCCCCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgaatactatatagcttgcttctggctgaccaggtccttgccatcagcc Alignment from Exonerate_protein2genome TGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG ccctctctgtaaagatctcgtttttgcgcatacagatgttatctcctcagTGTCAGGTGGCTGCCATA---GGGGCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCTCTGGCCTCGGCCCCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgaatactatatagcttgcttctggctgaccaggtccttgccatcagcc Alignment from Exonerate_coding2genome TGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG ccctctctgtaaagatctcgtttttgcgcatacagatgttatctcctcagTGTCAGGTGGCTGCCATA---GGGGCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCTCTGGCCTCGGCCCCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgaatactatatagcttgcttctggctgaccaggtccttgccatcagcc Alignment from GeneWise ------------GTGTGTCAGGCAGCTGCTATAGGGGGTGCCATGGTCCTTCTCTATGCCAGCCGGGCCTGTTACAACCTGGCAGCTCTGGCCTTGGCCCCTCGGAGCCGGCTAGATGCCTTCGATTACGACTGGTACAACGTATCTGACCAG ccctctctgtaaagatctcgtttttgcgcatacagATGTTATCTCCTCAGTGTCAGGTGGCTGCCATAGGG---GCCATGGTCCTGCTCTATGCCAGCCGGGCCTGTTATAACCTGGCAGCTCTGGCCTCGGCCCCTCGGAGCCGGCTAGATGCCTTTGATTATGACTGGTACAATGTATCAGACCAGgtgaatactatatagcttgcttctggctgaccaggtccttgccatcagcc #### Gpr137_ID1889_2 --> 0 - 2 Original Alignment GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt aatctcactggtccaaagataccctcatatctccacccttttctccacag---------AAGGCCAAGGCTAGGCGTCGGCCAGAGATGAGCCGAGGCttgtaagtacaatggctcattggcagtgtgtaagcccaccgttgagacaggg Alignment from CESAR GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCtt caggagggcaatctcactggtccaacatatctccacccttttctccacag---------AAGGCCAAGGCTAGGCGTCGGCCAGAGATGAGCCGAGGCttgtaagtacaatggctcattggcagtgtgtaagcccaccgttgagacaggg Alignment from Spaln_aa2Genome AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aatctcactggtccaaagataccctcatatctccacccttttctccacagAAGGCCAAGGCTAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtaagtacaatggctcattggcagtgtgtaagcccaccgttgagacaggg Alignment from Spaln_nt2Genome CAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aatctcactggtccaaagataccctcatatctccacccttttctccacag-AAGGCCAAGGCTAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtaagtacaatggctcattggcagtgtgtaagcccaccgttgagacaggg Alignment from Pairagon GTGGTGTTCAAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aatctcactggtccaaagataccctcatatctccacccttttctccacag---------AAGGCCAAGGCTAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtaagtacaatggctcattggcagtgtgtaagcccaccgttgagacaggg Alignment from Exonerate_protein2genome AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aatctcactggtccaaagataccctcatatctccacccttttctccacagAAGGCCAAGGCTAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtaagtacaatggctcattggcagtgtgtaagcccaccgttgagacaggg Alignment from Exonerate_coding2genome AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT aatctcactggtccaaagataccctcatatctccacccttttctccacagAAGGCCAAGGCTAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtaagtacaatggctcattggcagtgtgtaagcccaccgttgagacaggg Alignment from GeneWise --------------------------------------------------AAGGCCAAGGCGAAGCGTCGGCCAGAGATGAGCCGAGGCTT AATCTCACTGGTCCAAAGATACCCTCATATCTCCACCCTTTTCTCCACAGAAGGCCAAGGCTAGGCGTCGGCCAGAGATGAGCCGAGGCTTgtaagtacaatggctcattggcagtgtgtaagcccaccgttgagacaggg #### Hnrnpul2_ID2400_4 --> 2 - 0 Original Alignment atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gtgttgagtgttgcagtaagacttctatcaaccctgccctgtctccacagat---------CTCCACTTCCAAATTAGCAAAGACCGATATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCTAAGgtgagtcattaatttagaccgtgacagagtcctacccaccatttaattag Alignment from CESAR atACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG cactccttggtgttgagtgttgcagtatcaaccctgccctgtctccacagat---------CTCCACTTCCAAATTAGCAAAGACCGATATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCTAAGgtgagtcattaatttagaccgtgacagagtcctacccaccatttaattag Alignment from Spaln_aa2Genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gtgttgagtgttgcagtaagacttctatcaaccctgccctgtctccacagAT---------CTCCACTTCCAAATTAGCAAAGACCGATATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCTAAGgtgagtcattaatttagaccgtgacagagtcctacccaccatttaattag Alignment from Spaln_nt2Genome ATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gtgttgagtgttgcagtaagacttctatcaaccctgccctgtctccacagATCTCCACTTCCAAATTAGCAAAGACCGATATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCTAAGgtgagtcattaatttagaccgtgacagagtcctacccaccatttaattag Alignment from Pairagon ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gtgttgagtgttgcagtaagacttctatcaaccctgccctgtctccacag---------ATCTCCACTTCCAAATTAGCAAAGACCGATATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCTAAGgtgagtcattaatttagaccgtgacagagtcctacccaccatttaattag Alignment from Exonerate_protein2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gtgttgagtgttgcagtaagacttctatcaaccctgccctgTCTCCACAGATCTCCACTTCCAAATTAGCAAAGACCGATATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCTAAGgtgagtcattaatttagaccgtgacagagtcctacccaccatttaattag Alignment from Exonerate_coding2genome ATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gtgttgagtgttgcagtaagacttctatcaaccctgccctgTCTCCACAGATCTCCACTTCCAAATTAGCAAAGACCGATATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCTAAGgtgagtcattaatttagaccgtgacagagtcctacccaccatttaattag Alignment from GeneWise --------------------TATACCTCGGATCTCCATTTTCAAATAAGCAAAGACCGATATGGAGGCCAGCCGCTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCCAAG gtgttgagtgttgcagtaagACTTCTATCAACCCTGCCCTGTCTCCACAGATCTCCACTTCCAAATTAGCAAAGACCGATATGGAGGCCAGCCACTCTTCTCAGAAAAGTTCCCTACCCTTTGGTCTGGGGCAAGAAGTACTTATGGAGTAACAAAGGGAAAAGTATGCTTTGAAGCTAAGgtgagtcattaatttagaccgtgacagagtcctacccaccatttaattag #### Hnrnpul2_ID2404_8 --> 0 - 0 Original Alignment ---------GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgagtgacttttatttcatatcagttttcttccctctcagTCGGGTCTGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGgtaagttgctgagggttggggaagggtgactagtggagacactggaagtc Alignment from CESAR ---------GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgagtgacttttatttcatatcagttttcttccctctcagTCGGGTCTGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGgtaagttgctgagggttggggaagggtgactagtggagacactggaagtc Alignment from Spaln_aa2Genome GTGATTCTGATGGTG---------GGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgagtgacttttatttcatatcagttttcttccctctcagTCGGGTCTGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGgtaagttgctgagggttggggaagggtgactagtggagacactggaagtc Alignment from Spaln_nt2Genome GGTGATTCTGATGG--------TGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgagtgacttttatttcatatcagttttcttccctctcagTCGGGTCTGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGgtaagttgctgagggttggggaagggtgactagtggagacactggaagtc Alignment from Pairagon ---------GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgagtgacttttatttcatatcagttttcttccctctcagTCGGGTCTGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGgtaagttgctgagggttggggaagggtgactagtggagacactggaagtc Alignment from Exonerate_protein2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgagtgacttttatttcatatcagttttcttccctctcagtcgggtctgGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGgtaagttgctgagggttggggaagggtgactagtggagacactggaagtc Alignment from Exonerate_coding2genome GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgagtgacttttatttcatatcagttttcttccctctcagtcgggtctgGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGgtaagttgctgagggttggggaagggtgactagtggagacactggaagtc Alignment from GeneWise ---------GTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGG tttataaaattgagtgacttttatttcatatcagttttcttccctctcagTCGGGTCTGGTGATTCTGATGGTGGGACTTCCTGGATCTGGAAAGACCCAGTGGGCACTGAAATACGCAAAAGACAACCCTGAGAGAAGATACAATGTTCTGGGAGCTGAGACTGTTCTCACGCAAATGAGGgtaagttgctgagggttggggaagggtgactagtggagacactggaagtc #### Hnrnpul2_ID2409_13 --> 0 - 0 Original Alignment GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------------ ttaccctgaagacccataaagcatcgaccggctctctgcatcttttccagGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTATAGTCGAGATTATGAGTACAACAGATACAGAGGATATTACAGAGAATACAACCGGGATATGAAACACAAAgttcacatatgggatagagtgaggatgaaggggacacgatccactggatg Alignment from CESAR GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT ttaccctgaagacccataaagcatcgaccggctctctgcatcttttccagGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTATAGTCGAGATTATGAGTACAACAGATACAGAGGATATTACAGAGAATACAACCGGGATatgaaacacaaagttcacatatgggatagagtgaggatgaaggggacacgatccactggatg Alignment from Spaln_aa2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT ttaccctgaagacccataaagcatcgaccggctctctgcatcttttccagGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTATAGTCGAGATTATGAGTACAACAGATACAGAGGATATTACAGAGAATACAACCGGGATatgaaacacaaagttcacatatgggatagagtgaggatgaaggggacacgatccactggatg Alignment from Spaln_nt2Genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------------ ttaccctgaagacccataaagcatcgaccggctctctgcatcttttccagGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTATAGTCGAGATTATGAGTACAACAGATACAGAGGATATTACAGAGAATACAACCGGGATATGAAACACAAAgttcacatatgggatagagtgaggatgaaggggacacgatccactggatg Alignment from Pairagon GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------------------------------ ttaccctgaagacccataaagcatcgaccggctctctgcatcttttccagGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTATAGTCGAGATTATGAGTACAACAGATACAGAGGATATTACAGAGAATACAACCGGGATATGAAACACAAAGTTCACATATGGGATAGAgtgaggatgaaggggacacgatccactggatg Alignment from Exonerate_protein2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT ttaccctgaagacccataaagcatcgaccggctctctgcatcttttccagGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTATAGTCGAGATTATGAGTACAACAGATACAGAGGATATTACAGAGAATACAACCGGGATatgaaacacaaagttcacatatgggatagagtgaggatgaaggggacacgatccactggatg Alignment from Exonerate_coding2genome GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT ttaccctgaagacccataaagcatcgaccggctctctgcatcttttccagGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTATAGTCGAGATTATGAGTACAACAGATACAGAGGATATTACAGAGAATACAACCGGGATatgaaacacaaagttcacatatgggatagagtgaggatgaaggggacacgatccactggatg Alignment from GeneWise GGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTACAGTCGAGATTATGAGTACAACAGATACAGAGACTATTACAGACAATACAACCGGGAT------------ ttaccctgaagacccataaagcatcgaccggctctctgcatcttttccagGGCTACCGTAATTTCTATGATCGATACAGAGGTGACTATGAACGATTCTATAGTCGAGATTATGAGTACAACAGATACAGAGGATATTACAGAGAATACAACCGGGATATGAAACACAAAgttcacatatgggatagagtgaggatgaaggggacacgatccactggatg #### Hoga1_ID8380_3 --> 2 - 0 Original Alignment ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG ctgattcagtactgctttgaaccctttgtctaaacttctttgtcataaagcc---------ACAGTAGAGATGACTGTCAGCATGGCTCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtgagagggaatggtagatgtggactagaggtcaggattgacagagacag Alignment from CESAR ccACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG tggggtgcactgattcagtactgctttgtctaaacttctttgtcataaagcc---------ACAGTAGAGATGACTGTCAGCATGGCTCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtgagagggaatggtagatgtggactagaggtcaggattgacagagacag Alignment from Spaln_aa2Genome CCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG ctgattcagtactgctttgaaccctttgtctaaacttctttgtcataaagCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtgagagggaatggtagatgtggactagaggtcaggattgacagagacag Alignment from Spaln_nt2Genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG ctgattcagtactgctttgaaccctttgtctaaacttctttgtcataaag---------CCACAGTAGAGATGACTGTCAGCATGGCTCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtgagagggaatggtagatgtggactagaggtcaggattgacagagacag Alignment from Pairagon CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG ctgattcagtactgctttgaaccctttgtctaaacttctttgtcataaag---------CCACAGTAGAGATGACTGTCAGCATGGCTCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtgagagggaatggtagatgtggactagaggtcaggattgacagagacag Alignment from Exonerate_protein2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG ctgattcagtactgctttgaaccctttgtctaaacttctttGTCATAAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtgagagggaatggtagatgtggactagaggtcaggattgacagagacag Alignment from Exonerate_coding2genome CCACGCAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG ctgattcagtactgctttgaaccctttgtctaaacttctttGTCATAAAGCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtgagagggaatggtagatgtggactagaggtcaggattgacagagacag Alignment from GeneWise CCACAGTAGAGATGACTGTCAGCATGGCTCAGGTGGGTGCTGATGTCGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCTGCCCTCATTCACCACTACACCAAG ctgattcagtactgctttgaaccctttgtctaaacttctttgtcataaagCCACAGTAGAGATGACTGTCAGCATGGCTCAGGTAGGTGCTGATGTTGCCATGGTGGTGACCCCTTGTTACTATCGTGGCCGCATGAGCAGCGCAGCACTCATTCACCACTACACCAAGgtgagagggaatggtagatgtggactagaggtcaggattgacagagacag #### Hps1_ID8614_14 --> 1 - 2 Original Alignment gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGtc gcacataaacaactgcccctgcctattcctgtgtttcattttgttttcagg---AGGCTTCTGGACTGGAAGGACTTCTCGCTGGTGAATAGCTGGAGAAATGTCACCATGGTTtcgtgagttcttgatatattctgaagctagacatatgtgtcccaccatggtg Alignment from CESAR gGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGtc agggcacataaacaactgcccctgcttcctgtgtttcattttgttttcagg---AGGCTTCTGGACTGGAAGGACTTCTCGCTGGTGAATAGCTGGAGAAATGTCACCATGGTTtcgtgagttcttgatatattctgaagctagacatatgtgtcccaccatggtg Alignment from Spaln_aa2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gcacataaacaactgcccctgcctattcctgtgtttcattttgttttcagG---AGGCTTCTGGACTGGAAGGACTTCTCGCTGGTGAATAGCTGGAGAAATGTCACCATGGTTTCgtgagttcttgatatattctgaagctagacatatgtgtcccaccatggtg Alignment from Spaln_nt2Genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gcacataaacaactgcccctgcctattcctgtgtttcattttgttttcag---GAGGCTTCTGGACTGGAAGGACTTCTCGCTGGTGAATAGCTGGAGAAATGTCACCATGGTTTCgtgagttcttgatatattctgaagctagacatatgtgtcccaccatggtg Alignment from Pairagon GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gcacataaacaactgcccctgcctattcctgtgtttcattttgttttcag---GAGGCTTCTGGACTGGAAGGACTTCTCGCTGGTGAATAGCTGGAGAAATGTCACCATGGTTTCgtgagttcttgatatattctgaagctagacatatgtgtcccaccatggtg Alignment from Exonerate_protein2genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gcacataaacaactgcccctgcctattcctgtgtttcattttgttttcagG---AGGCTTCTGGACTGGAAGGACTTCTCGCTGGTGAATAGCTGGAGAAATGTCACCATGGTTTCgtgagttcttgatatattctgaagctagacatatgtgtcccaccatggtg Alignment from Exonerate_coding2genome GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gcacataaacaactgcccctgcctattcctgtgtttcattttgttttcagG---AGGCTTCTGGACTGGAAGGACTTCTCGCTGGTGAATAGCTGGAGAAATGTCACCATGGTTTCgtgagttcttgatatattctgaagctagacatatgtgtcccaccatggtg Alignment from GeneWise GGAGAGGCTTCTGGACTGGAAGGACTTCCTGTTGGTGAAGAGCCGGAGAAATGTCACCATGGTGTC gcacataaacaactgcccctgcctattcctgtgtttcattttgttttcagG---AGGCTTCTGGACTGGAAGGACTTCTCGCTGGTGAATAGCTGGAGAAATGTCACCATGGTTTCgtgagttcttgatatattctgaagctagacatatgtgtcccaccatggtg #### Hps1_ID8622_6 --> 1 - 0 Original Alignment c---------CATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG aacactattttagttgcacgctcaccaggatattgtgtgtatttctccagcTTCAAGCTTCAGGGTGCAAGCACCCTGTGCCCTGCAGACCTCCTC---------CTCCTGGTGCAGGACCTTCAGCCCTCCCCAGGTACCACAGAGGAGGAGGGGGAGGAGGAAGATAGTGACAGCCCTCAGgtgagtgagcacaagcggaatagggtgacattatcttgctgctctaagat Alignment from CESAR c---------CATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG aacactattttagttgcacgctcaccaggatattgtgtgtatttctccagcTTCAAGCTTCAGGGTGCAAGCACCCTGTGCCCTGCAGACCTCCTC---------CTCCTGGTGCAGGACCTTCAGCCCTCCCCAGGTACCACAGAGGAGGAGGGGGAGGAGGAAGATAGTGACAGCCCTCAGgtgagtgagcacaagcggaatagggtgacattatcttgctgctctaagat Alignment from Spaln_aa2Genome C---------CATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCA aacactattttagttgcacgctcaccaggatattgtgtgtatttctccagCTTCAAGCTTCAGGGTGCAAGCACCCTGTGCCCTGCAGACCTCCTC---------CTCCTGGTGCAGGACCTTCAGCCCTCCCCAGGTACCACAGAGGAGGAGGGGGAGGAGGAAGATAGTGACAGCCCTCAGgtgagtgagcacaagcggaatagggtgacattatcttgctgctctaagat Alignment from Spaln_nt2Genome C--CATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG aacactattttagttgcacgctcaccaggatattgtgtgtatttctccagcttcaagCTTCAGGGTGCAAGCACCCTGTGCCCTGCAGACCTCC---------TCCTCCTGGTGCAGGACCTTCAGCCCTCCCCAGGTACCACAGAGGAGGAGGGGGAGGAGGAAGATAGTGACAGCCCTCAGgtgagtgagcacaagcggaatagggtgacattatcttgctgctctaagat Alignment from Pairagon CCATGGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG aacactattttagttgcacgctcaccaggatattgtgtgtatttctccagcttcaagcttcag----GGTGCAAGCACCCTGTGCCCTGCAGACCTCC---------TCCTCCTGGTGCAGGACCTTCAGCCCTCCCCAGGTACCACAGAGGAGGAGGGGGAGGAGGAAGATAGTGACAGCCCTCAGgtgagtgagcacaagcggaatagggtgacattatcttgctgctctaagat Alignment from Exonerate_protein2genome GGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG aacactattttagttgcacgctcaccaggatattgtgtgtatttctccagcttcaagcttcagGGTGCAAGCACCCTGTGCCCTGCAGACCTCCTC---------CTCCTGGTGCAGGACCTTCAGCCCTCCCCAGGTACCACAGAGGAGGAGGGGGAGGAGGAAGATAGTGACAGCCCTCAGgtgagtgagcacaagcggaatagggtgacattatcttgctgctctaagat Alignment from Exonerate_coding2genome GGTGCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG aacactattttagttgcacgctcaccaggatattgtgtgtatttctccagcttcaagcttcagGGTGCAAGCACCCTGTGCCCTGCAGACCTCCTC---------CTCCTGGTGCAGGACCTTCAGCCCTCCCCAGGTACCACAGAGGAGGAGGGGGAGGAGGAAGATAGTGACAGCCCTCAGgtgagtgagcacaagcggaatagggtgacattatcttgctgctctaagat Alignment from GeneWise ----------------GCGAGCACCCTGCGCCCCGCAGACCTCCTGGCGCTCATCCTTCTGGTGCAGGACCTCCAGCCCTCCCCAGGAACCACAGAGGAGGAGGAGGAGGAGGAGGATAGCGACAGCCCTCAG aacactattttagttgcacgctcaccaggatattgtgtgtatttctccagCTTCAAGCTTCAGGGTGCAAGCACCCTGTGCCCTGCAGACCTCCTC---------CTCCTGGTGCAGGACCTTCAGCCCTCCCCAGGTACCACAGAGGAGGAGGGGGAGGAGGAAGATAGTGACAGCCCTCAGgtgagtgagcacaagcggaatagggtgacattatcttgctgctctaagat #### Incenp_ID2604_15 --> 0 - 0 Original Alignment GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG--------- gggggtagcggtgtggcaagaggagaggtaattttttctttctttcccagGAAGAGCAACAGCGCCTGGCTAAGCAGCAACCGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCGGGATTTCCTCgtaactcctgcacccctattcagatgggttcttactccatgcttcattta Alignment from CESAR GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG--------- gggggtagcggtgtggcaagaggagaggtaattttttctttctttcccagGAAGAGCAACAGCGCCTGGCTAAGCAGCAACCGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCGGGATTTCCTCgtaactcctgcacccctattcagatgggttcttactccatgcttcattta Alignment from Spaln_aa2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG--------- gggggtagcggtgtggcaagaggagaggtaattttttctttctttcccagGAAGAGCAACAGCGCCTGGCTAAGCAGCAACCGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCGGGATTTCCTCgtaactcctgcacccctattcagatgggttcttactccatgcttcattta Alignment from Spaln_nt2Genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG--------- gggggtagcggtgtggcaagaggagaggtaattttttctttctttcccagGAAGAGCAACAGCGCCTGGCTAAGCAGCAACCGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCGGGATTTCCTCgtaactcctgcacccctattcagatgggttcttactccatgcttcattta Alignment from Pairagon GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG--------- gggggtagcggtgtggcaagaggagaggtaattttttctttctttcccagGAAGAGCAACAGCGCCTGGCTAAGCAGCAACCGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCGGGATTTCCTCgtaactcctgcacccctattcagatgggttcttactccatgcttcattta Alignment from Exonerate_protein2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagcggtgtggcaagaggagaggtaattttttctttctttcccagGAAGAGCAACAGCGCCTGGCTAAGCAGCAACCGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCGGgatttcctcgtaactcctgcacccctattcagatgggttcttactccatgcttcattta Alignment from Exonerate_coding2genome GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG gggggtagcggtgtggcaagaggagaggtaattttttctttctttcccagGAAGAGCAACAGCGCCTGGCTAAGCAGCAACCGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCGGgatttcctcgtaactcctgcacccctattcagatgggttcttactccatgcttcattta Alignment from GeneWise GAAGAGCAACAGCGCCTGGCTGAGCAGCAACTGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTGAACATGACTGTGGATGTGCAG--------- gggggtagcggtgtggcaagaggagaggtaattttttctttctttcccagGAAGAGCAACAGCGCCTGGCTAAGCAGCAACCGCAGGAGGAGCAGGCAAAGAAAGCTAAGGAGGTGGCAGCAGCCAGGAAAGTCCTCAACATGACTGTGGATGTGCGGGATTTCCTCgtaactcctgcacccctattcagatgggttcttactccatgcttcattta #### Kat5_ID1109_13 --> 1 - 0 Original Alignment t---GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgaatatcttcaggtgacctaacttctgtgtacctgtttcctttcagtGATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGgtaagtgggcatgctcaggggacaaatgagatcacagcagtacatgatac Alignment from CESAR t---GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgaatatcttcaggtgacctaacttctgtgtacctgtttcctttcagtGATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGgtaagtgggcatgctcaggggacaaatgagatcacagcagtacatgatac Alignment from Spaln_aa2Genome T---GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgaatatcttcaggtgacctaacttctgtgtacctgtttcctttcagTGATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGgtaagtgggcatgctcaggggacaaatgagatcacagcagtacatgatac Alignment from Spaln_nt2Genome ATGAGATCAG--TGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgaatatcttcaggtgacctaacttctgtgtacctgtttcctttcagTGATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGgtaagtgggcatgctcaggggacaaatgagatcacagcagtacatgatac Alignment from Pairagon ---TGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgaatatcttcaggtgacctaacttctgtgtacctgtttcctttcagTGATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGgtaagtgggcatgctcaggggacaaatgagatcacagcagtacatgatac Alignment from Exonerate_protein2genome T---GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgaatatcttcaggtgacctaacttctgtgtacctgtttcctttcagTGATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGgtaagtgggcatgctcaggggacaaatgagatcacagcagtacatgatac Alignment from Exonerate_coding2genome T---GAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgaatatcttcaggtgacctaacttctgtgtacctgtttcctttcagTGATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGgtaagtgggcatgctcaggggacaaatgagatcacagcagtacatgatac Alignment from GeneWise -AATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAG agatgaatatcttcaggtgacctaacttctgtgtacctgtttcctttcagTGATGAGATCAGTGAAATCACTAGTATCAAGAAAGAAGATGTCATCTCCACACTGCAGTATCTCAACCTCATCAATTACTACAAGgtaagtgggcatgctcaggggacaaatgagatcacagcagtacatgatac #### Kat5_ID1110_12 --> 2 - 2 Original Alignment gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---aa aagcttccatgtacatgtgatgcttacttggtctgtttttctttccccaggcTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCACCATCGCCaagtactgtgaaatgccaacctgggggttgtggtatggcctatctgtttctg Alignment from CESAR gcTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---aa aagcttccatgtacatgtgatgcttacttggtctgtttttctttccccaggcTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCACCATCGCCaagtactgtgaaatgccaacctgggggttgtggtatggcctatctgtttctg Alignment from Spaln_aa2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAAT-- aagcttccatgtacatgtgatgcttacttggtctgtttttctttccccagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCACCATCGCCAAgtactgtgaaatgccaacctgggggttgtggtatggcctatctgtttctg Alignment from Spaln_nt2Genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---AA aagcttccatgtacatgtgatgcttacttggtctgtttttctttccccagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCACCATCGCCAAgtactgtgaaatgccaacctgggggttgtggtatggcctatctgtttctg Alignment from Pairagon GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCAT---CAA aagcttccatgtacatgtgatgcttacttggtctgtttttctttccccagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCACCATCGCCAAgtactgtgaaatgccaacctgggggttgtggtatggcctatctgtttctg Alignment from Exonerate_protein2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---AA aagcttccatgtacatgtgatgcttacttggtctgtttttctttccccagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCACCATCGCCAAgtactgtgaaatgccaacctgggggttgtggtatggcctatctgtttctg Alignment from Exonerate_coding2genome GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATC---AA aagcttccatgtacatgtgatgcttacttggtctgtttttctttccccagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCACCATCGCCAAgtactgtgaaatgccaacctgggggttgtggtatggcctatctgtttctg Alignment from GeneWise GCTATGAACTCTCGAAAGTAGAAGGGAAGACCGGAACTCCTGAGAAACCCCTGTCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGCGGGGAGAGGCCACAGATCACCATCAAT-- aagcttccatgtacatgtgatgcttacttggtctgtttttctttccccagGCTATGAACTCTCGAAAGTAGACGGGAAGACCGGAACTCCTGAGAAACCCCTATCAGATCTTGGCCTCCTATCCTACCGAAGTTACTGGTCCCAAACCATCTTGGAGATCCTGATGGGGCTGAAGTCGGAGAGTGGGGAGAGGCCACAGATCACCATCGCCAAgtactgtgaaatgccaacctgggggttgtggtatggcctatctgtttctg #### Kat5_ID1114_8 --> 0 - 0 Original Alignment ---------GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gtgcaccacactacttaactgctaccatcagacgtctccttctctttcagCATAGGCTGGATTCTCAGGACAGCTCAGACGGAATACCAACAGCTCCACGAATGACTGGCAGTCTGGTGTCTGACCAGAGCCATGACGACATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCGCCTTAAGCCGTGGTATTTCTCCCCATACCCTCAAGAGCTTACCACACTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTATGGCCATAGTCTCAAGTGTCTCAAACGCCACCTCgtaagcggggtcttgggaggtggcccatccagagcaccctcactggtgcc Alignment from CESAR ---------GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gtgcaccacactacttaactgctaccatcagacgtctccttctctttcagCATAGGCTGGATTCTCAGGACAGCTCAGACGGAATACCAACAGCTCCACGAATGACTGGCAGTCTGGTGTCTGACCAGAGCCATGACGACATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCGCCTTAAGCCGTGGTATTTCTCCCCATACCCTCAAGAGCTTACCACACTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTATGGCCATAGTCTCAAGTGTCTCAAACGCCACCTCgtaagcggggtcttgggaggtggcccatccagagcaccctcactggtgcc Alignment from Spaln_aa2Genome GATTCTCAGGACAGCTCA---------GATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gtgcaccacactacttaactgctaccatcagacgtctccttctctttcagCATAGGCTGGATTCTCAGGACAGCTCAGACGGAATACCAACAGCTCCACGAATGACTGGCAGTCTGGTGTCTGACCAGAGCCATGACGACATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCGCCTTAAGCCGTGGTATTTCTCCCCATACCCTCAAGAGCTTACCACACTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTATGGCCATAGTCTCAAGTGTCTCAAACGCCACCTCgtaagcggggtcttgggaggtggcccatccagagcaccctcactggtgcc Alignment from Spaln_nt2Genome GGATTCTCAGG---ACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gtgcaccacactacttaactgctaccatcagacgtctccttctctttcagcatagGCTGGATTCTCAGGACAGCTCAGACGGAATACCAACAGCTCCACGAATGACTGGCAGTCTGGTGTCTGACCAGAGCCATGACGACATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCGCCTTAAGCCGTGGTATTTCTCCCCATACCCTCAAGAGCTTACCACACTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTATGGCCATAGTCTCAAGTGTCTCAAACGCCACCTCgtaagcggggtcttgggaggtggcccatccagagcaccctcactggtgcc Alignment from Pairagon ---------GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gtgcaccacactacttaactgctaccatcagacgtctccttctctttcagCATAGGCTGGATTCTCAGGACAGCTCAGACGGAATACCAACAGCTCCACGAATGACTGGCAGTCTGGTGTCTGACCAGAGCCATGACGACATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCGCCTTAAGCCGTGGTATTTCTCCCCATACCCTCAAGAGCTTACCACACTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTATGGCCATAGTCTCAAGTGTCTCAAACGCCACCTCgtaagcggggtcttgggaggtggcccatccagagcaccctcactggtgcc Alignment from Exonerate_protein2genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gtgcaccacactacttaactgctaccatcagacgtctccttctctttcagcataggctgGATTCTCAGGACAGCTCAGACGGAATACCAACAGCTCCACGAATGACTGGCAGTCTGGTGTCTGACCAGAGCCATGACGACATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCGCCTTAAGCCGTGGTATTTCTCCCCATACCCTCAAGAGCTTACCACACTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTATGGCCATAGTCTCAAGTGTCTCAAACGCCACCTCgtaagcggggtcttgggaggtggcccatccagagcaccctcactggtgcc Alignment from Exonerate_coding2genome GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG gtgcaccacactacttaactgctaccatcagacgtctccttctctttcagcataggctgGATTCTCAGGACAGCTCAGACGGAATACCAACAGCTCCACGAATGACTGGCAGTCTGGTGTCTGACCAGAGCCATGACGACATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCGCCTTAAGCCGTGGTATTTCTCCCCATACCCTCAAGAGCTTACCACACTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTATGGCCATAGTCTCAAGTGTCTCAAACGCCACCTCgtaagcggggtcttgggaggtggcccatccagagcaccctcactggtgcc Alignment from GeneWise ---------GATTCTCAGGACAGCTCAGATGGAATACCGTCAGCACCACGAATGACTGGCAGTCTGGTGTCTGACCGGAGCCACGACGACATTGTCACCCGGATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCACCGCCTCAAGCCGTGGTACTTCTCCCCGTACCCACAAGAGCTTACCACGCTACCCGTCCTCTACCTGTGCGAATTTTGCCTCAAATATGGCCGTAGCCTCAAGTGTCTGCAACGCCACTTG-------------------------------------------------- gtgcaccacactacttaactgctaccatcagacgtctccttctctttcagCATAGGCTGGATTCTCAGGACAGCTCAGACGGAATACCAACAGCTCCACGAATGACTGGCAGTCTGGTGTCTGACCAGAGCCATGACGACATTGTCACCCGAATGAAGAACATTGAGTGTATTGAGCTTGGCCGGCATCGCCTTAAGCCGTGGTATTTCTCCCCATACCCTCAAGAGCTTACCACACTACCCGTCCTCTACCTGTGTGAATTTTGCCTGAAGTATGGCCATAGTCTCAAGTGTCTCAAACGCCACCTCGTAAGCGGGGTCTTGGGAGGTGGCCCATCCAGAGCACCCTCACTGGTGCC #### Kat5_ID1115_7 --> 0 - 0 Original Alignment ------AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccagtataatctcacactcacttgctcagtgtttttgctttcttagATGACAAATGGATCAACCCGTAGAGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtaaagctttaggagcagagaggggaaagggggggtgggcttgggcaacg Alignment from CESAR ------AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccagtataatctcacactcacttgctcagtgtttttgctttcttagATGACAAATGGATCAACCCGTAGAGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtaaagctttaggagcagagaggggaaagggggggtgggcttgggcaacg Alignment from Spaln_aa2Genome AATGGGTCAGCCCGT------AGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccagtataatctcacactcacttgctcagtgtttttgctttcttagATGACAAATGGATCAACCCGTAGAGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtaaagctttaggagcagagaggggaaagggggggtgggcttgggcaacg Alignment from Spaln_nt2Genome A------ATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccagtataatctcacactcacttgctcagtgtttttgctttcttagATGACAAATGGATCAACCCGTAGAGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtaaagctttaggagcagagaggggaaagggggggtgggcttgggcaacg Alignment from Pairagon ------AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccagtataatctcacactcacttgctcagtgtttttgctttcttagATGACAAATGGATCAACCCGTAGAGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtaaagctttaggagcagagaggggaaagggggggtgggcttgggcaacg Alignment from Exonerate_protein2genome ------AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccagtataatctcacactcacttgctcagtgtttttgctttcttagATGACAAATGGATCAACCCGTAGAGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtaaagctttaggagcagagaggggaaagggggggtgggcttgggcaacg Alignment from Exonerate_coding2genome ------AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccagtataatctcacactcacttgctcagtgtttttgctttcttagATGACAAATGGATCAACCCGTAGAGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtaaagctttaggagcagagaggggaaagggggggtgggcttgggcaacg Alignment from GeneWise ------AATGGGTCAGCCCGTAGGGCAGTGGCAGCCCAGCCTGGACGGAAGCGGAAATCTAATTGCTTGGGCACTGATGAG tcctccagtataatctcacactcacttgctcagtgtttttgctttcttagATGACAAATGGATCAACCCGTAGAGCAGTGGCAGCCCAGCCAGGGTGGAAGCGGAAATCTAACTGCTTGGGCACTGATGAGgtaaagctttaggagcagagaggggaaagggggggtgggcttgggcaacg #### Kat5_ID1116_6 --> 0 - 0 Original Alignment AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG gacccaccttctctatcttctgacctgcacccattgtctttattctcaagAAGCGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGTGAGACAGCCGCAGCCTCAGTTTTCCCT---gtaggtactcttcaattcttttttcaagtgccgaaatgttttgtctgcac Alignment from CESAR AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG gacccaccttctctatcttctgacctgcacccattgtctttattctcaagAAGCGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGTGAGACAGCCGCAGCCTCAGTTTTCCCT---gtaggtactcttcaattcttttttcaagtgccgaaatgttttgtctg Alignment from Spaln_aa2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCT gacccaccttctctatcttctgacctgcacccattgtctttattctcaagAAGCGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGTGAGACAGCCGCAGCCTCAGTTTTCCCTgtaggtactcttcaattcttttttcaagtgccgaaatgttttgtctgcac Alignment from Spaln_nt2Genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTC-AG gacccaccttctctatcttctgacctgcacccattgtctttattctcaagAAGCGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGTGAGACAGCCGCAGCCTCAGTTTTCCCTGTAGgtactcttcaattcttttttcaagtgccgaaatgttttgtctgcac Alignment from Pairagon AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCT gacccaccttctctatcttctgacctgcacccattgtctttattctcaagAAGCGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGTGAGACAGCCGCAGCCTCAGTTTTCCCTgtaggtactcttcaattcttttttcaagtgccgaaatgttttgtctgcac Alignment from Exonerate_protein2genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG gacccaccttctctatcttctgacctgcacccattgtctttattctcaagAAGCGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGTGAGACAGCCGCAGCCTCAGTTTTCCCT---gtaggtactcttcaattcttttttcaagtgccgaaatgttttgtctg Alignment from Exonerate_coding2genome AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCTCAG gacccaccttctctatcttctgacctgcacccattgtctttattctcaagAAGCGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGTGAGACAGCCGCAGCCTCAGTTTTCCCT---gtaggtactcttcaattcttttttcaagtgccgaaatgttttgtctg Alignment from GeneWise AAACGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGCGAGACAGCCCCAGCCTCGGTTTTCCCT gacccaccttctctatcttctgacctgcacccattgtctttattctcaagAAGCGGAAGGTGGAGGTGGTTTCACCAGCAACCCCAGTGCCCAGTGAGACAGCCGCAGCCTCAGTTTTCCCTgtaggtactcttcaattcttttttcaagtgccgaaatgttttgtctgcac #### Kat5_ID1119_3 --> 2 - 1 Original Alignment ccCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---------t ctcctgacctgccctgctcgctaaactctagatgttttcctttctcctagcgCTGGCTGAGATCCTAAGTGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGAGGCTGAGtgtaggacctgagcctggatggaggggggttgctaaataaggttaaggaaa Alignment from CESAR ccCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---------t ctcctgacctgccctgctcgctaaactctagatgttttcctttctcctagcgCTGGCTGAGATCCTAAGTGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGAGGCTGAGtgtaggacctgagcctggatggaggggggttgctaaataaggttaaggaaa Alignment from Spaln_aa2Genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---------T ctcctgacctgccctgctcgctaaactctagatgttttcctttctcctagCGCTGGCTGAGATCCTAAGTGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGAGGCTGAGTgtaggacctgagcctggatggaggggggttgctaaataaggttaaggaaa Alignment from Spaln_nt2Genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGACT-- ctcctgacctgccctgctcgctaaactctagatgttttcctttctcctagCGCTGGCTGAGATCCTAAGTGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGAGgctgagtgtaggacctgagcctggatggaggggggttgctaaataaggttaaggaaa Alignment from Pairagon CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---------T ctcctgacctgccctgctcgctaaactctagatgttttcctttctcctagCGCTGGCTGAGATCCTAAGTGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGAGGCTGAGTgtaggacctgagcctggatggaggggggttgctaaataaggttaaggaaa Alignment from Exonerate_protein2genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---T ctcctgacctgccctgctcgctaaactctagatgttttcctttctcctagCGCTGGCTGAGATCCTAAGTGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGAGGctgagtgtaggacctgagcctggatggaggggggttgctaaataaggttaaggaaa Alignment from Exonerate_coding2genome CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---T ctcctgacctgccctgctcgctaaactctagatgttttcctttctcctagCGCTGGCTGAGATCCTAAGTGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGAGGctgagtgtaggacctgagcctggatggaggggggttgctaaataaggttaaggaaa Alignment from GeneWise CCCTGGCTGAGATCCTGAGCGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCCATTACATTGAC---------T ctcctgacctgccctgctcgctaaactctagatgttttcctttctcctagCGCTGGCTGAGATCCTAAGTGTGAAGGACATCAGTGGCCGAAAGCTTTTCTATGTCTATTACATTGACGAGGCTGAGTgtaggacctgagcctggatggaggggggttgctaaataaggttaaggaaa #### Kcnip2_ID9604_8 --> 0 - 0 Original Alignment ---GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG aaaacttcaactggcttgctcttaggagctcttcttctccctgcacacagCGAGAAATGCTTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGgtgagcgggtctgggttggctggaggctctggggtggatagaaggacact Alignment from CESAR ---GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG aaaacttcaactggcttgctcttaggagctcttcttctccctgcacacagCGAGAAATGCTTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGgtgagcgggtctgggttggctggaggctctggggtggatagaaggacact Alignment from Spaln_aa2Genome GAAATGCTCGAC---ATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG aaaacttcaactggcttgctcttaggagctcttcttctccctgcacacagCGAGAAATGCTTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGgtgagcgggtctgggttggctggaggctctggggtggatagaaggacact Alignment from Spaln_nt2Genome GAAATGCTCGAC---ATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG aaaacttcaactggcttgctcttaggagctcttcttctccctgcacacagCGAGAAATGCTTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGgtgagcgggtctgggttggctggaggctctggggtggatagaaggacact Alignment from Pairagon ---GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG aaaacttcaactggcttgctcttaggagctcttcttctccctgcacacagCGAGAAATGCTTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGgtgagcgggtctgggttggctggaggctctggggtggatagaaggacact Alignment from Exonerate_protein2genome ---GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG aaaacttcaactggcttgctcttaggagctcttcttctccctgcacacagCGAGAAATGCTTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGgtgagcgggtctgggttggctggaggctctggggtggatagaaggacact Alignment from Exonerate_coding2genome ---GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG aaaacttcaactggcttgctcttaggagctcttcttctccctgcacacagCGAGAAATGCTTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGgtgagcgggtctgggttggctggaggctctggggtggatagaaggacact Alignment from GeneWise ---GAAATGCTCGACATCATGAAGTCCATCTATGACATGATGGGCAAGTACACCTACCCTGCCCTCCGGGAGGAGGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAG aaaacttcaactggcttgctcttaggagctcttcttctccctgcacacagCGAGAAATGCTTGACATCATGAAATCCATCTATGACATGATGGGCAAATACACCTACCCTGCGCTCCGGGAGGAAGCCCCGAGGGAACACGTGGAGAGCTTCTTCCAGgtgagcgggtctgggttggctggaggctctggggtggatagaaggacact #### Kcnip2_ID9605_7 --> 0 - 0 Original Alignment ---------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccataccaaagtgggttggcagagctcagttctcatctctccccagATTTATCCAGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtggggggccactgggggtaagaggggtggcatgtgagggcctgtggcaa Alignment from CESAR ---------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccataccaaagtgggttggcagagctcagttctcatctctccccagATTTATCCAGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtggggggccactgggggtaagaggggtggcatgtgagggcctgtggcaa Alignment from Spaln_aa2Genome GACTTTGTG---------GCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccataccaaagtgggttggcagagctcagttctcatctctccccagATTTATCCAGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtggggggccactgggggtaagaggggtggcatgtgagggcctgtggcaa Alignment from Spaln_nt2Genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccataccaaagtgggttggcagagctcagttctcatctctccccagatttatccagACTTTGTGG-CAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtggggggccactgggggtaagaggggtggcatgtgagggcctgtggcaa Alignment from Pairagon ---------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccataccaaagtgggttggcagagctcagttctcatctctccccagATTTATCCAGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtggggggccactgggggtaagaggggtggcatgtgagggcctgtggcaa Alignment from Exonerate_protein2genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccataccaaagtgggttggcagagctcagttctcatctctccccagatttatccaGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtggggggccactgggggtaagaggggtggcatgtgagggcctgtggcaa Alignment from Exonerate_coding2genome GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccataccaaagtgggttggcagagctcagttctcatctctccccagatttatccaGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtggggggccactgggggtaagaggggtggcatgtgagggcctgtggcaa Alignment from GeneWise ---------GACTTTGTGGCTGGTTTGTCAGTGATTCTTCGGGGAACCATAGATGATAGACTGAACTGGGCTTTCAACTTATATGACCTCAACAAGGATGGCTGTATCACGAAGGAG atttccataccaaagtgggttggcagagctcagttctcatctctccccagATTTATCCAGACTTTGTGGCAGGTTTGTCAGTAATTCTTCGGGGAACCATAGATGATAGATTGAATTGGGCTTTCAACTTATATGACCTCAATAAGGATGGCTGTATCACAAAGGAGgtggggggccactgggggtaagaggggtggcatgtgagggcctgtggcaa #### Kcnip2_ID9606_6 --> 2 - 0 Original Alignment acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG aactgggtatgcctgctgaatattttattttccttcttatatatttccagac---------TACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGgtgaggcgggagagatgatgggccaaacaaacaagcctgttaccctggaa Alignment from CESAR acTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG gccaaggagaactgggtatgcctgctattttccttcttatatatttccagac---------TACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGgtgaggcgggagagatgatgggccaaacaaacaagcctgttaccctggaa Alignment from Spaln_aa2Genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG aactgggtatgcctgctgaatattttattttccttcttatatatttccagAC---------TACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGgtgaggcgggagagatgatgggccaaacaaacaagcctgttaccctggaa Alignment from Spaln_nt2Genome ACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG aactgggtatgcctgctgaatattttattttccttcttatatatttccagACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGgtgaggcgggagagatgatgggccaaacaaacaagcctgttaccctggaa Alignment from Pairagon ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG aactgggtatgcctgctgaatattttattttccttcttatatatttccag---------ACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGgtgaggcgggagagatgatgggccaaacaaacaagcctgttaccctggaa Alignment from Exonerate_protein2genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG aactgggtatgcctgctgaatattttattttccttcttataTATTTCCAGACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGgtgaggcgggagagatgatgggccaaacaaacaagcctgttaccctggaa Alignment from Exonerate_coding2genome ACTCCAGCAACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG aactgggtatgcctgctgaatattttattttccttcttataTATTTCCAGACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGgtgaggcgggagagatgatgggccaaacaaacaagcctgttaccctggaa Alignment from GeneWise ACTACGCTACTTTTCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAG aactgggtatgcctgctgaatattttattttccttcttatatatttccagACTACGCTACTTTCCTCTTCAATGCCTTTGACACCAACCATGATGGCTCTGTCAGTTTTGAGgtgaggcgggagagatgatgggccaaacaaacaagcctgttaccctggaa #### Kcnk4_ID1877_3 --> 2 - 0 Original Alignment TTTTCTCGGGGACCATCATCACTACCATCg gcTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTACAATCATCACTACCATccgtaagtgtgactccatcctgcacctctcacgtgtcctcaggcTACGGCAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTTGGGATGTTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTG---gtaagattggggcaatcttcttggtacttcacactacacccctcagaggg Alignment from CESAR GAACCTGGGCAGCGCCTTCTTTTTCTCGGGGACCATCATCACTAC gcTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG GAACCTTGGCAGTGCCTTCTTTTTTTCAGGTACAATCATCACTACtcctgcacctctcacgtgtcctcaggcTACGGCAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTTGGGATGTTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGTAAGATTGGGGCAATCTTCTTGgtacttcacactacacccctcagaggg Alignment from Spaln_aa2Genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTACAATCATCACTACCATCCgtaagtgtgactccatcctgcacctctcacgtgtcctcagGCTACGGCAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTTGGGATGTTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGTAAGATTGGGGCAATCTTCTTGgtacttcacactacacccctcagaggg Alignment from Spaln_nt2Genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTACAATCATCACTACCATCCgtaagtgtgactccatcctgcacctctcacgtgtcctcagGCTACGGCAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTTGGGATGTTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGTAAGATTGGGGCAATCTTCTTGgtacttcacactacacccctcagaggg Alignment from Pairagon TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTACAATCATCACTACCATCCgtaagtgtgactccatcctgcacctctcacgtgtcctcagGCTACGGCAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTTGGGATGTTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGTAAGATTGGGGCAATCTTCTTGgtacttcacactacacccctcagaggg Alignment from Exonerate_protein2genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTACAATCATCACTACCATCCgtaagtgtgactccatcctgcacctctcacgtgtcctcagGCTACGGCAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTTGGGATGTTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGTAAGATTGGGGCAATCTTCTTGgtacttcacactacacccctcagaggg Alignment from Exonerate_coding2genome TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTACAATCATCACTACCATCCgtaagtgtgactccatcctgcacctctcacgtgtcctcagGCTACGGCAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTTGGGATGTTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGTAAGATTGGGGCAATCTTCTTGgtacttcacactacacccctcagaggg Alignment from GeneWise TTTTCTCGGGGACCATCATCACTACCATCG GCTATGGCAATATAGTCTTACACACAGATGCCGGGCGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTCGGGATGCTGCTGGCGGGAGTCGGGGACCGGCTGGGCTCCTCTCTGCGCCGGGGCATCGGCCACATCGAAGCAATCTTCTTG TTTTTTCAGGTACAATCATCACTACCATCCgtaagtgtgactccatcctgcacctctcacgtgtcctcagGCTACGGCAATATAGTCTTACACACTGATGCTGGGTGTCTCTTTTGTATCTTCTATGCACTGGTGGGGATCCCACTGTTTGGGATGTTGCTGGTGGGAGTTGGGGACCGGCTGGGCTCCTCCCTGCGCCGAGGCATTGGTAAGATTGGGGCAATCTTCTTGgtacttcacactacacccctcagaggg #### Kif11_ID7313_3 --> 0 - 2 Original Alignment GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCgc atacaccttcacggtttctattatctctattgtctataacttctttccag---------GCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTAATTATGGGCTATAATTGTACCATCTCCgcgtaagaaaaacaacttttcaagtttagaagatatgtatgtgtgtatatgc Alignment from CESAR GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCgc acttggatgatacaccttcacggtttctattgtctataacttctttccag---------GCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTAATTATGGGCTATAATTGTACCATCTCCgcgtaagaaaaacaacttttcaagtttagaagatatgtatgtgtgtatatgc Alignment from Spaln_aa2Genome GCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCGC atacaccttcacggtttctattatctctattgtctataacttctttccagGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTAATTATGGGCTATAATTGTACCATCTCCGCgtaagaaaaacaacttttcaagtttagaagatatgtatgtgtgtatatgc Alignment from Spaln_nt2Genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCGC atacaccttcacggtttctattatctctattgtctataacttctttccag---------GCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTAATTATGGGCTATAATTGTACCATCTCCGCgtaagaaaaacaacttttcaagtttagaagatatgtatgtgtgtatatgc Alignment from Pairagon GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCGC atacaccttcacggtttctattatctctattgtctataacttctttccag---------GCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTAATTATGGGCTATAATTGTACCATCTCCGCgtaagaaaaacaacttttcaagtttagaagatatgtatgtgtgtatatgc Alignment from Exonerate_protein2genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCGC atacaccttcacggtttctattatctctattgtctataactTCTTTCCAGGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTAATTATGGGCTATAATTGTACCATCTCCGCgtaagaaaaacaacttttcaagtttagaagatatgtatgtgtgtatatgc Alignment from Exonerate_coding2genome GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCGC atacaccttcacggtttctattatctctattgtctataactTCTTTCCAGGCATCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTAATTATGGGCTATAATTGTACCATCTCCGCgtaagaaaaacaacttttcaagtttagaagatatgtatgtgtgtatatgc Alignment from GeneWise GTGTTTGGAGCATCTACAAAACAAATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTTATTATGGGCTATAATTGCACCATCTTCGC atacaccttcacggtttctattatctctattgtctataacttctttccagGCA---------TCTACAAAACAGATTGATGTTTACCGAAGTGTTGTTTGTCCAATTCTAGATGAAGTAATTATGGGCTATAATTGTACCATCTCCGCgtaagaaaaacaacttttcaagtttagaagatatgtatgtgtgtatatgc #### Klc2_ID853_13 --> 0 - 2 Original Alignment GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCT---ag ggcgggctgtaagactaccaagaagggattctttttgttccacattgtagGATGGCAGTGGCTCTCTTCAGCGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTGTCaggtctgttgttagccctcccatccttctgagaacacactatcactagtaag Alignment from CESAR GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCT---ag ggcgggctgtaagactaccaagaagggattctttttgttccacattgtagGATGGCAGTGGCTCTCTTCAGCGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTGTCaggtctgttgttagccctcccatccttctgagaacacactatcactagtaag Alignment from Spaln_aa2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAGG-- ggcgggctgtaagactaccaagaagggattctttttgttccacattgtagGATGGCAGTGGCTCTCTTCAGCGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTGTCAGgtctgttgttagccctcccatccttctgagaacacactatcactagtaag Alignment from Spaln_nt2Genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCT---AG ggcgggctgtaagactaccaagaagggattctttttgttccacattgtagGATGGCAGTGGCTCTCTTCAGCGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTGTCAGgtctgttgttagccctcccatccttctgagaacacactatcactagtaag Alignment from Pairagon GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCT ggcgggctgtaagactaccaagaagggattctttttgttccacattgtagGATGGCAGTGGCTCTCTTCAGCGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTgtcaggtctgttgttagccctcccatccttctgagaacacactatcactagtaag Alignment from Exonerate_protein2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCT---AG ggcgggctgtaagactaccaagaagggattctttttgttccacattgtagGATGGCAGTGGCTCTCTTCAGCGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTGTCAGgtctgttgttagccctcccatccttctgagaacacactatcactagtaag Alignment from Exonerate_coding2genome GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCT---AG ggcgggctgtaagactaccaagaagggattctttttgttccacattgtagGATGGCAGTGGCTCTCTTCAGCGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTGTCAGgtctgttgttagccctcccatccttctgagaacacactatcactagtaag Alignment from GeneWise GACGGCAGCGGCTCTCTGCGGCGCAGTGGCTCCTTTGGGAAGCTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCACAGGAGCCCCCTAACTCTAGG-- ggcgggctgtaagactaccaagaagggattctttttgttccacattgtagGATGGCAGTGGCTCTCTTCAGCGCAGTGGATCCTTTGGGAAACTCCGGGATGCTCTGAGACGCAGCAGTGAGATGCTGGTGAGGAAGCTGCAGGGAGGGGGCCCGCAGGAGCCCCCTAATTCTGTCAGgtctgttgttagccctcccatccttctgagaacacactatcactagtaag #### Klc2_ID858_8 --> 0 - 1 Original Alignment GCTTCCTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCACGAGAAGGAGTTTGGCTCAGTCAAT---g caaaaactaaccttcctgcggtctgctcatcccctttcctctctcttcagCCCTCTTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCATGAAAAGGAATGTGGCTCAGTCAATATCggtaggtccatatggaatgtactttcaactcattaaatacacacttatgca Alignment from CESAR GCTTCCTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCACGAGAAGGAGTTTGGCTCAGTCAAT---g caaaaactaaccttcctgcggtctgctcatcccctttcctctctcttcagCCCTCTTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCATGAAAAGGAATGTGGCTCAGTCAATATCggtaggtccatatggaatgtactttcaactcattaaatacacacttatgca Alignment from Spaln_aa2Genome GCTTCCTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCACGAGAAGGAGTTTGGCTCAGTCAATGGAG caaaaactaaccttcctgcggtctgctcatcccctttcctctctcttcagCCCTCTTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCATGAAAAGGAATGTGGCTCAGTCAATATCGgtaggtccatatggaatgtactttcaactcattaaatacacacttatgca Alignment from Spaln_nt2Genome GCTTCCTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCACGAGAAGGAGTTTGGCTCAGTCAAT---G caaaaactaaccttcctgcggtctgctcatcccctttcctctctcttcagCCCTCTTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCATGAAAAGGAATGTGGCTCAGTCAATATCGgtaggtccatatggaatgtactttcaactcattaaatacacacttatgca Alignment from Pairagon GCTTCCTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCACGAGAAGGAGTTTGGCTCAGTCAAT---G caaaaactaaccttcctgcggtctgctcatcccctttcctctctcttcagCCCTCTTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCATGAAAAGGAATGTGGCTCAGTCAATATCGgtaggtccatatggaatgtactttcaactcattaaatacacacttatgca Alignment from Exonerate_protein2genome GCTTCCTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCACGAGAAGGAGTTTGGCTCAGTCAAT---G caaaaactaaccttcctgcggtctgctcatcccctttcctctctcttcagCCCTCTTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCATGAAAAGGAATGTGGCTCAGTCAATATCGgtaggtccatatggaatgtactttcaactcattaaatacacacttatgca Alignment from Exonerate_coding2genome GCTTCCTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCACGAGAAGGAGTTTGGCTCAGTCAAT---G caaaaactaaccttcctgcggtctgctcatcccctttcctctctcttcagCCCTCTTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCATGAAAAGGAATGTGGCTCAGTCAATATCGgtaggtccatatggaatgtactttcaactcattaaatacacacttatgca Alignment from GeneWise GCTTCCTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCACGAGAAGGAGTTTGGCTCAGTCAATGGA- caaaaactaaccttcctgcggtctgctcatcccctttcctctctcttcagCCCTCTTGCTACCTGAAACAGGGCAAGTACCAGGATGCAGAGACCCTGTACAAGGAGATCCTTACCCGTGCGCATGAAAAGGAATGTGGCTCAGTCAATATCGgtaggtccatatggaatgtactttcaactcattaaatacacacttatgca #### Klc2_ID861_5 --> 1 - 0 Original Alignment gGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT gctttaggctgaagggcgttccgcgggttgtcccctcccttttcccctaga------AATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATTCGGGAAAAGACACTGGGCAAGGACCACCCAGCTgtaaggcaaagttgtctaagtgttcctctgtagtcatcagaatttccagg Alignment from CESAR gGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT ggtcatgctttaggctgaagggcgtggttgtcccctcccttttcccctaga------AATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATTCGGGAAAAGACACTGGGCAAGGACCACCCAGCTgtaaggcaaagttgtctaagtgttcctctgtagtcatcagaatttccagg Alignment from Spaln_aa2Genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT gctttaggctgaagggcgttccgcgggttgtcccctcccttttcccctagA------AATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATTCGGGAAAAGACACTGGGCAAGGACCACCCAGCTgtaaggcaaagttgtctaagtgttcctctgtagtcatcagaatttccagg Alignment from Spaln_nt2Genome GAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT gctttaggctgaagggcgttccgcgggttgtcccctcccttttcccctagAAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATTCGGGAAAAGACACTGGGCAAGGACCACCCAGCTgtaaggcaaagttgtctaagtgttcctctgtagtcatcagaatttccagg Alignment from Pairagon GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT gctttaggctgaagggcgttccgcgggttgtcccctcccttttcccctag------AAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATTCGGGAAAAGACACTGGGCAAGGACCACCCAGCTgtaaggcaaagttgtctaagtgttcctctgtagtcatcagaatttccagg Alignment from Exonerate_protein2genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT gctttaggctgaagggcgttccgcgggttgtcccctcccttttcCCCTAGAAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATTCGGGAAAAGACACTGGGCAAGGACCACCCAGCTgtaaggcaaagttgtctaagtgttcctctgtagtcatcagaatttccagg Alignment from Exonerate_coding2genome GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT gctttaggctgaagggcgttccgcgggttgtcccctcccttttcCCCTAGAAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATTCGGGAAAAGACACTGGGCAAGGACCACCCAGCTgtaaggcaaagttgtctaagtgttcctctgtagtcatcagaatttccagg Alignment from GeneWise GGACCAGAATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATCCGGGAAAAGACACTGGGCAAGGACCACCCAGCT gctttaggctgaagggcgttccgcgggttgtcccctcccttttcccctagA------AATAAGTACAAGGATGCTGCTCACCTGCTCAATGATGCCCTGGCTATTCGGGAAAAGACACTGGGCAAGGACCACCCAGCTgtaaggcaaagttgtctaagtgttcctctgtagtcatcagaatttccagg #### Klc2_ID863_3 --> 0 - 1 Original Alignment ---------GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAg ccaatacatctgctgctggggccaacaaactatgttcatttatgttttagAAATCTGCCGAAGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCAggtcagtaggggcaattagctatgagttcagagaagggttatttttagcac Alignment from CESAR ---------GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAg ccaatacatctgctgctggggccaacaaactatgttcatttatgttttagAAATCTGCCGAAGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCAggtcagtaggggcaattagctatgagttcagagaagggttatttttagcac Alignment from Spaln_aa2Genome AGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ccaatacatctgctgctggggccaacaaactatgttcatttatgttttagaaatctgccgaagAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCAGgtcagtaggggcaattagctatgagttcagagaagggttatttttagcac Alignment from Spaln_nt2Genome AGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ccaatacatctgctgctggggccaacaaactatgttcatttatgttttagaaatctgccgaagAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCAGgtcagtaggggcaattagctatgagttcagagaagggttatttttagcac Alignment from Pairagon ---------GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ccaatacatctgctgctggggccaacaaactatgttcatttatgttttagAAATCTGCCGAAGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCAGgtcagtaggggcaattagctatgagttcagagaagggttatttttagcac Alignment from Exonerate_protein2genome AGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ccaatacatctgctgctggggccaacaaactatgttcatttatgttttagaaatctgccgaagAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCAGgtcagtaggggcaattagctatgagttcagagaagggttatttttagcac Alignment from Exonerate_coding2genome AGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ccaatacatctgctgctggggccaacaaactatgttcatttatgttttagaaatctgccgaagAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCAGgtcagtaggggcaattagctatgagttcagagaagggttatttttagcac Alignment from GeneWise ---------GAGGAGAAGGGTGATGTCCCCAAAGACTCCCTGGATGACCTGTTTCCCAATGAAGATGAACAGAGCCCAG ccaatacatctgctgctggggccaacaaactatgttcatttatgttttagAAATCTGCCGAAGAGAAGGGTGATGTCCCCAAAGACTCCCTCGACGACCTGTTTCCCAATGAAGATGAACAGAGGTCAGgtcagtaggggcaattagctatgagttcagagaagggttatttttagcac #### Ldb1_ID9695_5 --> 0 - 1 Original Alignment GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---------a tgcctgagggatatcttatcaaatccatcttgctctcctcccccttctagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATCTCATGTACagtgtgctatctctgtgggagacactgttacaccttcattgtgtgtttctt Alignment from CESAR GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---------a tgcctgagggatatcttatcaaatccatcttgctctcctcccccttctagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATCTCATGTACagtgtgctatctctgtgggagacactgttacaccttcattgtgtgtttctt Alignment from Spaln_aa2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGA---------TATA tgcctgagggatatcttatcaaatccatcttgctctcctcccccttctagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATCTCATGTACAgtgtgctatctctgtgggagacactgttacaccttcattgtgtgtttctt Alignment from Spaln_nt2Genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATA---- tgcctgagggatatcttatcaaatccatcttgctctcctcccccttctagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATCTCATgtacagtgtgctatctctgtgggagacactgttacaccttcattgtgtgtttctt Alignment from Pairagon GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---------A tgcctgagggatatcttatcaaatccatcttgctctcctcccccttctagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATCTCATGTACAgtgtgctatctctgtgggagacactgttacaccttcattgtgtgtttctt Alignment from Exonerate_protein2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATACCAT tgcctgagggatatcttatcaaatccatcttgctctcctcccccttctagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATCTCATgtacagtgtgctatctctgtgggagacactgttacaccttcattgtgtgtttctt Alignment from Exonerate_coding2genome GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATATACCAT tgcctgagggatatcttatcaaatccatcttgctctcctcccccttctagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATCTCATgtacagtgtgctatctctgtgggagacactgttacaccttcattgtgtgtttctt Alignment from GeneWise GAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGACGCCATGCTGACCATCACTTTCTGCTTGGAGGATGGACCAAAGAGATAT---------A tgcctgagggatatcttatcaaatccatcttgctctcctcccccttctagGAGTGTGACAATCTCTGGTGGGATGCTTTCACAACTGAGTTCTTTGAAGATGATGCCATGCTGACCATCACCTTTTGCCTGAAGGATGGGCCAAACAGATATCTCATGTACAgtgtgctatctctgtgggagacactgttacaccttcattgtgtgtttctt #### Ldb1_ID9696_4 --> 1 - 0 Original Alignment gAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG aggggtggaataccacaactcagctactaactccctttttctttgtgcaggAGGCACACCCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACA---gtgggcagtcagggagagaggtccagaggagagtgcctgagggatatctt Alignment from CESAR gAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG aggggtggaataccacaactcagctactaactccctttttctttgtgcaggAGGCACACCCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACA---gtgggcagtcagggagagaggtccagaggagagtgcctgagggatat Alignment from Spaln_aa2Genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACA aggggtggaataccacaactcagctactaactccctttttctttgtgcagGAGGCACACCCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAgtgggcagtcagggagagaggtccagaggagagtgcctgagggatatctt Alignment from Spaln_nt2Genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG- aggggtggaataccacaactcagctactaactccctttttctttgtgcagGAGGCACACCCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGTGGgcagtcagggagagaggtccagaggagagtgcctgagggatatctt Alignment from Pairagon GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAG------------------------------------------------- aggggtggaataccacaactcagctactaactccctttttctttgtgcagGAGGCACACCCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGTGGGCAGTCAGGGAGAGAGGTCCAGAGGAGAGTGCCTGAGGGATATCTT Alignment from Exonerate_protein2genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG aggggtggaataccacaactcagctactaactccctttttctttgtgcagGAGGCACACCCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGTGggcagtcagggagagaggtccagaggagagtgcctgagggatatctt Alignment from Exonerate_coding2genome GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACAGAG aggggtggaataccacaactcagctactaactccctttttctttgtgcagGAGGCACACCCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAGTGggcagtcagggagagaggtccagaggagagtgcctgagggatatctt Alignment from GeneWise GAGGCACACACCATATGGTAACCAAACCGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAACTGGACA aggggtggaataccacaactcagctactaactccctttttctttgtgcagGAGGCACACCCCATATGGTAATCAAACTGACTATAGAATATTTGAGCTTAACAAACGGCTACAGAATTGGACAgtgggcagtcagggagagaggtccagaggagagtgcctgagggatatctt #### Ldb1_ID9697_3 --> 1 - 2 Original Alignment cCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCgg ttttctgttccacggttactcttcttcatgtccctcccttctcactgcagc------CCCATGTACCCACCTACATACCTGGAGCCTGGGATCgggtagggggactgcagtgtgccacgaagcttttcctctgcatgcacctgag Alignment from CESAR ttttctgttccacggttactcttcttcatgtccctcccttctcactgcagccccatgtacccacctacatacctggagcctgggatcgggtagggggactgcagtgtgccacgaagcttttcctctgcatgcacctgag Alignment from Spaln_aa2Genome CCCAACTCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGG ttttctgttccacggttactcttcttcatgtccctcccttctcactgcagC------CCCATGTACCCACCTACATACCTGGAGCCTGGGATCGGgtagggggactgcagtgtgccacgaagcttttcctctgcatgcacctgag Alignment from Spaln_nt2Genome ------GTACCCACCTACATACCTGGAGCCTGGGATCGG ttttctgttccacggttactcttcttcatgtccctcccttctcactgcagCCCCATGTACCCACCTACATACCTGGAGCCTGGGATCGGgtagggggactgcagtgtgccacgaagcttttcctctgcatgcacctgag Alignment from Pairagon ttttctgttccacggttactcttcttcatgtccctcccttctcactgcagccccatgtacccacctacatacctggagcctgggatcgggtagggggactgcagtgtgccacgaagcttttcctctgcatgcacctgag Alignment from Exonerate_protein2genome ttttctgttccacggttactcttcttcatgtccctcccttctcactgcagccccatgtacccacctacatacctggagcctgggatcgggtagggggactgcagtgtgccacgaagcttttcctctgcatgcacctgag Alignment from Exonerate_coding2genome ttttctgttccacggttactcttcttcatgtccctcccttctcactgcagccccatgtacccacctacatacctggagcctgggatcgggtagggggactgcagtgtgccacgaagcttttcctctgcatgcacctgag Alignment from GeneWise ttttctgttccacggttactcttcttcatgtccctcccttctcactgcagccccatgtacccacctacatacctggagcctgggatcgggtagggggactgcagtgtgccacgaagcttttcctctgcatgcacctgag #### Loxl4_ID8568_7 --> 2 - 0 Original Alignment ggCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG tgcagctgggtattacatagaagccttaagtgtgatttctctctgcccagggCTAGGACCAATCCATCTGAGTGAGGTGCGATGCCGGGGGTATGAGCGGGCCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGATGCTGCTGTCAGGTGCAACATCCCAGATATGGGCTTC---------gtaagattacgccggggggcccttcatgccttcaggcaggggcttagggt Alignment from CESAR ggCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAACAAG tgcagctgggtattacatagaagccttaagtgtgatttctctctgcccagggCTAGGACCAATCCATCTGAGTGAGGTGCGATGCCGGGGGTATGAGCGGGCCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGATGCTGCTGTCAGGTGCAACATCCCAGATATGGGCTTC---------gtaagattacgccggggggcccttcatgccttcaggcaggg Alignment from Spaln_aa2Genome GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTC tgcagctgggtattacatagaagccttaagtgtgatttctctctgcccagGGCTAGGACCAATCCATCTGAGTGAGGTGCGATGCCGGGGGTATGAGCGGGCCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGATGCTGCTGTCAGGTGCAACATCCCAGATATGGGCTTCgtaagattacgccggggggcccttcatgccttcaggcaggggcttagggt Alignment from Spaln_nt2Genome GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTC tgcagctgggtattacatagaagccttaagtgtgatttctctctgcccagGGCTAGGACCAATCCATCTGAGTGAGGTGCGATGCCGGGGGTATGAGCGGGCCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGATGCTGCTGTCAGGTGCAACATCCCAGATATGGGCTTCgtaagattacgccggggggcccttcatgccttcaggcaggggcttagggt Alignment from Pairagon GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTC tgcagctgggtattacatagaagccttaagtgtgatttctctctgcccagGGCTAGGACCAATCCATCTGAGTGAGGTGCGATGCCGGGGGTATGAGCGGGCCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGATGCTGCTGTCAGGTGCAACATCCCAGATATGGGCTTCgtaagattacgccggggggcccttcatgccttcaggcaggggcttagggt Alignment from Exonerate_protein2genome GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAAC tgcagctgggtattacatagaagccttaagtgtgatttctctctgcccagGGCTAGGACCAATCCATCTGAGTGAGGTGCGATGCCGGGGGTATGAGCGGGCCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGATGCTGCTGTCAGGTGCAACATCCCAGATATGGGCTTCGTAAGAttacgccggggggcccttcatgccttcaggcaggggcttagggt Alignment from Exonerate_coding2genome GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTCCAGAAC tgcagctgggtattacatagaagccttaagtgtgatttctctctgcccagGGCTAGGACCAATCCATCTGAGTGAGGTGCGATGCCGGGGGTATGAGCGGGCCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGATGCTGCTGTCAGGTGCAACATCCCAGATATGGGCTTCGTAAGAttacgccggggggcccttcatgccttcaggcaggggcttagggt Alignment from GeneWise GGCTAGGACCCATCCACCTGAGTGAGGTGCGCTGCCGGGGGTATGAGCGGACCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAACGACGCTGCTGTCAGGTGCAACATCCCAGACATGGGCTTC tgcagctgggtattacatagaagccttaagtgtgatttctctctgcccagGGCTAGGACCAATCCATCTGAGTGAGGTGCGATGCCGGGGGTATGAGCGGGCCCTGGGTGACTGCCTTGCCCTGGAAGGGTCCCAGAATGGTTGTCAACATGCAAATGATGCTGCTGTCAGGTGCAACATCCCAGATATGGGCTTCgtaagattacgccggggggcccttcatgccttcaggcaggggcttagggt #### Loxl4_ID8569_6 --> 0 - 1 Original Alignment CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGTCAAg aggcgcccctcactgaggcccatctgtaggacattttgtttttgttttagCAGGAGCTAAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTCCTTATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATTTCAGCCAGTGTTGTGTGTCACCAGCTTGGCTTTGGCTCTGCTCGGGAGGCCCTTTTTGGAGCCCAGTTGGGA---ggtgtgatggaaagaagttcagggtgtttcaaagggcctggaggcaccatg Alignment from CESAR CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGTCAAg aggcgcccctcactgaggcccatctgtaggacattttgtttttgttttagCAGGAGCTAAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTCCTTATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATTTCAGCCAGTGTTGTGTGTCACCAGCTTGGCTTTGGCTCTGCTCGGGAGGCCCTTTTTGGAGCCCAGTTGGGA---ggtgtgatggaaagaagttcagggtgtttcaaagggcctggaggcaccatg Alignment from Spaln_aa2Genome CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGT- aggcgcccctcactgaggcccatctgtaggacattttgtttttgttttagCAGGAGCTAAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTCCTTATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATTTCAGCCAGTGTTGTGTGTCACCAGCTTGGCTTTGGCTCTGCTCGGGAGGCCCTTTTTGGAGCCCAGTTGGGAGgtgtgatggaaagaagttcagggtgtttcaaagggcctggaggcaccatg Alignment from Spaln_nt2Genome CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGTCAAG aggcgcccctcactgaggcccatctgtaggacattttgtttttgttttagCAGGAGCTAAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTCCTTATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATTTCAGCCAGTGTTGTGTGTCACCAGCTTGGCTTTGGCTCTGCTCGGGAGGCCCTTTTTGGAGCCCAGTTGGG---AGgtgtgatggaaagaagttcagggtgtttcaaagggcctggaggcaccatg Alignment from Pairagon CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGTCAAG aggcgcccctcactgaggcccatctgtaggacattttgtttttgttttagCAGGAGCTAAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTCCTTATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATTTCAGCCAGTGTTGTGTGTCACCAGCTTGGCTTTGGCTCTGCTCGGGAGGCCCTTTTTGGAGCCCAGTTGGG---AGgtgtgatggaaagaagttcagggtgtttcaaagggcctggaggcaccatg Alignment from Exonerate_protein2genome CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGTCAAG aggcgcccctcactgaggcccatctgtaggacattttgtttttgttttagCAGGAGCTAAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTCCTTATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATTTCAGCCAGTGTTGTGTGTCACCAGCTTGGCTTTGGCTCTGCTCGGGAGGCCCTTTTTGGAGCCCAGTTGGGA---Ggtgtgatggaaagaagttcagggtgtttcaaagggcctggaggcaccatg Alignment from Exonerate_coding2genome CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGTCAAG aggcgcccctcactgaggcccatctgtaggacattttgtttttgttttagCAGGAGCTAAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTCCTTATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATTTCAGCCAGTGTTGTGTGTCACCAGCTTGGCTTTGGCTCTGCTCGGGAGGCCCTTTTTGGAGCCCAGTTGGGA---Ggtgtgatggaaagaagttcagggtgtttcaaagggcctggaggcaccatg Alignment from GeneWise CAGGAGCTGAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTGCTCATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATCTCAGCCAGCGTCGTGTGTCGCCAGCTTGGCTTTGGCTCTGCCCGGGAGGCCCTTTTTGGGGCCCAGTTGGGT- aggcgcccctcactgaggcccatctgtaggacattttgtttttgttttagCAGGAGCTAAAAGTGCGCCTGCGCTCTGGGGCTCAGGTGGGTGAGGGCCGTGTGGAAGTCCTTATGAACCGCCAGTGGGGCACAGTCTGTGACCACAGGTGGAACCTCATTTCAGCCAGTGTTGTGTGTCACCAGCTTGGCTTTGGCTCTGCTCGGGAGGCCCTTTTTGGAGCCCAGTTGGGAGgtgtgatggaaagaagttcagggtgtttcaaagggcctggaggcaccatg #### Ltbp3_ID1252_4 --> 0 - 1 Original Alignment TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGt gcggggcattcagtgattctcttctcccactgtctcatttctccctgcag---------AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGtgtaagtggctggccttggcttagtgtggtatctcccactgagtggcagtg Alignment from CESAR TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGt gcagtgggggcggggcattcagtgacccactgtctcatttctccctgcag---------AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGtgtaagtggctggccttggcttagtgtggtatctcccactgagtggcagtg Alignment from Spaln_aa2Genome TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT gcggggcattcagtgattctcttctcccactgtctcatttctccctgcag---------AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagtggctggccttggcttagtgtggtatctcccactgagtggcagtg Alignment from Spaln_nt2Genome CAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT gcggggcattcagtgattctcttctcccactgtctcatttctccctgcag-AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagtggctggccttggcttagtgtggtatctcccactgagtggcagtg Alignment from Pairagon TGTGGCAGCAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT gcggggcattcagtgattctcttctcccactgtctcatttctccctgcag---------AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagtggctggccttggcttagtgtggtatctcccactgagtggcagtg Alignment from Exonerate_protein2genome AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT gcggggcattcagtgattctcttctcccactgtctcatttctccctgcagAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagtggctggccttggcttagtgtggtatctcccactgagtggcagtg Alignment from Exonerate_coding2genome AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT gcggggcattcagtgattctcttctcccactgtctcatttctccctgcagAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagtggctggccttggcttagtgtggtatctcccactgagtggcagtg Alignment from GeneWise AACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGT gcggggcattcagtgattctcttctcccactgtctcatttctccctgcagAACCCTTTGCCTGGCCTTACCAAGCAGGAAGATTGCTGCGGTAGCATCGGTACTGCCTGGGGACAAAGCAAGTGTCACAAGTGCCCACAGCTTCAGTgtaagtggctggccttggcttagtgtggtatctcccactgagtggcagtg #### Ltbp3_ID1255_7 --> 2 - 1 Original Alignment ccGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg gacatagcaactttcaggtcctgccctctaccaatatcttgtcctcctagctGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCACCAGCTCTGCTGCTGTAGTGTCGGTAAAGCTTGGGGCGCCCGGTGCCAGCGTTGCCCAGCAGAT------ggtaagaaattggtagaagctccttgtggatgatttaaggatgggacaaag Alignment from CESAR ccGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAg gacatagcaactttcaggtcctgccctctaccaatatcttgtcctcctagctGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCACCAGCTCTGCTGCTGTAGTGTCGGTAAAGCTTGGGGCGCCCGGTGCCAGCGTTGCCCAGCAGAT------ggtaagaaattggtagaagctccttgtggatgatttaaggatgggacaaag Alignment from Spaln_aa2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGAT- gacatagcaactttcaggtcctgccctctaccaatatcttgtcctcctagCTGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCACCAGCTCTGCTGCTGTAGTGTCGGTAAAGCTTGGGGCGCCCGGTGCCAGCGTTGCCCAGCAGATGgtaagaaattggtagaagctccttgtggatgatttaaggatgggacaaag Alignment from Spaln_nt2Genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACA-----G gacatagcaactttcaggtcctgccctctaccaatatcttgtcctcctagCTGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCACCAGCTCTGCTGCTGTAGTGTCGGTAAAGCTTGGGGCGCCCGGTGCCAGCGTTGCCCAGCAGATGGTAAGAAATTGgtagaagctccttgtggatgatttaaggatgggacaaag Alignment from Pairagon CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTA----------------------------------------------- gacatagcaactttcaggtcctgccctctaccaatatcttgtcctcctagCTGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCACCAGCTCTGCTGCTGTAGTGTCGGTAAAGCTTGGGGCGCCCGGTGCCAGCGTTGCCCAGCAGATGGTAAGAAATTGGTAGAAGCTCCTTGTGGATGATTTAAGGATGGGACAAAG Alignment from Exonerate_protein2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gacatagcaactttcaggtcctgccctctaccaatatcttgtcctcctagCTGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCACCAGCTCTGCTGCTGTAGTGTCGGTAAAGCTTGGGGCGCCCGGTGCCAGCGTTGCCCAGCAGAT------Ggtaagaaattggtagaagctccttgtggatgatttaaggatgggacaaag Alignment from Exonerate_coding2genome CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG gacatagcaactttcaggtcctgccctctaccaatatcttgtcctcctagCTGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCACCAGCTCTGCTGCTGTAGTGTCGGTAAAGCTTGGGGCGCCCGGTGCCAGCGTTGCCCAGCAGAT------Ggtaagaaattggtagaagctccttgtggatgatttaaggatgggacaaag Alignment from GeneWise CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATG gacatagcaactttcaggtcctgccctctaccaatatcttgtcctcctagCTGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCACCAGCTCTGCTGCTGTAGTGTCGGTAAAGCTTGGGGCGCCCGGTGCCAGCGTTGCCCAGCAGATGgtaagaaattggtagaagctccttgtggatgatttaaggatgggacaaag #### Ltbp3_ID1269_21 --> 2 - 1 Original Alignment ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg tgtggtaagtacatacgtgaaccctccgtcatcagatcctctgtcctcagccGAATTTCACAGCCTGTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCAC---ggtaggcagtaagctacatccttctgtctccttgcttctttctctgacagt Alignment from CESAR ccGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTg tgtggtaagtacatacgtgaaccctccgtcatcagatcctctgtcctcagccGAATTTCACAGCCTGTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCAC---ggtaggcagtaagctacatccttctgtctccttgcttctttctctgacagt Alignment from Spaln_aa2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCAC- tgtggtaagtacatacgtgaaccctccgtcatcagatcctctgtcctcagCCGAATTTCACAGCCTGTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACGgtaggcagtaagctacatccttctgtctccttgcttctttctctgacagt Alignment from Spaln_nt2Genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG tgtggtaagtacatacgtgaaccctccgtcatcagatcctctgtcctcagCCGAATTTCACAGCCTGTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCAC---Ggtaggcagtaagctacatccttctgtctccttgcttctttctctgacagt Alignment from Pairagon CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACCGTG tgtggtaagtacatacgtgaaccctccgtcatcagatcctctgtcctcagCCGAATTTCACAGCCTGTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCAC---Ggtaggcagtaagctacatccttctgtctccttgcttctttctctgacagt Alignment from Exonerate_protein2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACC tgtggtaagtacatacgtgaaccctccgtcatcagatcctctgtcctcagCCGAATTTCACAGCCTGTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACGgtaggcagtaagctacatccttctgtctccttgcttctttctctgacagt Alignment from Exonerate_coding2genome CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACC tgtggtaagtacatacgtgaaccctccgtcatcagatcctctgtcctcagCCGAATTTCACAGCCTGTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACGgtaggcagtaagctacatccttctgtctccttgcttctttctctgacagt Alignment from GeneWise CCGAATTTCACAGCCTGTGTCCTGATGGGAAAGGCTACACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACC tgtggtaagtacatacgtgaaccctccgtcatcagatcctctgtcctcagCCGAATTTCACAGCCTGTGTCCTGATGGTAAAGGCTATACTCAGGACAACAACATTGTGAACTATGGCATTCCTGCCCACGgtaggcagtaagctacatccttctgtctccttgcttctttctctgacagt #### Ltbp3_ID1270_22 --> 2 - 1 Original Alignment ac---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGg caagtgatgcacagggccactgggcactctgacttgtcatatgttcccagacCTAATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGCAACCTGCTAGAGTGCGTGggtaagtctgattacagtgcttctcaggaaagcagctgaattcaggccctc Alignment from CESAR ac---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGg caagtgatgcacagggccactgggcactctgacttgtcatatgttcccagacCTAATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGCAACCTGCTAGAGTGCGTGggtaagtctgattacagtgcttctcaggaaagcagctgaattcaggccctc Alignment from Spaln_aa2Genome AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgcacagggccactgggcactctgacttgtcatatgttcccagACCTAATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGCAACCTGCTAGAGTGCGTGGgtaagtctgattacagtgcttctcaggaaagcagctgaattcaggccctc Alignment from Spaln_nt2Genome AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgcacagggccactgggcactctgacttgtcatatgttcccagACCTAATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGCAACCTGCTAGAGTGCGTGGgtaagtctgattacagtgcttctcaggaaagcagctgaattcaggccctc Alignment from Pairagon AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgcacagggccactgggcactctgacttgtcatatgttcccagACCTAATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGCAACCTGCTAGAGTGCGTGGgtaagtctgattacagtgcttctcaggaaagcagctgaattcaggccctc Alignment from Exonerate_protein2genome AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgcacagggccactgggcactctgacttgtcatatgttcccagACCTAATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGCAACCTGCTAGAGTGCGTGGgtaagtctgattacagtgcttctcaggaaagcagctgaattcaggccctc Alignment from Exonerate_coding2genome AC---ATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgcacagggccactgggcactctgacttgtcatatgttcccagACCTAATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGCAACCTGCTAGAGTGCGTGGgtaagtctgattacagtgcttctcaggaaagcagctgaattcaggccctc Alignment from GeneWise --GACATCGACGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGCAAGTGTGTGAACACGCAGCCCGGCTACGAGTGCTACTGCAAGCAGGGCTTCTACTACGATGGCAACCTGCTGGAGTGCGTGG caagtgatgcacagggccactgggcactctgacttgtcatatgttcccagACCTAATTGATGAATGCATATTGTTTGGGGCAGAGATCTGCAAGGAGGGTAAGTTTGTGAACACGCAGCCTGGCTATGAGTGCTACTGCAAGCAGGGCTTCTATTACGATGGCAACCTGCTAGAGTGCGTGGgtaagtctgattacagtgcttctcaggaaagcagctgaattcaggccctc #### Ltbp3_ID1271_23 --> 2 - 1 Original Alignment ac------------------------------------------------GTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGg tctcaggaaagcagctgaattcaggccctgtgtttctgtttattcctaagatCATGTGCTGCTGTATTCAGTGTTTCAGGAGGCACTTAGTATGCTTCTGTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGggtaagccctggcgaaacagtttgctgaggcaggaactaccaaggggtgga Alignment from CESAR aaataaatcagctgagcctgctctccagtggatggaagtccagtggggtgg Alignment from Spaln_aa2Genome GGCTTCACGCGCAGCCGCCCTCACGGGGCCTGCGTGCCTCAGCGCCGCCGC aaataaatcagctgagcctgctctccagtggtttctccatttgccctgcag Alignment from Spaln_nt2Genome ACGTG GATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tctcaggaaagcagctgaattcaggccctgtgtttctgtttattcctaagATCATgtgctgctgtattcagtgtttcaggaggcacttagtatgcttctgttag-ATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtaagccctggcgaaacagtttgctgaggcaggaactaccaaggggtgga Alignment from Pairagon ACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tctcaggaaagcagctgaattcaggccctgtgtttctgtttattcctaagatcatgtgctgctgtattcagtgtttcaggaggcacttagtatgcttctgttag------ATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtaagccctggcgaaacagtttgctgaggcaggaactaccaaggggtgga Alignment from Exonerate_protein2genome ATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tctcaggaaagcagctgaattcaggccctgtgtttctgtttattcctaagatcatgtgctgctgtattcagtgtttcaggaggcacttagtatgcttctgttagATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtaagccctggcgaaacagtttgctgaggcaggaactaccaaggggtgga Alignment from Exonerate_coding2genome ATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tctcaggaaagcagctgaattcaggccctgtgtttctgtttattcctaagatcatgtgctgctgtattcagtgtttcaggaggcacttagtatgcttctgttagATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtaagccctggcgaaacagtttgctgaggcaggaactaccaaggggtgga Alignment from GeneWise ------------GTGGACGTGGATGAGTGCTTGGATGAGTCTAACTGCAGGAACGGAGTGTGTGAGAACACACGTGGCGGCTACCGCTGTGCCTGCACGCCGCCGGCAGAGTACAGTCCCGCACAGCGCCAGTGTCTGAGCCCGGAGGAGATGG tctcaggaaagcagctgaattcaggccctgtgtttctgtttattcctaagatcatgtgctgctgtattcagtgtttcaggagGCACTTAGTATGCTTCTGTTAGATGAGTGTTTGGATGAGTCTAACTGCAGGAATGGTGTGTGTGAGAACACACGTGGTGGCTACCGCTGTGCTTGCACACCACCAGCTGAGTACAGTTCAGCACAGCACCAGTGTCTGAGCCCGGAGGAGATGGgtaagccctggcgaaacagtttgctgaggcaggaactaccaaggggtgga #### Ltbp3_ID1272_24 --> 2 - 1 Original Alignment ag---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCC tcccttattccccctccctccctcctgtattctgctaccctttgttccagagTGGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGCCAGCGAGGAGAAGATGGGATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGTGGCTGGGGTACCCAGTGCAGACCATGCCCACCACGTGGTACTggtaccttacccctgagggacgatctctccatcaacctctggcagggTCCC Alignment from CESAR ag---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCg ggTCCC tcccttattccccctccctccctcctgtattctgctaccctttgttccagagTGGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGCCAGCGAGGAGAAGATGGGATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGTGGCTGGGGTACCCAGTGCAGACCATGCCCACCACGTGGTACTggtaccttacccctgagggacgaccttccctattgatatccacagggTCCC Alignment from Spaln_aa2Genome AG---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC tcccttattccccctccctccctcctgtattctgctaccctttgttccagAGTGGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGCCAGCGAGGAGAAGATGGGATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGTGGCTGGGGTACCCAGTGCAGACCATGCCCACCACGTGGTACTGgtaccttacccctgagggacgatctctccatcaacctctggcagGGTCCC Alignment from Spaln_nt2Genome AGCACGCCCCAG---AGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC tcccttattccccctccctccctcctgtattctgctaccctttgttccagAGTGGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGCCAGCGAGGAGAAGATGGGATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGTGGCTGGGGTACCCAGTGCAGACCATGCCCACCACGTGGTACTGgtaccttacccctgagggacgatctctccatcaacctctggcagGGTCCC Alignment from Pairagon A---GCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC tcccttattccccctccctccctcctgtattctgctaccctttgttccagAGTGGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGCCAGCGAGGAGAAGATGGGATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGTGGCTGGGGTACCCAGTGCAGACCATGCCCACCACGTGGTACTGgtaccttacccctgagggacgatctctccatcaacctctggcagGGTCCC Alignment from Exonerate_protein2genome AG---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC tcccttattccccctccctccctcctgtattctgctaccctttgttccagAGTGGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGCCAGCGAGGAGAAGATGGGATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGTGGCTGGGGTACCCAGTGCAGACCATGCCCACCACGTGGTACTGgtaccttacccctgagggacgatctctccatcaacctctggcagGGTCCC Alignment from Exonerate_coding2genome AG---CACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC tcccttattccccctccctccctcctgtattctgctaccctttgttccagAGTGGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGCCAGCGAGGAGAAGATGGGATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGTGGCTGGGGTACCCAGTGCAGACCATGCCCACCACGTGGTACTGgtaccttacccctgagggacgatctctccatcaacctctggcagGGTCCC Alignment from GeneWise --GAGCACGCCCCAGAGAGACGTGAAGTGTGCTGGGGCCAGCGAGGAGAGGACGGCATGTGTATGGGGCCCCTGGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGCGGCTGGGGTACCCAGTGCAGACCGTGCCCGCCACGTGGCACCG GGTCCC tcccttattccccctccctccctcctgtattctgctaccctttgttccagAGTGGCATGCCCCAGAAAGATGTGAAGTATGCTGGGGCCAGCGAGGAGAAGATGGGATGTGTATGGGGCCCCTAGCGGGACCTGCCCTCACTTTTGATGACTGCTGCTGCCGCCAGGGCCGTGGCTGGGGTACCCAGTGCAGACCATGCCCACCACGTGGTACTGgtaccttacccctgagggacgatctctccatcaacctctggcagGGTCCC #### Ltbp3_ID1273_25 --> 2 - 1 Original Alignment GCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg GTACTggtgagatacccctgagggacgaccttccctattgatatccacagggTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCTCTGCTACTCGGG------------ggtcggtttcagagaggccaaggggccaaaggtatagaagcccattttggc Alignment from CESAR GCACCg ggTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAGTCTCCGCGAg GTACTggtaccttacccctgagggacgaccttccctattgatatccacagggTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCTCTGCTACTCGGG------------ggtcggtttcagagaggccaaggggccaaaggtatagaagcccagatttat Alignment from Spaln_aa2Genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTG---GGGAAGTCTCCGCGAG GTACTGgtgagatacccctgagggacgaccttccctattgatatccacagGGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCTCTGCTACTCGGGGGTCGGTTTCAGAGAGgccaaggggccaaaggtatagaagcccattttggc Alignment from Spaln_nt2Genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAA---GTCTCCGCGAG GTACTGgtgagatacccctgagggacgaccttccctattgatatccacagGGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCTCTGCTACTCGGGGGTCGGTTTCAGAGAGgccaaggggccaaaggtatagaagcccattttggc Alignment from Pairagon GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAA------------------------------------------------- GTACTGgtgagatacccctgagggacgaccttccctattgatatccacagGGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCTCTGCTACTCGGGGGTCGGTTTCAGAGAGGCCAAGGGGCCAAAGGTATAGAAGCCCATTTTGGC Alignment from Exonerate_protein2genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGA GTACTGgtgagatacccctgagggacgaccttccctattgatatccacagGGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCTCTGCTACTCGGGGgtcggtttcagagaggccaaggggccaaaggtatagaagcccattttggc Alignment from Exonerate_coding2genome GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGA GTACTGgtgagatacccctgagggacgaccttccctattgatatccacagGGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCTCTGCTACTCGGGGgtcggtttcagagaggccaaggggccaaaggtatagaagcccattttggc Alignment from GeneWise GCACCG GGTCCCAGTGCCCGACTTCACAGAGTGAGAGCAATTCATTCTGGGACACAAGCCCCCTGCTACTGGGGAAG-- ----------- GTACTGgtgagatacccctgagggacgaccttccctattgatatccacagGGTCCCAGTGTCCAACTTTACAAAGTGAGAGCAACTCATTTTGGGACACTAGCCCTCTGCTACTCGGGGGTCGgtttcagagaggccaaggggccaaaggtatagaagCCCATTTTGGC #### Macrod1_ID2052_7 --> 0 - 1 Original Alignment GCTTTCCCGTGCATCTCCACAGGCGTGTTT------g cagaagggtcatggtcagggttatacgtcaccttgtctcttcctttccagGCTTTTCCATGCATCTCCACGGGTGTGATTCTGTCCagtaagcctagaagaaccaaatctggtgtgggcagtggcttctgccctgcc Alignment from CESAR GCTTTCCCGTGCATCTCCACAGGCGTGTTT------g cagaagggtcatggtcagggttatacgtcaccttgtctcttcctttccagGCTTTTCCATGCATCTCCACGGGTGTGATTCTGTCCagtaagcctagaagaaccaaatctggtgtgggcagtggcttctgccctgcc Alignment from Spaln_aa2Genome GCTTTCCCGTGCATCTCCACAGGCGTGTTT------G cagaagggtcatggtcagggttatacgtcaccttgtctcttcctttccagGCTTTTCCATGCATCTCCACGGGTGTGATTCTGTCCAgtaagcctagaagaaccaaatctggtgtgggcagtggcttctgccctgcc Alignment from Spaln_nt2Genome GCTTTCCCGTGCATCTCCACAG cagaagggtcatggtcagggttatacgtcaccttgtctcttcctttccagGCTTTTCCATGCATCTCCACGGgtgtgattctgtccagtaagcctagaagaaccaaatctggtgtgggcagtggcttctgccctgcc Alignment from Pairagon GCTTTCCCGTGCATCTCCACAGGCGTGTTT--------------------------------------------------------- cagaagggtcatggtcagggttatacgtcaccttgtctcttcctttccagGCTTTTCCATGCATCTCCACGGGTGTGATTCTGTCCAGTAAGCCTAGAAGAACCAAATCTGGTGTGGGCAGTGGCTTCTGCCCTGCC Alignment from Exonerate_protein2genome GCTTTCCCGTGCATCTCCACAG cagaagggtcatggtcagggttatacgtcaccttgtctcttcctttccagGCTTTTCCATGCATCTCCACGGgtgtgattctgtccagtaagcctagaagaaccaaatctggtgtgggcagtggcttctgccctgcc Alignment from Exonerate_coding2genome ACAGGCGTGTTTG AAGGGT---CATGgtcagggttatacgtcaccttgtctcttcctttccaggcttttccatgcatctccacgggtgtgattctgtccagtaagcctagaagaaccaaatctggtgtgggcagtggcttctgccctgcc Alignment from GeneWise cagaagggtcatggtcagggttatacgtcaccttgtctcttcctttccaggcttttccatgcatctccacgggtgtgattctgtccagtaagcctagaagaaccaaatctggtgtgggcagtggcttctgccctgcc #### Macrod1_ID2053_8 --> 2 - 0 Original Alignment gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- gggtagggtggggtggggccagatatggtatatttttaaatgttttataggcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGACgtaagtcctgacagaggttagcagtggaactgaagcttgggtgccacaca Alignment from CESAR gcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- gggtagggtggggtggggccagatatggtatatttttaaatgttttataggcTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGACgtaagtcctgacagaggttagcagtggaactgaagcttgggtgccacaca Alignment from Spaln_aa2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- gggtagggtggggtggggccagatatggtatatttttaaatgttttatagGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGACgtaagtcctgacagaggttagcagtggaactgaagcttgggtgccacaca Alignment from Spaln_nt2Genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- gggtagggtggggtggggccagatatggtatatttttaaatgttttatagGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGACgtaagtcctgacagaggttagcagtggaactgaagcttgggtgccacaca Alignment from Pairagon GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- gggtagggtggggtggggccagatatggtatatttttaaatgttttatagGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGACgtaagtcctgacagaggttagcagtggaactgaagcttgggtgccacaca Alignment from Exonerate_protein2genome GCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- gggtagggtggggtggggccagatatggtatatttttaaatgttttatagGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGACgtaagtcctgacagaggttagcagtggaactgaagcttgggtgccacaca Alignment from Exonerate_coding2genome GCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAG--- gggtagggtggggtggggccagatatggtatatttttaaatGTTTTATAGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGACgtaagtcctgacagaggttagcagtggaactgaagcttgggtgccacaca Alignment from GeneWise ---------GCTTTCCCGTGCATCTCCACAGGCGTGTTTGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGCTTCGCTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGTG gtggggccagATATGGTATATTTTTAAATGTTTT------------ATAGGCTACCCCAATGAGGAGGCTGCAGAAGTAGTGCTGGTTTCACTGCGGGAATGGCTGGAGCAGCACAAGGACAAGGACgtaagtcctgacagaggttagcagtggaactgaagcttgggtgccacaca #### Map3k11_ID1206_7 --> 2 - 2 Original Alignment tgGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGag aggatgtaagataaagatggactccacatctctgttttattttgctgaagtg---CCTACAGAATCAGGCCAGACTTGGAGTCGCCAGTCTCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCCTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAATGGGaggtgagtgcttcagcaccctaaagccctggtgttctactttttggggctct Alignment from CESAR tgGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGag gtaaggatgtaagataaagatggacacatctctgttttattttgctgaagtg---CCTACAGAATCAGGCCAGACTTGGAGTCGCCAGTCTCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCCTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAATGGGaggtgagtgcttcagcaccctaaagccctggtgttctactttttggggctct Alignment from Spaln_aa2Genome TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG aggatgtaagataaagatggactccacatctctgttttattttgctgaagTG---CCTACAGAATCAGGCCAGACTTGGAGTCGCCAGTCTCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCCTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAATGGGAGgtgagtgcttcagcaccctaaagccctggtgttctactttttggggctct Alignment from Spaln_nt2Genome TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG aggatgtaagataaagatggactccacatctctgttttattttgctgaagTG---CCTACAGAATCAGGCCAGACTTGGAGTCGCCAGTCTCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCCTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAATGGGAGgtgagtgcttcagcaccctaaagccctggtgttctactttttggggctct Alignment from Pairagon TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG aggatgtaagataaagatggactccacatctctgttttattttgctgaagTG---CCTACAGAATCAGGCCAGACTTGGAGTCGCCAGTCTCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCCTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAATGGGAGgtgagtgcttcagcaccctaaagccctggtgttctactttttggggctct Alignment from Exonerate_protein2genome TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG aggatgtaagataaagatggactccacatctctgttttattttgctgAAGTGCCTACAGAATCAGGCCAGACTTGGAGTCGCCAGTCTCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCCTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAATGGGAGgtgagtgcttcagcaccctaaagccctggtgttctactttttggggctct Alignment from Exonerate_coding2genome TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG aggatgtaagataaagatggactccacatctctgttttattttgctgAAGTGCCTACAGAATCAGGCCAGACTTGGAGTCGCCAGTCTCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCCTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAATGGGAGgtgagtgcttcagcaccctaaagccctggtgttctactttttggggctct Alignment from GeneWise TGGAACCTACAGAATCAGGCCAGACTTGGGGTCGCCAGTCCCCCAGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCTTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAGAACGGGAG aggatgtaagataaagatggactccacatctctgttttattttgctgaagTG---CCTACAGAATCAGGCCAGACTTGGAGTCGCCAGTCTCCCGGACGTCTTGAAGATTCAAGCAATGGAGAGAGGCGTGCCTGCTGGGCCTGGGGTCCCAGCTCCCCCAAGCCTGGGGAGGCCCAAAATGGGAGgtgagtgcttcagcaccctaaagccctggtgttctactttttggggctct #### Map4k2_ID1622_2 --> 0 - 1 Original Alignment ------------------------GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAg atatgggaaccccagccctgcccccttctttttttttttaccccccctagGACAAAGTTGGGGAATTTGCTAAAGCTCGTGACACCGTCACATCCGAACTGGCTGCGGTGAAGATCGTCAAGCTAGACCCAggtgagtgcctgggtaagagacatgtgtgcctcctgggaaggggatgtgtg Alignment from CESAR ------------------------GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAg atatgggaaccccagccctgcccccttctttttttttttaccccccctagGACAAAGTTGGGGAATTTGCTAAAGCTCGTGACACCGTCACATCCGAACTGGCTGCGGTGAAGATCGTCAAGCTAGACCCAggtgagtgcctgggtaagagacatgtgtgcctcctgggaaggggatgtgtg Alignment from Spaln_aa2Genome CCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG atatgggaaccccagccctgcccccttctttttttttttaccccccctaggacaaagttggggaatttgctaaagCTCGTGACACCGTCACATCCGAACTGGCTGCGGTGAAGATCGTCAAGCTAGACCCAGgtgagtgcctgggtaagagacatgtgtgcctcctgggaaggggatgtgtg Alignment from Spaln_nt2Genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG atatgggaaccccagccctgcccccttctttttttttttaccccccctaggacaaagttggggaatttgctaaagCTCGTGACACC-GTCACATCCGAACTGGCTGCGGTGAAGATCGTCAAGCTAGACCCAGgtgagtgcctgggtaagagacatgtgtgcctcctgggaaggggatgtgtg Alignment from Pairagon ------------------------GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG atatgggaaccccagccctgcccccttctttttttttttaccccccctagGACAAAGTTGGGGAATTTGCTAAAGCTCGTGACACCGTCACATCCGAACTGGCTGCGGTGAAGATCGTCAAGCTAGACCCAGgtgagtgcctgggtaagagacatgtgtgcctcctgggaaggggatgtgtg Alignment from Exonerate_protein2genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG atatgggaaccccagccctgcccccttctttttttttttaccccccctaggacaaagttggggaatttgctaaaGCTCGTGACACCGTCACATCCGAACTGGCTGCGGTGAAGATCGTCAAGCTAGACCCAGgtgagtgcctgggtaagagacatgtgtgcctcctgggaaggggatgtgtg Alignment from Exonerate_coding2genome GCCCGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG atatgggaaccccagccctgcccccttctttttttttttaccccccctaggacaaagttggggaatttgctaaaGCTCGTGACACCGTCACATCCGAACTGGCTGCGGTGAAGATCGTCAAGCTAGACCCAGgtgagtgcctgggtaagagacatgtgtgcctcctgggaaggggatgtgtg Alignment from GeneWise --CGTGACACCGTCACGTCCGAACTGGCCGCGGTGAAGATCGTCAAGCTAGACCCAG atatgggaaccccagccctgcccccttctttttttttttaccccccctaggacaaagttggggaatttgctaaagCTCGTGACACCGTCACATCCGAACTGGCTGCGGTGAAGATCGTCAAGCTAGACCCAGgtgagtgcctgggtaagagacatgtgtgcctcctgggaaggggatgtgtg #### Map4k2_ID1623_3 --> 2 - 2 Original Alignment ggGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag gcctatcatttaggcactggtatggtgtcctccctcccttccccttgcaggg---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCGGCAGCTACCTCaggtaactctgtttatcctctcaccctcctgtgtccattgtgccattgtgtg Alignment from CESAR ggGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCag gctcattttgcctatcatttaggcatgtcctccctcccttccccttgcaggg---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCGGCAGCTACCTCaggtaactctgtttatcctctcaccctcctgtgtccattgtgccaaatgttt Alignment from Spaln_aa2Genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG gcctatcatttaggcactggtatggtgtcctccctcccttccccttgcagGG---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCGGCAGCTACCTCAGgtaactctgtttatcctctcaccctcctgtgtccattgtgccattgtgtg Alignment from Spaln_nt2Genome TCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG gcctatcatttaggcactggtatggtgtcctccctcccttccccttgcagGGAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCGGCAGCTACCTCAGgtaactctgtttatcctctcaccctcctgtgtccattgtgccattgtgtg Alignment from Pairagon GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG gcctatcatttaggcactggtatggtgtcctccctcccttccccttgcagGG---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCGGCAGCTACCTCAGgtaactctgtttatcctctcaccctcctgtgtccattgtgccattgtgtg Alignment from Exonerate_protein2genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG gcctatcatttaggcactggtatggtgtcctccctcccttccccttgcagGG---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCGGCAGCTACCTCAGgtaactctgtttatcctctcaccctcctgtgtccattgtgccattgtgtg Alignment from Exonerate_coding2genome GGGACGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG gcctatcatttaggcactggtatggtgtcctccctcccttccccttgcagGG---------AGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCGGCAGCTACCTCAGgtaactctgtttatcctctcaccctcctgtgtccattgtgccattgtgtg Alignment from GeneWise CGACATCAGCTCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTCGTGGCCTACATCGGCAGCTACCTCAG gcctatcatttaggcactggtatggtgtcctccctcccttccccttgcagggagC---------TCTCTTCAGCAGGAAATCACCATCCTTCGTGAATGCCGCCACCCCAATGTTGTGGCCTACATCGGCAGCTACCTCAGgtaactctgtttatcctctcaccctcctgtgtccattgtgccattgtgtg #### Map4k2_ID1624_4 --> 1 - 1 Original Alignment gAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACg tcaccctcctgtgtccattgtgccaaatatgcttaatcttcctaactaagg---GACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTACAGGAGGTTTACCACggtaagtaccagactccatggacatggcctttcctgatcccaatatagggg Alignment from CESAR gAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACg ctctcaccctcctgtgtccattgtgaatatgcttaatcttcctaactaagg---GACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTACAGGAGGTTTACCACggtaagtaccagactccatggacatggcctttcctgatcccaatatagggg Alignment from Spaln_aa2Genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG tcaccctcctgtgtccattgtgccaaatatgcttaatcttcctaactaagGGACCGATTGTGG---ATCTGTATGGAGTTCTGTGGAGGAGGGTCACTACAGGAGGTTTACCACGgtaagtaccagactccatggacatggcctttcctgatcccaatatagggg Alignment from Spaln_nt2Genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG tcaccctcctgtgtccattgtgccaaatatgcttaatcttcctaactaagG---GACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTACAGGAGGTTTACCACGgtaagtaccagactccatggacatggcctttcctgatcccaatatagggg Alignment from Pairagon ------------------------------------------------AATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG TCACCCTCCTGTGTCCATTGTGCCAAATATGCTTAATCTTCCTAACTAAGGGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTACAGGAGGTTTACCACGgtaagtaccagactccatggacatggcctttcctgatcccaatatagggg Alignment from Exonerate_protein2genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG tcaccctcctgtgtccattgtgccaaatatgcttaatcttcctaactaagG---GACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTACAGGAGGTTTACCACGgtaagtaccagactccatggacatggcctttcctgatcccaatatagggg Alignment from Exonerate_coding2genome GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG tcaccctcctgtgtccattgtgccaaatatgcttaatcttcctaactaagG---GACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTACAGGAGGTTTACCACGgtaagtaccagactccatggacatggcctttcctgatcccaatatagggg Alignment from GeneWise GAATGACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTGCAGGAGATTTACCACG tcaccctcctgtgtccattgtgccaaatatgcttaatcttcctaactaagG---GACCGATTGTGGATCTGTATGGAGTTCTGTGGAGGAGGGTCACTACAGGAGGTTTACCACGgtaagtaccagactccatggacatggcctttcctgatcccaatatagggg #### Map4k2_ID1625_5 --> 2 - 0 Original Alignment ccACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG--------------------- cttcaggatctcaaggtccttctcttcacattctcaatgtcttgtttcagccACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGCCTTACTCCCAGTTCCCTGAAgtgagtgacttgcagacagcacccattttggaatcctcagaaatgtgggc Alignment from CESAR ccACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG--------------------- cttcaggatctcaaggtccttctcttcacattctcaatgtcttgtttcagccACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGCCTTACTCCCAGTTCCCTGAAgtgagtgacttgcagacagcacccattttggaatcctcagaaatgtgggc Alignment from Spaln_aa2Genome CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG--------------------- cttcaggatctcaaggtccttctcttcacattctcaatgtcttgtttcagCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGCCTTACTCCCAGTTCCCTGAAgtgagtgacttgcagacagcacccattttggaatcctcagaaatgtgggc Alignment from Spaln_nt2Genome CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAA cttcaggatctcaaggtccttctcttcacattctcaatgtcttgtttcagCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAgccttactcccagttccctgaagtgagtgacttgcagacagcacccattttggaatcctcagaaatgtgggc Alignment from Pairagon CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG--------------------- cttcaggatctcaaggtccttctcttcacattctcaatgtcttgtttcagCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGCCTTACTCCCAGTTCCCTGAAgtgagtgacttgcagacagcacccattttggaatcctcagaaatgtgggc Alignment from Exonerate_protein2genome CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaggatctcaaggtccttctcttcacattctcaatgtcttgtttcagCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGccttactcccagttccctgaagtgagtgacttgcagacagcacccattttggaatcctcagaaatgtgggc Alignment from Exonerate_coding2genome CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG cttcaggatctcaaggtccttctcttcacattctcaatgtcttgtttcagCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGccttactcccagttccctgaagtgagtgacttgcagacagcacccattttggaatcctcagaaatgtgggc Alignment from GeneWise CCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAG--------------------- cttcaggatctcaaggtccttctcttcacattctcaatgtcttgtttcagCCACTGGGCCCCTGGAAGAACGGCAGATTGCCTATGTTTGCCGGGAGGCACTGAAGCCTTACTCCCAGTTCCCTGAAgtgagtgacttgcagacagcacccattttggaatcctcagaaatgtgggc #### Map4k2_ID1630_9 --> 1 - 2 Original Alignment gATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG---------ag gggcacaaggagaggacacctggccttcgcccaaccctgttttcctacaggATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTGTGTGATGTCTGGGCCTTGGGTATCACTACGATTGAATTGAGTGAGCTGCAACCTCCACTGTTCCACCTGCACCCCATGGTCATCCGTaggtatgtctagcacttgccctttacctgttcccctgatgatccttgaccta Alignment from CESAR gATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG---------ag gggcacaaggagaggacacctggccttcgcccaaccctgttttcctacaggATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTGTGTGATGTCTGGGCCTTGGGTATCACTACGATTGAATTGAGTGAGCTGCAACCTCCACTGTTCCACCTGCACCCCATGGTCATCCGTaggtatgtctagcacttgccctttacctgttcccctgatgatccttgacaac Alignment from Spaln_aa2Genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGAGG-------- gggcacaaggagaggacacctggccttcgcccaaccctgttttcctacagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTGTGTGATGTCTGGGCCTTGGGTATCACTACGATTGAATTGAGTGAGCTGCAACCTCCACTGTTCCACCTGCACCCCATGGTCATCCGTAGgtatgtctagcacttgccctttacctgttcccctgatgatccttgaccta Alignment from Spaln_nt2Genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATGA gggcacaaggagaggacacctggccttcgcccaaccctgttttcctacagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTGTGTGATGTCTGGGCCTTGGGTATCACTACGATTGAATTGAGTGAGCTGCAACCTCCACTGTTCCACCTGCACCCCATG-gtcatccgtaggtatgtctagcacttgccctttacctgttcccctgatgatccttgaccta Alignment from Pairagon GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG------------------------------------------------------------- gggcacaaggagaggacacctggccttcgcccaaccctgttttcctacagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTGTGTGATGTCTGGGCCTTGGGTATCACTACGATTGAATTGAGTGAGCTGCAACCTCCACTGTTCCACCTGCACCCCATGGTCATCCGTAGGTATGTCTAGCACTTGCCCTTTACCTGTTCCCCTGATGATCCTTGACCTA Alignment from Exonerate_protein2genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCAT gggcacaaggagaggacacctggccttcgcccaaccctgttttcctacagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTGTGTGATGTCTGGGCCTTGGGTATCACTACGATTGAATTGAGTGAGCTGCAACCTCCACTGTTCCACCTGCACCCCATggtcatccgtaggtatgtctagcacttgccctttacctgttcccctgatgatccttgaccta Alignment from Exonerate_coding2genome GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCAT gggcacaaggagaggacacctggccttcgcccaaccctgttttcctacagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTGTGTGATGTCTGGGCCTTGGGTATCACTACGATTGAATTGAGTGAGCTGCAACCTCCACTGTTCCACCTGCACCCCATggtcatccgtaggtatgtctagcacttgccctttacctgttcccctgatgatccttgaccta Alignment from GeneWise GATGGCACCAGAGGTTGCCGCTGTGGAACGCAAGGGTGGCTACAATGAGCTGTGTGACGTCTGGGCCCTGGGCATCACTGCCATTGAGTTGGGCGAGCTGCAACCGCCACTGTTCCACCTGCACCCCATG------AGG-- gggcacaaggagaggacacctggccttcgcccaaccctgttttcctacagGATGGCCCCAGAAGTTGCTGCTGTGGAACGTAAGGGTGGCTACAATGAGCTGTGTGATGTCTGGGCCTTGGGTATCACTACGATTGAATTGAGTGAGCTGCAACCTCCACTGTTCCACCTGCACCCCATGGTCATCCGTAGgtatgtctagcacttgccctttacctgttcccctgatgatccttgaccta #### Map4k2_ID1633_12 --> 0 - 0 Original Alignment CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gacatgacctggaggacagggagcaactctttggatctttctttccttagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTTGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTT---gtgagcacagcgggcaggaaaccaggtcagctcagcttggtgggaaggtg Alignment from CESAR CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTGGAG gacatgacctggaggacagggagcaactctttggatctttctttccttagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTTGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTT---gtgagcacagcgggcaggaaaccaggtcagctcagcttggtgggaag Alignment from Spaln_aa2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG gacatgacctggaggacagggagcaactctttggatctttctttccttagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTTGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTTgtgagcacagcgggcaggaaaccaggtcagctcagcttggtgggaaggtg Alignment from Spaln_nt2Genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG GAG gacatgacctggaggacagggagcaactctttggatctttctttccttagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTTGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTTgtgagcacagcgggcaggaaaccaggtcagctcagcttggtgggaagGTG Alignment from Pairagon CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG gacatgacctggaggacagggagcaactctttggatctttctttccttagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTTGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTTgtgagcacagcgggcaggaaaccaggtcagctcagcttggtgggaaggtg Alignment from Exonerate_protein2genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG gacatgacctggaggacagggagcaactctttggatctttctttccttagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTTGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTTgtgagcacagcgggcaggaaaccaggtcagctcagcttggtgggaaggtg Alignment from Exonerate_coding2genome CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG gacatgacctggaggacagggagcaactctttggatctttctttccttagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTTGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTTgtgagcacagcgggcaggaaaccaggtcagctcagcttggtgggaaggtg Alignment from GeneWise CACCCATTCACGACCCAGCATCTCCCTCCGGCCCTCCTCACCCAGCTCCTCGACAAGGCCAGTGACCCCCACCTGGGAACCCTCTCCCCTGAAGACAGTGAGCTG gacatgacctggaggacagggagcaactctttggatctttctttccttagCATCCATTCACAACCCAGCATCTCCCTCCAGCCCTCCTCACCCAGCTCCTTGACAAGGCTAGTGACCCCCATCTAGGAACCCTCTCCCCTGAAGACAGTGAGCTTgtgagcacagcgggcaggaaaccaggtcagctcagcttggtgggaaggtg #### Map4k2_ID1635_14 --> 2 - 0 Original Alignment ttCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG--------- cccactctgagacttggaacaccttttactttctgttgcaatttccacagttCACCAAGTGAAATTTGGTGCTCCTCGTCGGAAGGAGACAGACCCTCTAAATGAACCAGAGAACTGTgtgggtcactgactaatatgtgtgtagtggggttcaggggagggaggcct Alignment from CESAR ttCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG--------- cccactctgagacttggaacaccttttactttctgttgcaatttccacagttCACCAAGTGAAATTTGGTGCTCCTCGTCGGAAGGAGACAGACCCTCTAAATGAACCAGAGAACTGTgtgggtcactgactaatatgtgtgtagtggggttcaggggagggaggcct Alignment from Spaln_aa2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG--------- cccactctgagacttggaacaccttttactttctgttgcaatttccacagTTCACCAAGTGAAATTTGGTGCTCCTCGTCGGAAGGAGACAGACCCTCTAAATGAACCAGAGAACTGTgtgggtcactgactaatatgtgtgtagtggggttcaggggagggaggcct Alignment from Spaln_nt2Genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG------- cccactctgagacttggaacaccttttactttctgttgcaatttccacagTTCACCAAGTGAAATTTGGTGCTCCTCGTCGGAAGGAGACAGACCCTCTAAATGAACCAGAGAACTgtgtgggtcactgactaatatgtgtgtagtggggttcaggggagggaggcct Alignment from Pairagon TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG--------- cccactctgagacttggaacaccttttactttctgttgcaatttccacagTTCACCAAGTGAAATTTGGTGCTCCTCGTCGGAAGGAGACAGACCCTCTAAATGAACCAGAGAACTGTgtgggtcactgactaatatgtgtgtagtggggttcaggggagggaggcct Alignment from Exonerate_protein2genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG cccactctgagacttggaacaccttttactttctgttgcaatttccacagTTCACCAAGTGAAATTTGGTGCTCCTCGTCGGAAGGAGACAGACCCTCTAAATGAACCAgagaactgtgtgggtcactgactaatatgtgtgtagtggggttcaggggagggaggcct Alignment from Exonerate_coding2genome TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG cccactctgagacttggaacaccttttactttctgttgcaatttccacagTTCACCAAGTGAAATTTGGTGCTCCTCGTCGGAAGGAGACAGACCCTCTAAATGAACCAgagaactgtgtgggtcactgactaatatgtgtgtagtggggttcaggggagggaggcct Alignment from GeneWise TTCACCAAGTGAAATTCGGTGCTCCTCGCCGGAAGGAGACAGATCCTCTCAATGAACCG--------- cccactctgagacttggaacaccttttactttctgttgcaatttccacagTTCACCAAGTGAAATTTGGTGCTCCTCGTCGGAAGGAGACAGACCCTCTAAATGAACCAGAGAACTGTgtgggtcactgactaatatgtgtgtagtggggttcaggggagggaggcct #### Map4k2_ID1637_16 --> 1 - 2 Original Alignment gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag caggctgaatcctattgaagattgactctttctttttataaaaaaaaaaggAGCCTGCTGCAGTCAGTCCAGGAAGCTCTG------aggtgagtgttcgggccccacacttggtgagaaggggccttcaggcctgggg Alignment from CESAR gAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAag caggctgaatcctattgaagattgactctttctttttataaaaaaaaaaggAGCCTGCTGCAGTCAGTCCAGGAAGCTCTG------aggtgagtgttcgggccccacacttggtgagaaggggccttcaggcctgggg Alignment from Spaln_aa2Genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGA caggctgaatcctattgaagattgactctttctttttataaaaaaaaaagGAGCCTGCTGCAGTCAGTCCAGGAAGCTCTGAGgtgagtgttcgggccccacacttggtgagaaggggccttcaggcctgggg Alignment from Spaln_nt2Genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG caggctgaatcctattgaagattgactctttctttttataaaaaaaaaagGAGCCTGCTGCAGTCAGTCCAGGAAGCTCTG------AGgtgagtgttcgggccccacacttggtgagaaggggccttcaggcctgggg Alignment from Pairagon GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGAGGAAAG caggctgaatcctattgaagattgactctttctttttataaaaaaaaaagGAGCCTGCTGCAGTCAGTCCAGGAAGCTCTG------AGgtgagtgttcgggccccacacttggtgagaaggggccttcaggcctgggg Alignment from Exonerate_protein2genome GAGCCTGCTGCAGTCAGTCCAGGAGGCCCTGGA caggctgaatcctattgaagattgactctttctttttataaaaaaaaaagGAGCCTGCTGCAGTCAGTCCAGGAAGCTCTGAGgtgagtgttcgggccccacacttggtgagaaggggccttcaggcctgggg Alignment from Exonerate_coding2genome caggctgaatcctattgaagattgactctttctttttataaaaaaaaaaggagcctgctgcagtcagtccaggaagctctgaggtgagtgttcgggccccacacttggtgagaaggggccttcaggcctgggg Alignment from GeneWise -------- caggctgaatcctattgaagattgactctttctttttataaaaaaaaaaggagcctgctgcagtcagtccaggaagctctgaggtgagtgttcgggccccacacttggtgagaaggggccttcagGCCTGGGG #### Map4k2_ID1638_17 --> 1 - 0 Original Alignment gAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG gaacagtcccctctcacacacaatcatgatgcactgtggtttccctgcaggAGCCTGACTATCCGGCCAGCCTTA---------gtaagaattgcagaagcagaagagtgtagtgcttgaaagtgactcatgag Alignment from CESAR gAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG gaacagtcccctctcacacacaatcatgatgcactgtggtttccctgcaggAGCCTGACTATCCGGCCAGCCTTA---------gtaagaattgcagaagcagaagagtgtagtgcttgaaagtg Alignment from Spaln_aa2Genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG gaacagtcccctctcacacacaatcatgatgcactgtggtttccctgcagGAGCCTGACTATCCGGCCAGCCTTAGTAAGAATTgcagaagcagaagagtgtagtgcttgaaagtgactcatgag Alignment from Spaln_nt2Genome GAGCCTGACTATCCGGCCAGCCTTA gaacagtcccctctcacacacaatcatgatgcactgtggtttccctgcagGAGCCTGACTATCCGGCCAGCCTTAgtaagaattgcagaagcagaagagtgtagtgcttgaaagtgactcatgag Alignment from Pairagon GAGCCTGACTATCCGGCCAGCCTTA gaacagtcccctctcacacacaatcatgatgcactgtggtttccctgcagGAGCCTGACTATCCGGCCAGCCTTAgtaagaattgcagaagcagaagagtgtagtgcttgaaagtgactcatgag Alignment from Exonerate_protein2genome GAGCCTGACTATCCGGCCAGCCTTAGAACTCCAG gaacagtcccctctcacacacaatcatgatgcactgtggtttccctgcagGAGCCTGACTATCCGGCCAGCCTTAGTAAGAATTgcagaagcagaagagtgtagtgcttgaaagtgactcatgag Alignment from Exonerate_coding2genome gaacagtcccctctcacacacaatcatgatgcactgtggtttccctgcaggagcctgactatccggccagccttagtaagaattgcagaagcagaagagtgtagtgcttgaaagtgactcatgag Alignment from GeneWise gaacagtcccctctcacacacaatcatgatgcactgtggtttccctgcaggagcctgactatccggccagccttagtaagaattgcagaagcagaagagtgtagtgcttgaaagtgactcatgag #### Map4k2_ID1651_30 --> 2 - 0 Original Alignment tg---------TGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagttgtagagtgcagggatagtgcagagtgatctctgttgctattcagtgGAATCGGAATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTTGATACCAACGAGgtgagtgaccctagggccctaattacctccctgaggccctatcctgagag Alignment from CESAR tg---------TGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagttgtagagtgcagggatagtgcagagtgatctctgttgctattcagtgGAATCGGAATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTTGATACCAACGAGgtgagtgaccctagggccctaattacctccctgaggccctatcctgagag Alignment from Spaln_aa2Genome TG---------TGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagttgtagagtgcagggatagtgcagagtgatctctgttgctattcagTGGAATCGGAATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTTGATACCAACGAGgtgagtgaccctagggccctaattacctccctgaggccctatcctgagag Alignment from Spaln_nt2Genome TGTGTCTGCAGGA---------TAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagttgtagagtgcagggatagtgcagagtgatctctgttgctattcagTGGAATCGGAATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTTGATACCAACGAGgtgagtgaccctagggccctaattacctccctgaggccctatcctgagag Alignment from Pairagon TG---------TGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagttgtagagtgcagggatagtgcagagtgatctctgttgctattcagTGGAATCGGAATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTTGATACCAACGAGgtgagtgaccctagggccctaattacctccctgaggccctatcctgagag Alignment from Exonerate_protein2genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagttgtagagtgcagggatagtgcagagtgatctctgttgctattcagtggaatcggAATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTTGATACCAACGAGgtgagtgaccctagggccctaattacctccctgaggccctatcctgagag Alignment from Exonerate_coding2genome TGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagttgtagagtgcagggatagtgcagagtgatctctgttgctattcagtggaatcggAATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTTGATACCAACGAGgtgagtgaccctagggccctaattacctccctgaggccctatcctgagag Alignment from GeneWise --------GTGTGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTCGATACCAACGAG acagttgtagagtgcagggatagtgcagagtgatctctgttgctattcagTGGAATCGGAATGTCTGCAGGATAGTGTGCTGGCGTTCTGGAGCCATGGCATGCAGGGCCGAAGCCTTGATACCAACGAGgtgagtgaccctagggccctaattacctccctgaggccctatcctgagag #### Map4k2_ID1652_31 --> 0 - 2 Original Alignment ---------GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACag ctgagaggattattgggatggcctcaggctaatttgattcccaattttagTGTTTGCCTGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCCACaggtcagtgcaataaacctttaatttcagatgctgcccccaggctaggtttg Alignment from CESAR ---------GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACag ctgagaggattattgggatggcctcaggctaatttgattcccaattttagTGTTTGCCTGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCCACaggtcagtgcaataaacctttaatttcagatgctgcccccaggctaggtttg Alignment from Spaln_aa2Genome GTGACGCAGGAGATA---------ACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaggattattgggatggcctcaggctaatttgattcccaattttagTGTTTGCCTGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCCACAGgtcagtgcaataaacctttaatttcagatgctgcccccaggctaggtttg Alignment from Spaln_nt2Genome GTGACGCAGGAGA---------TAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaggattattgggatggcctcaggctaatttgattcccaattttagTGTTTGCCTGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCCACAGgtcagtgcaataaacctttaatttcagatgctgcccccaggctaggtttg Alignment from Pairagon ---------GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaggattattgggatggcctcaggctaatttgattcccaattttagTGTTTGCCTGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCCACAGgtcagtgcaataaacctttaatttcagatgctgcccccaggctaggtttg Alignment from Exonerate_protein2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaggattattgggatggcctcaggctaatttgattcccaattttagtgtttgcctGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCCACAGgtcagtgcaataaacctttaatttcagatgctgcccccaggctaggtttg Alignment from Exonerate_coding2genome GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaggattattgggatggcctcaggctaatttgattcccaattttagtgtttgcctGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCCACAGgtcagtgcaataaacctttaatttcagatgctgcccccaggctaggtttg Alignment from GeneWise ---------GTGACGCAGGAGATAACAGATGAGACCAGGATCTTCCGAGTACTGGGGGCTCACAG ctgagaggattattgggatggcctcaggctaatttgattcccaattttagTGTTTGCCTGTGACACAGGAGATAACAGATGAGGCCAGGATCTTCCGAGTACTGGGGGCCCACAGgtcagtgcaataaacctttaatttcagatgctgcccccaggctaggtttg #### Mark2_ID2107_14 --> 0 - 2 Original Alignment AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC------ag agtctgctcgggcaacactagagtgcattgcactcttgctctctccccagAACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACACCGGTaggtgaggtatctggactgcttagcatggtcccaggggtggcttcaacagtg Alignment from CESAR AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC------ag agtctgctcgggcaacactagagtgcattgcactcttgctctctccccagAACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACACCGGTaggtgaggtatctggactgcttagcatggtcccaggggtggcttcaacagtg Alignment from Spaln_aa2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACAGC----- agtctgctcgggcaacactagagtgcattgcactcttgctctctccccagAACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACACCGGTAGgtgaggtatctggactgcttagcatggtcccaggggtggcttcaacagtg Alignment from Spaln_nt2Genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACA--G agtctgctcgggcaacactagagtgcattgcactcttgctctctccccagAACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACACCGgtaggtgaggtatctggactgcttagcatggtcccaggggtggcttcaacagtg Alignment from Pairagon AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGACA--G agtctgctcgggcaacactagagtgcattgcactcttgctctctccccagAACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACACCGgtaggtgaggtatctggactgcttagcatggtcccaggggtggcttcaacagtg Alignment from Exonerate_protein2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC------AG agtctgctcgggcaacactagagtgcattgcactcttgctctctccccagAACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACACCGGTAGgtgaggtatctggactgcttagcatggtcccaggggtggcttcaacagtg Alignment from Exonerate_coding2genome AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC------AG agtctgctcgggcaacactagagtgcattgcactcttgctctctccccagAACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACACCGGTAGgtgaggtatctggactgcttagcatggtcccaggggtggcttcaacagtg Alignment from GeneWise AACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCACTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATCCAGAATGGTAAAGAC------AG agtctgctcgggcaacactagagtgcattgcactcttgctctctccccagAACAGCGTCCTTTCCACCAGCACAAACCGAAGCAGGAACTCCCCGCTTTTGGACAGGGCCAGCCTTGGCCAGGCCTCCATTCAGAATGGAAAAGACACCGGTAGgtgaggtatctggactgcttagcatggtcccaggggtggcttcaacagtg #### Mark2_ID2108_13 --> 2 - 0 Original Alignment ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtttaagtttcaggggactgtagtcttactggtgtctcttgtccctccagcc------------------------------------------CAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtaagtcttgagctactaccctctggcctggcctccctcttctccgctca Alignment from CESAR ccGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG attggatcttcaggggactgtagtcttactggtgtctcttgtccctccagcc------------------------------------------CAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtaagtcttgagctactaccctctggcctggcctccctcttctccgctca Alignment from Spaln_aa2Genome CTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtttaagtttcaggggactgtagtcttactggtgtctcttgtccctccagCCCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtaagtcttgagctactaccctctggcctggcctccctcttctccgctca Alignment from Spaln_nt2Genome CTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtttaagtttcaggggactgtagtcttactggtgtctcttgtccctccagCCCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtaagtcttgagctactaccctctggcctggcctccctcttctccgctca Alignment from Pairagon CCGTCCCTGCCATTCCCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtttaagtttcaggggactgtagtcttactggtgtctcttgtccctccagCC------------------------------------------CAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtaagtcttgagctactaccctctggcctggcctccctcttctccgctca Alignment from Exonerate_protein2genome CCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtttaagtttcaggggactgtagTCTTACTGGTGTCTCTTGTCCCTCCAGCCCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtaagtcttgagctactaccctctggcctggcctccctcttctccgctca Alignment from Exonerate_coding2genome CCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtttaagtttcaggggactgtagTCTTACTGGTGTCTCTTGTCCCTCCAGCCCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtaagtcttgagctactaccctctggcctggcctccctcttctccgctca Alignment from GeneWise CCACCTCGAATTCCTACTCTAAGAAGACTCAGAGTAACAACGCAGAAAATAAGCGGCCTGAGGAAGAGACAGGGCGGAAAGCCAGCAGCACCGCCAAAGTGCCTGCCAGCCCTCTGCCTGGCCTGGACAGGAAGAAGACCACTCCTGCCCCCTCCACG gtttaagtttcaggggactgtagTCTTACTGGTGTCTCTTGTCCCTCCAGCCCAGAGTAACAACGCAGAAAATAAGCGACCCGAGGAAGAGACGGGGCGGAAAGCCAGCAGCACTGCCAAAGTGCCCACCAGCCCTCTGCCAGGCCTGGACAGGAAGAAGACTACACCTGCGCCCTCCACAgtaagtcttgagctactaccctctggcctggcctccctcttctccgctca #### Mark2_ID2114_7 --> 0 - 0 Original Alignment ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgccatttcctgtttcactttcagacagtgacaaagtgtttgtttttagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTA---gtgaggagctatgttcctatccctgtgacttgcagtgagtagtctgggtg Alignment from CESAR ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG ctgccatttcctgtttcactttcagacagtgacaaagtgtttgtttttagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTA---gtgaggagctatgttcctatccctgtgacttgcagtgagtagtctgg Alignment from Spaln_aa2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTA ctgccatttcctgtttcactttcagacagtgacaaagtgtttgtttttagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAgtgaggagctatgttcctatccctgtgacttgcagtgagtagtctgggtg Alignment from Spaln_nt2Genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG---- ctgccatttcctgtttcactttcagacagtgacaaagtgtttgtttttagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAGTGAGGAgctatgttcctatccctgtgacttgcagtgagtagtctgggtg Alignment from Pairagon ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTA ctgccatttcctgtttcactttcagacagtgacaaagtgtttgtttttagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAgtgaggagctatgttcctatccctgtgacttgcagtgagtagtctgggtg Alignment from Exonerate_protein2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTA ctgccatttcctgtttcactttcagacagtgacaaagtgtttgtttttagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAgtgaggagctatgttcctatccctgtgacttgcagtgagtagtctgggtg Alignment from Exonerate_coding2genome ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTA ctgccatttcctgtttcactttcagacagtgacaaagtgtttgtttttagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAgtgaggagctatgttcctatccctgtgacttgcagtgagtagtctgggtg Alignment from GeneWise ATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAAAG--------- ctgccatttcctgtttcactttcagacagtgacaaagtgtttgtttttagATAGTGTCTGCTGTGCAGTACTGTCACCAGAAGTTCATTGTTCATAGAGATCTAGTGAGGAGCTATgttcctatccctgtgacttgcagtgagtagtctgggtg #### Mark2_ID2115_6 --> 2 - 0 Original Alignment ga------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ctgccctcacccactgtactcactgtccctcccacccaccacttgaacaggaACCACCGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtctgcgtgtctccactctcggctgtagactcagcatggggatatggcgc Alignment from CESAR ga------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ctgccctcacccactgtactcactgtccctcccacccaccacttgaacaggaACCACCGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtctgcgtgtctccactctcggctgtagactcagcatggggatatggcgc Alignment from Spaln_aa2Genome GAGAGGTGTTTGAT------TACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ctgccctcacccactgtactcactgtccctcccacccaccacttgaacagGAACCACCGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtctgcgtgtctccactctcggctgtagactcagcatggggatatggcgc Alignment from Spaln_nt2Genome GA------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ctgccctcacccactgtactcactgtccctcccacccaccacttgaacagGAACCACCGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtctgcgtgtctccactctcggctgtagactcagcatggggatatggcgc Alignment from Pairagon GA------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ctgccctcacccactgtactcactgtccctcccacccaccacttgaacagGAACCACCGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtctgcgtgtctccactctcggctgtagactcagcatggggatatggcgc Alignment from Exonerate_protein2genome GA------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ctgccctcacccactgtactcactgtccctcccacccaccacttgaacagGAACCACCGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtctgcgtgtctccactctcggctgtagactcagcatggggatatggcgc Alignment from Exonerate_coding2genome GA------GAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ctgccctcacccactgtactcactgtccctcccacccaccacttgaacagGAACCACCGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtctgcgtgtctccactctcggctgtagactcagcatggggatatggcgc Alignment from GeneWise -----GGAGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTTCGCCAG ctgccctcacccactgtactcactgtccctcccacccaccacttgaacagGAACCACCGAGGTGTTTGATTACCTAGTGGCCCATGGCAGGATGAAAGAAAAAGAAGCTCGAGCCAAATTCCGCCAGgtctgcgtgtctccactctcggctgtagactcagcatggggatatggcgc #### Mark2_ID2116_5 --> 2 - 1 Original Alignment ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCg aatctggacacaggtgtgcctctgagcctccctccctgtccttcccccagttAAGTGGTTTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTT------------------ggtaagtctgacactgtcctaattcgtctgcaggccccccatgtttgtctc Alignment from CESAR ttAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCg aatctggacacaggtgtgcctctgagcctccctccctgtccttcccccagttAAGTGGTTTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTT------------------ggtaagtctgacactgtcctaattcgtctgcaggccccccatgtttgtctc Alignment from Spaln_aa2Genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTC------ATGGAGTATGCCAGTGGCG aatctggacacaggtgtgcctctgagcctccctccctgtccttcccccagTTAAGTGGTTTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTTGGTAAGTCTGACACTGTCCTAATTCgtctgcaggccccccatgtttgtctc Alignment from Spaln_nt2Genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGT aatctggacacaggtgtgcctctgagcctccctccctgtccttcccccagTTAAGTGGTTTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTTGGTAAGTCTGACACTgtcctaattcgtctgcaggccccccatgtttgtctc Alignment from Pairagon TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCATGGAGTATGCCAGTGGCG aatctggacacaggtgtgcctctgagcctccctccctgtccttcccccagTTAAGTGGTTTGAGGTCATTGATACTGAGAAGACACTCTACCTTGT------------------TGgtaagtctgacactgtcctaattcgtctgcaggccccccatgtttgtctc Alignment from Exonerate_protein2genome TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCA aatctggacacaggtgtgcctctgagcctccctccctgtccttcccccagTTAAGTGGTTTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTTGgtaagtctgacactgtcctaattcgtctgcaggccccccatgtttgtctc Alignment from Exonerate_coding2genome aatctggacacaggtgtgcctctgagcctccctccctgtccttcccccagttaagtggtttgaggtcattgatactgagaagacactctaccttgttggtaagtctgacactgtcctaattcgtctgcaggccccccatgtttgtctc Alignment from GeneWise TTAAGTTGTTTGAAGTGATCGAGACTGAGAAGACTCTCTACCTTGTCA aatctggacacaggtgtgcctctgagcctccctccctgtccttcccccagTTAAGTGGTTTGAGGTCATTGATACTGAGAAGACACTCTACCTTGTTGgtaagtctgacactgtcctaattcgtctgcaggccccccatgtttgtctc #### Men1_ID1615_6 --> 1 - 0 Original Alignment aTACCCCATGGCGCTAGGGAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAG gaactgagtgatagccgttctgaaccctaccgcatgattgtttttccttccttaaga------------------AACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAGgtaagtccatttcagcaaccagcagctcctttaagggcttggag Alignment from CESAR aTACCCCATGGCGCTAGGGAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAG tggttagatagggtttgggaactgagtgatagcatgattgtttttccttccttaaga------------------AACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAGgtaagtccatttcagcaaccagcagctcctttaagggcttggag Alignment from Spaln_aa2Genome ATACCCCATGGCGCTAGGGAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAG gaactgagtgatagccgttctgaaccctaccgcatgattgtttttccttccttaagA------------------AACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAGgtaagtccatttcagcaaccagcagctcctttaagggcttggag Alignment from Spaln_nt2Genome GCTAGGG AA-CTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAG GAACTGAgtgatagccgttctgaaccctaccgcatgattgtttttccttccttaagAAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAGgtaagtccatttcagcaaccagcagctcctttaagggcttggag Alignment from Pairagon ATACCCCATGGCGCTAGGGAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAG gaactgagtgatagccgttctgaaccctaccgcatgattgtttttccttccttaagA------------------AACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAGgtaagtccatttcagcaaccagcagctcctttaagggcttggag Alignment from Exonerate_protein2genome GCT AGGGAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAG GAActgagtgatagccgttctgaaccctaccgcatgattgtttttccttccttAAGAAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAGgtaagtccatttcagcaaccagcagctcctttaagggcttggag Alignment from Exonerate_coding2genome GCT AGGGAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAG GAActgagtgatagccgttctgaaccctaccgcatgattgtttttccttccttAAGAAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAGgtaagtccatttcagcaaccagcagctcctttaagggcttggag Alignment from GeneWise CTGTATGACCTCGGACATCTGGAAAGATACCCCATG------------GCGCTAGGGAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAG CTGAGTGAT---AGCCGTTCTGAACCCTACCGCATGATTGTTTTTCCTTCCTTAAGAAACTTGGCAGACCTGGAGGAGCTGGAGCCTACCCCGGGCCGGCCAGACCCACTCACCCTTTATCACAAGgtaagtccatttcagcaaccagcagctcctttaagggcttggag #### Mrpl11_ID768_3 --> 0 - 1 Original Alignment CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACA------g ttgaactggatggaaaatggagagattctctaattttgttaattctctagCCTGACAGGACTTTTGAGCTCAAGATTGGGCAGCCCACTGTTTCGTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGATGTAggtaaaaactagattgggcagctgggtgtctgatgaatctggagaaatgta Alignment from CESAR CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACA------g ttgaactggatggaaaatggagagattctctaattttgttaattctctagCCTGACAGGACTTTTGAGCTCAAGATTGGGCAGCCCACTGTTTCGTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGATGTAggtaaaaactagattgggcagctgggtgtctgatgaatctggagaaatgta Alignment from Spaln_aa2Genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACA------G ttgaactggatggaaaatggagagattctctaattttgttaattctctagCCTGACAGGACTTTTGAGCTCAAGATTGGGCAGCCCACTGTTTCGTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGATGTAGgtaaaaactagattgggcagctgggtgtctgatgaatctggagaaatgta Alignment from Spaln_nt2Genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG-- ttgaactggatggaaaatggagagattctctaattttgttaattctctagCCTGACAGGACTTTTGAGCTCAAGATTGGGCAGCCCACTGTTTCGTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGATgtaggtaaaaactagattgggcagctgggtgtctgatgaatctggagaaatgta Alignment from Pairagon CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG-- ttgaactggatggaaaatggagagattctctaattttgttaattctctagCCTGACAGGACTTTTGAGCTCAAGATTGGGCAGCCCACTGTTTCGTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGATgtaggtaaaaactagattgggcagctgggtgtctgatgaatctggagaaatgta Alignment from Exonerate_protein2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ttgaactggatggaaaatggagagattctctaattttgttaattctctagCCTGACAGGACTTTTGAGCTCAAGATTGGGCAGCCCACTGTTTCGTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGatgtaggtaaaaactagattgggcagctgggtgtctgatgaatctggagaaatgta Alignment from Exonerate_coding2genome CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACAG ttgaactggatggaaaatggagagattctctaattttgttaattctctagCCTGACAGGACTTTTGAGCTCAAGATTGGGCAGCCCACTGTTTCGTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGatgtaggtaaaaactagattgggcagctgggtgtctgatgaatctggagaaatgta Alignment from GeneWise CCCGACAGGACATTTGAGCTCAAGATTGGGCAGCCCACTGTTTCTTACTTTTTGAAGGCAGCTGCTGGGATCGAGAAGGGGGCCCGGCATACA------G ttgaactggatggaaaatggagagattctctaattttgttaattctctagCCTGACAGGACTTTTGAGCTCAAGATTGGGCAGCCCACTGTTTCGTACTTGCTGAAGGCAGCTGCTGGGATTGAGAAGGGAGCTCGGCATACAGATGTAGgtaaaaactagattgggcagctgggtgtctgatgaatctggagaaatgta #### Mta2_ID2533_6 --> 0 - 1 Original Alignment GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAGg gcagagggtctgcaacagaaccaacttgcccttggctctgttctctgcagGAGTGCTTTTTCTATTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCAGATCAAGGGGAGATCAGGGTTGGTTGCACGTTCCAAGCTGAAATCCCAGATCGT---------ggtgagcaactagcgccgaagaaccaggttgaacatgacattttctgttga Alignment from CESAR GCAGAGg GCAGAGggtctgcaacagaaccaacttgcccttggctctgttctctgcaggagtgctttttctattcactggtgtttgatcctgtgcagaagacacttctggcagatcaaggggagatcagggttggttgcacgttccaagctgaaatcccagatcgtggtgagcaactagcgccgaagaaccaggttgaacatgacattttctgttga Alignment from Spaln_aa2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGT- gcagagggtctgcaacagaaccaacttgcccttggctctgttctctgcagGAGTGCTTTTTCTATTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCAGATCAAGGGGAGATCAGGGTTGGTTGCACGTTCCAAGCTGAAATCCCAGATCGTGgtgagcaactagcgccgaagaaccaggttgaacatgacattttctgttga Alignment from Spaln_nt2Genome GACTGCTTTTTTTACTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCTGATCAAGGGGAGATCAGAGTTGGTTGCAAATTCCAAGCTGAGATCCCAGATCGTTTGGCAGAG gcagagggtctgcaacagaaccaacttgcccttggctctgttctctgcagGAGTGCTTTTTCTATTCACTGGTGTTTGATCCTGTGCAGAAGACACTTCTGGCAGATCAAGGGGAGATCAGGGTTGGTTGCACGTTCCAAGCTGAAATCCCAGATCGT--------Ggtgagcaactagcgccgaagaaccaggttgaacatgacattttctgttga Alignment from Pairagon GCAGAGG GCAGAGGgtctgcaacagaaccaacttgcccttggctctgttctctgcaggagtgctttttctattcactggtgtttgatcctgtgcagaagacacttctggcagatcaaggggagatcagggttggttgcacgttccaagctgaaatcccagatcgtggtgagcaactagcgccgaagaaccaggttgaacatgacattttctgttga Alignment from Exonerate_protein2genome GCAGAGG GCAGAGGgtctgcaacagaaccaacttgcccttggctctgttctctgcaggagtgctttttctattcactggtgtttgatcctgtgcagaagacacttctggcagatcaaggggagatcagggttggttgcacgttccaagctgaaatcccagatcgtggtgagcaactagcgccgaagaaccaggttgaacatgacattttctgttga Alignment from Exonerate_coding2genome GCAGAGG GCAGAGGgtctgcaacagaaccaacttgcccttggctctgttctctgcaggagtgctttttctattcactggtgtttgatcctgtgcagaagacacttctggcagatcaaggggagatcagggttggttgcacgttccaagctgaaatcccagatcgtggtgagcaactagcgccgaagaaccaggttgaacatgacattttctgttga Alignment from GeneWise GCAGAGG GCAGAGGgtctgcaacagaaccaacttgcccttggctctgttctctgcaggagtgctttttctattcactggtgtttgatcctgtgcagaagacacttctggcagatcaaggggagatcagggttggttgcacgttccaagctgaaatcccagatcgtggtgagcaactagcgccgaagaaccaggttgaacatgacattttctgttga #### Mta2_ID2534_7 --> 2 - 2 Original Alignment ga---------GAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg tatgacttatttccctttctccctccagcctgtcttttgtatcacaccaggaAGTCGCGAGGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTTGTGGTGGCCcggtagttgggatgatcagggaggtggcctagggcgcaatggactgaaatct Alignment from CESAR ga---------GAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCcg tatgacttatttccctttctccctccagcctgtcttttgtatcacaccaggaAGTCGCGAGGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTTGTGGTGGCCcggtagttgggatgatcagggaggtggcctagggcgcaatggactgaaatct Alignment from Spaln_aa2Genome GAGAATCAGATAAT---------CGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgacttatttccctttctccctccagcctgtcttttgtatcacaccagGAAGTCGCGAGGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTTGTGGTGGCCCGgtagttgggatgatcagggaggtggcctagggcgcaatggactgaaatct Alignment from Spaln_nt2Genome GAGAATCAGAT---------AATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgacttatttccctttctccctccagcctgtcttttgtatcacaccagGAAGTCGCGAGGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTTGTGGTGGCCCGgtagttgggatgatcagggaggtggcctagggcgcaatggactgaaatct Alignment from Pairagon GA---------GAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgacttatttccctttctccctccagcctgtcttttgtatcacaccagGAAGTCGCGAGGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTTGTGGTGGCCCGgtagttgggatgatcagggaggtggcctagggcgcaatggactgaaatct Alignment from Exonerate_protein2genome GA---------GAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgacttatttccctttctccctccagcctgtcttttgtatcacaccagGAAGTCGCGAGGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTTGTGGTGGCCCGgtagttgggatgatcagggaggtggcctagggcgcaatggactgaaatct Alignment from Exonerate_coding2genome GA---------GAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCG tatgacttatttccctttctccctccagcctgtcttttgtatcacaccagGAAGTCGCGAGGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTTGTGGTGGCCCGgtagttgggatgatcagggaggtggcctagggcgcaatggactgaaatct Alignment from GeneWise -------GAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATTGATCAGTTTCTCGTGGTGGCCCGA-- tatgacttatttccctttctccctccagcctgtcttttgtatcacaccaggaagTCGCGAGGAATCAGATAATCGAAACCAACAGAAGATGGAGATGAAAGTCTGGGACCCAGACAACCCCCTCACAGACCGACAGATTGATCAATTTCTTGTGGTGGCCCGGTAgttgggatgatcagggaggtggcctagggcgcaatggactgaaatct #### Mta2_ID2537_10 --> 0 - 0 Original Alignment ---------CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG cactgggaacacataccaatctcaccctaacccacattcatcttttccagTTACCAGATCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtaagtgtcaggctagctgaaaagctggaccagaggctatctgattacct Alignment from CESAR ---------CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG cactgggaacacataccaatctcaccctaacccacattcatcttttccagTTACCAGATCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtaagtgtcaggctagctgaaaagctggaccagaggctatctgattacct Alignment from Spaln_aa2Genome CTACCCTGG---------AAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG cactgggaacacataccaatctcaccctaacccacattcatcttttccagTTACCAGATCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtaagtgtcaggctagctgaaaagctggaccagaggctatctgattacct Alignment from Spaln_nt2Genome TCTACCCTGG-AAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG cactgggaacacataccaatctcaccctaacccacattcatcttttccagttaccagATCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtaagtgtcaggctagctgaaaagctggaccagaggctatctgattacct Alignment from Pairagon ---------CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG cactgggaacacataccaatctcaccctaacccacattcatcttttccagTTACCAGATCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtaagtgtcaggctagctgaaaagctggaccagaggctatctgattacct Alignment from Exonerate_protein2genome TTCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG cactgggaacacataccaatctcaccctaacccacattcatcttttccagttaccagATCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtaagtgtcaggctagctgaaaagctggaccagaggctatctgattacct Alignment from Exonerate_coding2genome TTCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG cactgggaacacataccaatctcaccctaacccacattcatcttttccagttaccagATCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtaagtgtcaggctagctgaaaagctggaccagaggctatctgattacct Alignment from GeneWise ---------CTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAG cactgggaacacataccaatctcaccctaacccacattcatcttttccagTTACCAGATCTACCCTGGAAGTCACTTGCAAGCATAGTCCAGTTTTATTACATGTGGAAAACCACAGACCGGTATATTCAGCAGgtaagtgtcaggctagctgaaaagctggaccagaggctatctgattacct #### Mta2_ID2538_11 --> 0 - 2 Original Alignment AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTta atattggttgaaatgctttgaatttattcatttctctactatttttccagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTAC---------tagtaagtttgttcctgggggcagcaatgcacaaaatcaggaacacctcatg Alignment from CESAR AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTta atattggttgaaatgctttgaatttattcatttctctactatttttccagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTAC---------tagtaagtttgttcctgggggcagcaatgcacaaaatcaggaacacctcatg Alignment from Spaln_aa2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACAT atattggttgaaatgctttgaatttattcatttctctactatttttccagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACTAgtaagtttgttcctgggggcagcaatgcacaaaatcaggaacacctcatg Alignment from Spaln_nt2Genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTAC-A atattggttgaaatgctttgaatttattcatttctctactatttttccagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACTAgtaagtttgttcctgggggcagcaatgcacaaaatcaggaacacctcatg Alignment from Pairagon AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACATCCCCACTTA atattggttgaaatgctttgaatttattcatttctctactatttttccagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTAC---------TAgtaagtttgttcctgggggcagcaatgcacaaaatcaggaacacctcatg Alignment from Exonerate_protein2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACAT atattggttgaaatgctttgaatttattcatttctctactatttttccagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACTAgtaagtttgttcctgggggcagcaatgcacaaaatcaggaacacctcatg Alignment from Exonerate_coding2genome AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACAT atattggttgaaatgctttgaatttattcatttctctactatttttccagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACTAgtaagtttgttcctgggggcagcaatgcacaaaatcaggaacacctcatg Alignment from GeneWise AAAAGATTGAAAGCTGCTGAAGCAGACAGCAAACTGAAACAGGTCTACAT atattggttgaaatgctttgaatttattcatttctctactatttttccagAAAAGGTTAAAAGCTGCAGAAGCAGACAGCAAACTGAAACAGGTCTACTAgtaagtttgttcctgggggcagcaatgcacaaaatcaggaacacctcatg #### Mta2_ID2543_16 --> 2 - 0 Original Alignment tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gggaagattgggcaagatcttctatctctttctattccttttctctgcagtgGCTCAGGCACTTCTGAAGCCAAAAACACCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG---gtaaggagttggcagagtagattaaaagctgagcagggcaggcggttgtt Alignment from CESAR tgGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gggaagattgggcaagatcttctatctctttctattccttttctctgcagtgGCTCAGGCACTTCTGAAGCCAAAAACACCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG---gtaaggagttggcagagtagattaaaagctgagcagggcaggcggtt Alignment from Spaln_aa2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG gggaagattgggcaagatcttctatctctttctattccttttctctgcagTGGCTCAGGCACTTCTGAAGCCAAAAACACCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGgtaaggagttggcagagtagattaaaagctgagcagggcaggcggttgtt Alignment from Spaln_nt2Genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG gggaagattgggcaagatcttctatctctttctattccttttctctgcagTGGCTCAGGCACTTCTGAAGCCAAAAACACCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGgtaaggagttggcagagtagattaaaagctgagcagggcaggcggttgtt Alignment from Pairagon TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG gggaagattgggcaagatcttctatctctttctattccttttctctgcagTGGCTCAGGCACTTCTGAAGCCAAAAACACCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGgtaaggagttggcagagtagattaaaagctgagcagggcaggcggttgtt Alignment from Exonerate_protein2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gggaagattgggcaagatcttctatctctttctattccttttctctgcagTGGCTCAGGCACTTCTGAAGCCAAAAACACCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG---gtaaggagttggcagagtagattaaaagctgagcagggcaggcggtt Alignment from Exonerate_coding2genome TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gggaagattgggcaagatcttctatctctttctattccttttctctgcagTGGCTCAGGCACTTCTGAAGCCAAAAACACCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAG---gtaaggagttggcagagtagattaaaagctgagcagggcaggcggtt Alignment from GeneWise TGGCTCAGGCACCTCTGAAACCAAAAACACCTCGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTATGAGACT gggaagattgggcaagatcttctatctctttctattccttttctctgcagTGGCTCAGGCACTTCTGAAGCCAAAAACACCTAGGGGTACCAAGACACCAATCAACAGAAACCAGCTGACCCAGAATCGAGGCCTGGGGGGCATTATGGTGAAACGTTCCTAT---GAGgtaaggagttggcagagtagattaaaagctgagcagggcaggcggttgtt #### Mta2_ID2544_17 --> 0 - 2 Original Alignment ---ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag gggttttatgggtggtagttcctgcattaacatggcggtgttgcttgcagACTATGGCAGGAGCAGGGGTCCCCTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCaggtaagtagggagtctagcatgagaggctgaggtgctggcaatccaggtca Alignment from CESAR ---ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCag gggttttatgggtggtagttcctgcattaacatggcggtgttgcttgcagACTATGGCAGGAGCAGGGGTCCCCTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCaggtaagtagggagtctagcatgagaggctgaggtgctggcaatccaggtca Alignment from Spaln_aa2Genome ACTATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttttatgggtggtagttcctgcattaacatggcggtgttgcttgcagACTATGGCAGGAGCAGGGGTCCCCTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtaagtagggagtctagcatgagaggctgaggtgctggcaatccaggtca Alignment from Spaln_nt2Genome ACTATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttttatgggtggtagttcctgcattaacatggcggtgttgcttgcagACTATGGCAGGAGCAGGGGTCCCCTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtaagtagggagtctagcatgagaggctgaggtgctggcaatccaggtca Alignment from Pairagon ACTATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttttatgggtggtagttcctgcattaacatggcggtgttgcttgcagACTATGGCAGGAGCAGGGGTCCCCTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtaagtagggagtctagcatgagaggctgaggtgctggcaatccaggtca Alignment from Exonerate_protein2genome ACTATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttttatgggtggtagttcctgcattaacatggcggtgttgcttgcagACTATGGCAGGAGCAGGGGTCCCCTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtaagtagggagtctagcatgagaggctgaggtgctggcaatccaggtca Alignment from Exonerate_coding2genome ACTATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttttatgggtggtagttcctgcattaacatggcggtgttgcttgcagACTATGGCAGGAGCAGGGGTCCCCTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtaagtagggagtctagcatgagaggctgaggtgctggcaatccaggtca Alignment from GeneWise ---ATGGCAGGGGCAGGGGTCCCCTTCTCTGCCAATGGAAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCAGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAG gggttttatgggtggtagttcctgcattaacatggcggtgttgcttgcagACTATGGCAGGAGCAGGGGTCCCCTTCTCTGCCAATGGGAGGCCTCTGGCTTCAGGGATTCGTTCAAGCTCACAGCCCGCAGCCAAGCGTCAGAAACTAAACCCTGCTGATGCTCCCAATCCAGTGGTATTTGTGGCCACAAAGGACACCAGgtaagtagggagtctagcatgagaggctgaggtgctggcaatccaggtca #### Mus81_ID1042_14 --> 0 - 2 Original Alignment GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCag atgaaaagatcacccttcatactttcacatgacctttgtttatctcttag---------GTGCGAGAAGTATTTGCCCGGCAGCTAATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTGCCaggtgagttaccaagggcaaccaagaacctaatttaccacagccagtgctgc Alignment from CESAR GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCag gagtgacctatgaaaagatcaccctcacatgacctttgtttatctcttag---------GTGCGAGAAGTATTTGCCCGGCAGCTAATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTGCCaggtgagttaccaagggcaaccaagaacctaatttaccacagccagtgctgc Alignment from Spaln_aa2Genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaaaagatcacccttcatactttcacatgacctttgtttatctcttag---------GTGCGAGAAGTATTTGCCCGGCAGCTAATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTGCCAGgtgagttaccaagggcaaccaagaacctaatttaccacagccagtgctgc Alignment from Spaln_nt2Genome GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaaaagatcacccttcatactttcacatgacctttgtttatctcttag---------GTGCGAGAAGTATTTGCCCGGCAGCTAATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTGCCAGgtgagttaccaagggcaaccaagaacctaatttaccacagccagtgctgc Alignment from Pairagon GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaaaagatcacccttcatactttcacatgacctttgtttatctcttag---------GTGCGAGAAGTATTTGCCCGGCAGCTAATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTGCCAGgtgagttaccaagggcaaccaagaacctaatttaccacagccagtgctgc Alignment from Exonerate_protein2genome GTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaaaagatcacccttcatactttcacatgacctttgtttatctcttagGTGCGAGAAGTATTTGCCCGGCAGCTAATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTGCCAGgtgagttaccaagggcaaccaagaacctaatttaccacagccagtgctgc Alignment from Exonerate_coding2genome GTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaaaagatcacccttcatactttcacatgacctttgtttatctcttagGTGCGAGAAGTATTTGCCCGGCAGCTAATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTGCCAGgtgagttaccaagggcaaccaagaacctaatttaccacagccagtgctgc Alignment from GeneWise GCCCAGTCTGTGCGAGAAGTATTTGCCCGGCAGCTGATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCCGTGGTGGATCGATACAGCACCCCTGCCAG atgaaaagatcacccttcatactttcacatgacctttgtttatctcttagGTG---------CGAGAAGTATTTGCCCGGCAGCTAATGCAGGTGCGTGGACTGAGTGGGGAGAAGGCAGCAGCTGTGGTGGATCGATACAGCACCCCTGCCAGgtgagttaccaagggcaaccaagaacctaatttaccacagccagtgctgc #### Mus81_ID1044_12 --> 0 - 0 Original Alignment GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcagacctagcccaacttcctgcagGTCATTGATGGCTTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTT------------------------------gtagggagatgcctctattcaaagctggacgagttgttttcggcgctcgt Alignment from CESAR GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcagacctagcccaacttcctgcagGTCATTGATGGCTTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTT------------------------------gtagggagatgcctctattc Alignment from Spaln_aa2Genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGC------------CTGGAAAGACTGTACCAG acagaccatggcacagtctagtagctcagacctagcccaacttcctgcagGTCATTGATGGCTTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTGTAGGGAGATGCCTCTATTCAAAGCTGGACGAGTTGTTTTCGgcgctcgt Alignment from Spaln_nt2Genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTGGA---AAGACTGTACCA acagaccatggcacagtctagtagctcagacctagcccaacttcctgcagGTCATTGATGGCTTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTGTAGGGAGATGCCTCTATTCAAAGCTGGACGAgttgttttcggcgctcgt Alignment from Pairagon GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTT acagaccatggcacagtctagtagctcagacctagcccaacttcctgcagGTCATTGATGGCTTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTgtagggagatgcctctattcaaagctggacgagttgttttcggcgctcgt Alignment from Exonerate_protein2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTG---GAAAGACTGTACCAG acagaccatggcacagtctagtagctcagacctagcccaacttcctgcagGTCATTGATGGCTTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTGTAGGGAGATGCCTCTATTCAAAGCTGGACGAGttgttttcggcgctcgt Alignment from Exonerate_coding2genome GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTTTTGACAAAGGGCCTG---GAAAGACTGTACCAG acagaccatggcacagtctagtagctcagacctagcccaacttcctgcagGTCATTGATGGCTTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTGTAGGGAGATGCCTCTATTCAAAGCTGGACGAGttgttttcggcgctcgt Alignment from GeneWise GTCATTGATGGCTTTTTTGTGAAGCGAACCATGGATATTAAGGAGTCGGCTGGCTACCTGGCGCTT------------TTGACAAAGGGCCTGGAAAGACTGTACCAG------ acagaccatggcacagtctagtagctcagacctagcccaacttcctgcagGTCATTGATGGCTTTTTTGTAAAGCGAACCATGGATATTAAGGAGTCAGCTGGCTACCTGTCACTTGTAGGGAGATGCCTCTATTCAAAGCTGGACGAGTTGTTTTCGGCGCTCgt #### Mus81_ID1045_11 --> 0 - 0 Original Alignment TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG--------- gacatgtgggtatgtaggcctaaccatagaccatcttccccctcccacagTTTCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCGGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGTGCAGCCTGgtgagttggggggacaggacccagttggcagattctacagaccatggcac Alignment from CESAR TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG--------- gacatgtgggtatgtaggcctaaccatagaccatcttccccctcccacagTTTCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCGGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGTGCAGCCTGgtgagttggggggacaggacccagttggcagattctacagaccatggcac Alignment from Spaln_aa2Genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG--------- gacatgtgggtatgtaggcctaaccatagaccatcttccccctcccacagTTTCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCGGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGTGCAGCCTGgtgagttggggggacaggacccagttggcagattctacagaccatggcac Alignment from Spaln_nt2Genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCA gacatgtgggtatgtaggcctaaccatagaccatcttccccctcccacagTTTCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCGGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAgtgcagcctggtgagttggggggacaggacccagttggcagattctacagaccatggcac Alignment from Pairagon TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG--------- gacatgtgggtatgtaggcctaaccatagaccatcttccccctcccacagTTTCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCGGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGTGCAGCCTGgtgagttggggggacaggacccagttggcagattctacagaccatggcac Alignment from Exonerate_protein2genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG gacatgtgggtatgtaggcctaaccatagaccatcttccccctcccacagTTTCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCGGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGtgcagcctggtgagttggggggacaggacccagttggcagattctacagaccatggcac Alignment from Exonerate_coding2genome TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG gacatgtgggtatgtaggcctaaccatagaccatcttccccctcccacagTTTCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCGGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGtgcagcctggtgagttggggggacaggacccagttggcagattctacagaccatggcac Alignment from GeneWise TTCCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTTAGCCTTCCCGAGAGCACCTTGCTGCAGGCTGTCACAAACACCCAG--------- gacatgtgggtatgtaggcctaaccatagaccatcttccccctcccacagTTTCGCCTGAAGCGCTGTGGCCTGGGGCACCGGGTATACTTAGTGGAAGAACATGGGTCTGTCCACAACCTAAGCCTTCCGGAAAGCACCTTGTTGCAGGCTGTCACAAACACCCAGTGCAGCCTGgtgagttggggggacaggacccagttggcagattctacagaccatggcac #### Mus81_ID1046_10 --> 2 - 0 Original Alignment aaAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaaggcaagaaatgtttctttgttctcaattaagagAGACCTGGGGAGTTGGTCCTGGATCACATTGTGGAACGCAAGCGGCTAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGG---------gtgtgctagataggtgagtcaggccttgccccttgcatgcctcagcatag Alignment from CESAR aaAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaaggcaagaaatgtttctttgttctcaattaagagAGACCTGGGGAGTTGGTCCTGGATCACATTGTGGAACGCAAGCGGCTAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGG---------gtgtgctagataggtgagtcaggccttgccccttgcatgcc Alignment from Spaln_aa2Genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGG tattggaagagacagggaaggcaagaaatgtttctttgttctcaattaagAGAGACCTGGGGAGTTGGTCCTGGATCACATTGTGGAACGCAAGCGGCTAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGgtgtgctagataggtgagtcaggccttgccccttgcatgcctcagcatag Alignment from Spaln_nt2Genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGC---AGA-AG tattggaagagacagggaaggcaagaaatgtttctttgttctcaattaagAGAGACCTGGGGAGTTGGTCCTGGATCACATTGTGGAACGCAAGCGGCTAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGTGTGCTAGATAGgtgagtcaggccttgccccttgcatgcctcagcatag Alignment from Pairagon AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGG tattggaagagacagggaaggcaagaaatgtttctttgttctcaattaagAGAGACCTGGGGAGTTGGTCCTGGATCACATTGTGGAACGCAAGCGGCTAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGgtgtgctagataggtgagtcaggccttgccccttgcatgcctcagcatag Alignment from Exonerate_protein2genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaaggcaagaaatgtttctttgttctcaattaagAGAGACCTGGGGAGTTGGTCCTGGATCACATTGTGGAACGCAAGCGGCTAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGTGTGCTAGataggtgagtcaggccttgccccttgcatgcctcagcatag Alignment from Exonerate_coding2genome AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaaggcaagaaatgtttctttgttctcaattaagAGAGACCTGGGGAGTTGGTCCTGGATCACATTGTGGAACGCAAGCGGCTAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTTCGGGTGTGCTAGataggtgagtcaggccttgccccttgcatgcctcagcatag Alignment from GeneWise AAAGACCTGGGGAGCTGGTCCTGGACCACATTGTGGAACGCAAGCGGCTAGATGACCTATGCAGCAGCATCATTGACGGCCGCTTTCGGGAGCAGAAG tattggaagagacagggaaggcaagaaatgtttctttgttctcaattaagAGAGACCTGGGGAGTTGGTCCTGGATCACATTGTGGAACGCAAGCGGCTAGATGACCTCTGCAGCAGCATCATTGGTGGACGCTTT---------CGGgtgtgctagataggtgagtcaggccttgccccttgcatgcctcagcatag #### Mus81_ID1048_8 --> 1 - 2 Original Alignment tGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAgg cctggcactgaaggaaggctttatgccagcttatcttcctgttgctgcagt---ACCACTGAGGGGGCTGTCCAGCAAAGGTCACTGGAGTTGAGGCCTAGCGTGTACAGAGTGTTGTTGTGTGTGGACATTGGTGAAACCAGAgggtaagaaaacagggggaactgtgaaagtgacttcaatgggcttaccagta Alignment from CESAR tGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAgg ccacctggcactgaaggaaggctttccagcttatcttcctgttgctgcagt---ACCACTGAGGGGGCTGTCCAGCAAAGGTCACTGGAGTTGAGGCCTAGCGTGTACAGAGTGTTGTTGTGTGTGGACATTGGTGAAACCAGAgggtaagaaaacagggggaactgtgaaagtgacttcaatgggcttaccagta Alignment from Spaln_aa2Genome TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG cctggcactgaaggaaggctttatgccagcttatcttcctgttgctgcagT---ACCACTGAGGGGGCTGTCCAGCAAAGGTCACTGGAGTTGAGGCCTAGCGTGTACAGAGTGTTGTTGTGTGTGGACATTGGTGAAACCAGAGGgtaagaaaacagggggaactgtgaaagtgacttcaatgggcttaccagta Alignment from Spaln_nt2Genome TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG cctggcactgaaggaaggctttatgccagcttatcttcctgttgctgcagT---ACCACTGAGGGGGCTGTCCAGCAAAGGTCACTGGAGTTGAGGCCTAGCGTGTACAGAGTGTTGTTGTGTGTGGACATTGGTGAAACCAGAGGgtaagaaaacagggggaactgtgaaagtgacttcaatgggcttaccagta Alignment from Pairagon TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG cctggcactgaaggaaggctttatgccagcttatcttcctgttgctgcagT---ACCACTGAGGGGGCTGTCCAGCAAAGGTCACTGGAGTTGAGGCCTAGCGTGTACAGAGTGTTGTTGTGTGTGGACATTGGTGAAACCAGAGGgtaagaaaacagggggaactgtgaaagtgacttcaatgggcttaccagta Alignment from Exonerate_protein2genome TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG cctggcactgaaggaaggctttatgccagcttatcttcctgttgctgCAGTACCACTGAGGGGGCTGTCCAGCAAAGGTCACTGGAGTTGAGGCCTAGCGTGTACAGAGTGTTGTTGTGTGTGGACATTGGTGAAACCAGAGGgtaagaaaacagggggaactgtgaaagtgacttcaatgggcttaccagta Alignment from Exonerate_coding2genome TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG cctggcactgaaggaaggctttatgccagcttatcttcctgttgctgCAGTACCACTGAGGGGGCTGTCCAGCAAAGGTCACTGGAGTTGAGGCCTAGCGTGTACAGAGTGTTGTTGTGTGTGGACATTGGTGAAACCAGAGGgtaagaaaacagggggaactgtgaaagtgacttcaatgggcttaccagta Alignment from GeneWise TGGCACCACCGAGGGGGCCGTCCAGCAGAGACCACTGGAGCTAAGGCCTAGCGAGTACAGAGTGCTGTTGTGTGTGGACATTGGCGAAACCAGAGG cctggcactgaaggaaggctttatgccagcttatcttcctgttgctgcagT---ACCACTGAGGGGGCTGTCCAGCAAAGGTCACTGGAGTTGAGGCCTAGCGTGTACAGAGTGTTGTTGTGTGTGGACATTGGTGAAACCAGAGGgtaagaaaacagggggaactgtgaaagtgacttcaatgggcttaccagta #### Mus81_ID1051_5 --> 0 - 0 Original Alignment AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gggttacacagtcacacatggagcccatacctgtttgtcctggtctccagAATTCTGATGGTCACAGCTTCCTAACAAAAGAGGAGCTGCTGCAGAAATGTGCCCAGAAAGCCCCCAGGGCCGGCgtaagcatcttccaaaagggggaaggtatatcccataacagctctccctc Alignment from CESAR AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gggttacacagtcacacatggagcccatacctgtttgtcctggtctccagAATTCTGATGGTCACAGCTTCCTAACAAAAGAGGAGCTGCTGCAGAAATGTGCCCAGAAAGCCCCCAGGGCCGGCgtaagcatcttccaaaagggggaaggtatatcccataacagctctccctc Alignment from Spaln_aa2Genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gggttacacagtcacacatggagcccatacctgtttgtcctggtctccagAATTCTGATGGTCACAGCTTCCTAACAAAAGAGGAGCTGCTGCAGAAATGTGCCCAGAAAGCCCCCAGGgccggcgtaagcatcttccaaaagggggaaggtatatcccataacagctctccctc Alignment from Spaln_nt2Genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gggttacacagtcacacatggagcccatacctgtttgtcctggtctccagAATTCTGATGGTCACAGCTTCCTAACAAAAGAGGAGCTGCTGCAGAAATGTGCCCAGAAAGCCCCCAGGgccggcgtaagcatcttccaaaagggggaaggtatatcccataacagctctccctc Alignment from Pairagon AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gggttacacagtcacacatggagcccatacctgtttgtcctggtctccagAATTCTGATGGTCACAGCTTCCTAACAAAAGAGGAGCTGCTGCAGAAATGTGCCCAGAAAGCCCCCAGGGCCGGCgtaagcatcttccaaaagggggaaggtatatcccataacagctctccctc Alignment from Exonerate_protein2genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gggttacacagtcacacatggagcccatacctgtttgtcctggtctccagAATTCTGATGGTCACAGCTTCCTAACAAAAGAGGAGCTGCTGCAGAAATGTGCCCAGAAAGCCCCCAGGgccggcgtaagcatcttccaaaagggggaaggtatatcccataacagctctccctc Alignment from Exonerate_coding2genome AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG gggttacacagtcacacatggagcccatacctgtttgtcctggtctccagAATTCTGATGGTCACAGCTTCCTAACAAAAGAGGAGCTGCTGCAGAAATGTGCCCAGAAAGCCCCCAGGgccggcgtaagcatcttccaaaagggggaaggtatatcccataacagctctccctc Alignment from GeneWise AATTCTGATGGCCACAGCTTCCTAACCAAAGAGGAGCTGCTGCAGAAGTGTGCCCAGAAGACCCCCAGG------ gggttacacagtcacacatggagcccatacctgtttgtcctggtctccagAATTCTGATGGTCACAGCTTCCTAACAAAAGAGGAGCTGCTGCAGAAATGTGCCCAGAAAGCCCCCAGGGCCGGCgtaagcatcttccaaaagggggaaggtatatcccataacagctctccctc #### Mus81_ID1054_2 --> 0 - 1 Original Alignment ---GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCg gatgtgtggatcttagttagacaagctctctgtattcttaaccaccccagGTTGCATTGCGCTCCCTGCAACAGTACCCACTACCTTTGCGCAGTGGGAGGGAAGCTAAGATACTCCAGCACTTTGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTggtaagcacctcatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from CESAR ---GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCg gatgtgtggatcttagttagacaagctctctgtattcttaaccaccccagGTTGCATTGCGCTCCCTGCAACAGTACCCACTACCTTTGCGCAGTGGGAGGGAAGCTAAGATACTCCAGCACTTTGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTggtaagcacctcatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Spaln_aa2Genome GCATTGCGCTCC---CTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG gatgtgtggatcttagttagacaagctctctgtattcttaaccaccccagGTTGCATTGCGCTCCCTGCAACAGTACCCACTACCTTTGCGCAGTGGGAGGGAAGCTAAGATACTCCAGCACTTTGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtaagcacctcatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Spaln_nt2Genome GCATTGCGCT---CCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG gatgtgtggatcttagttagacaagctctctgtattcttaaccaccccagGTTGCATTGCGCTCCCTGCAACAGTACCCACTACCTTTGCGCAGTGGGAGGGAAGCTAAGATACTCCAGCACTTTGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtaagcacctcatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Pairagon ---GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG gatgtgtggatcttagttagacaagctctctgtattcttaaccaccccagGTTGCATTGCGCTCCCTGCAACAGTACCCACTACCTTTGCGCAGTGGGAGGGAAGCTAAGATACTCCAGCACTTTGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtaagcacctcatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Exonerate_protein2genome ---GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG gatgtgtggatcttagttagacaagctctctgtattcttaaccaccccagGTTGCATTGCGCTCCCTGCAACAGTACCCACTACCTTTGCGCAGTGGGAGGGAAGCTAAGATACTCCAGCACTTTGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtaagcacctcatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from Exonerate_coding2genome ---GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG gatgtgtggatcttagttagacaagctctctgtattcttaaccaccccagGTTGCATTGCGCTCCCTGCAACAGTACCCACTACCTTTGCGCAGTGGGAGGGAAGCTAAGATACTCCAGCACTTTGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtaagcacctcatggtggtctcctgactctctcaggtgcacactgtgtct Alignment from GeneWise ---GCATTGCGCTCCCTCCAACGGTACCCGCTACCATTGCGCAGCGGGAAGGAAGCCAAGATACTCCAGCACTTCGGAGACAGGCTCTGCCGCATGCTGGACGAAAAGCTGAAGCAGCACCTAGCATCAGGCG gatgtgtggatcttagttagacaagctctctgtattcttaaccaccccagGTTGCATTGCGCTCCCTGCAACAGTACCCACTACCTTTGCGCAGTGGGAGGGAAGCTAAGATACTCCAGCACTTTGGAGACAGGCTCTGCCGCATGCTGGACAAAAAGCTGAAGCAGCACCTAGCATCAGGTGgtaagcacctcatggtggtctcctgactctctcaggtgcacactgtgtct #### Myrf_ID2721_16 --> 1 - 0 Original Alignment c---------------------------------------CATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG gaggtgggggaggtgagcctgcctttcaacttttttttaccccaatgcagcGACCCCAAAGGACTTATGTTAACCCATGAAATCCTCATTCATGCAGGGAGTGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCACCTAAACTGGCCAATAAGgtaagtctgtacaagggcaggaggcttcctactcacctgctggttctttc Alignment from CESAR ggtaggaactttcagtggtttgattggtacactatacatggattttcaagc Alignment from Spaln_aa2Genome GGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG gaggtgggggaggtgagcctgcctttcaacttttttttaccccaatgcagcgaccccaaaggacttatgttaacccatgaaatcctcattcatgcagGGAGTGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCACCTAAACTGGCCAATAAGgtaagtctgtacaagggcaggaggcttcctactcacctgctggttctttc Alignment from Spaln_nt2Genome GGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG gaggtgggggaggtgagcctgcctttcaacttttttttaccccaatgcagcgaccccaaaggacttatgttaacccatgaaatcctcattcatgcagGGAGTGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCACCTAAACTGGCCAATAAGgtaagtctgtacaagggcaggaggcttcctactcacctgctggttctttc Alignment from Pairagon C---------------------------------------CATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG gaggtgggggaggtgagcctgcctttcaacttttttttaccccaatgcagCGACCCCAAAGGACTTATGTTAACCCATGAAATCCTCATTCATGCAGGGAGTGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCACCTAAACTGGCCAATAAGgtaagtctgtacaagggcaggaggcttcctactcacctgctggttctttc Alignment from Exonerate_protein2genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG gaggtgggggaggtgagcctgcctttcaacttttttttaccccaatgcagcgaccccaaaggacttatgttaacccatgaaatcctcatTCATGCAGGGAGTGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCACCTAAACTGGCCAATAAGgtaagtctgtacaagggcaggaggcttcctactcacctgctggttctttc Alignment from Exonerate_coding2genome CCATGCAGGGAGCCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG gaggtgggggaggtgagcctgcctttcaacttttttttaccccaatgcagcgaccccaaaggacttatgttaacccatgaaatcctcatTCATGCAGGGAGTGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCACCTAAACTGGCCAATAAGgtaagtctgtacaagggcaggaggcttcctactcacctgctggttctttc Alignment from GeneWise CCAGTTTAGCCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCCCCTAAACTGGCCAATAAG gaggtgggggaggtgagcctgcctttcaacttttttttaccccaatgcagcgaccccaaaggacttatgttaacccatgaaatcctcattcatgcagggagTGAATTTAGTCGGGCAGGCAGTGTCCCCCACAAAAAGAGGCCACCTAAACTGGCCAATAAGgtaagtctgtacaagggcaggaggcttcctactcacctgctggttctttc #### Myrf_ID2722_15 --> 0 - 2 Original Alignment GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTC---------------------ag gtacattgagtaatcaatggtaccctcagtgtatgttattgccttaacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCCGTCCTACTCCAGCTGGATGCaggtaagtgtgccaggcaggtgggtgggggtgggggagatgggttgaaggag Alignment from CESAR GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTC---------------------ag gtacattgagtaatcaatggtaccctcagtgtatgttattgccttaacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCCGTCCTACTCCAGCTGGATGCaggtaagtgtgccaggcaggtgggtgggggtgggggagatgggttgaaggag Alignment from Spaln_aa2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCAGC-------------------- gtacattgagtaatcaatggtaccctcagtgtatgttattgccttaacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCCGTCCTACTCCAGCTGGATGCAGgtaagtgtgccaggcaggtgggtgggggtgggggagatgggttgaaggag Alignment from Spaln_nt2Genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCA gtacattgagtaatcaatggtaccctcagtgtatgttattgccttaacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCCgtcctactccagctggatgcaggtaagtgtgccaggcaggtgggtgggggtgggggagatgggttgaaggag Alignment from Pairagon GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTT---------------------CAG gtacattgagtaatcaatggtaccctcagtgtatgttattgccttaacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCCGTCCTACTCCAGCTGGATGCAGgtaagtgtgccaggcaggtgggtgggggtgggggagatgggttgaaggag Alignment from Exonerate_protein2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCT gtacattgagtaatcaatggtaccctcagtgtatgttattgccttaacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTttccgtcctactccagctggatgcaggtaagtgtgccaggcaggtgggtgggggtgggggagatgggttgaaggag Alignment from Exonerate_coding2genome GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCT gtacattgagtaatcaatggtaccctcagtgtatgttattgccttaacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTttccgtcctactccagctggatgcaggtaagtgtgccaggcaggtgggtgggggtgggggagatgggttgaaggag Alignment from GeneWise GAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTC---------------------AG gtacattgagtaatcaatggtaccctcagtgtatgttattgccttaacagGAGCGAATCTTCATGGAGAATGTGGGGGCTGTGAAGGAGTTATGCAAACTGACAGACAACCTAGAGACTCGCATTGATGAGTTGGAGCGATGGAGCCACAAGCTGGCCAAGCTGCGGCGCCTTGACAGCCTCAAGTCAACTGGCAGCTCAGGGGCTTTCCGTCCTACTCCAGCTGGATGCAGgtaagtgtgccaggcaggtgggtgggggtgggggagatgggttgaaggag #### Naa40_ID2073_7 --> 1 - 2 Original Alignment cACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGca aatgagcactgactatgtctctaaaatgcagtgtttttgtattattctagcACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGTGCCTATCAGTTCTTCCAGGAGACA---cagtatgagccaataagacctaggtgtggtgcctcaaggtggtgagggaagt Alignment from CESAR cACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGca aatgagcactgactatgtctctaaaatgcagtgtttttgtattattctagcACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGTGCCTATCAGTTCTTCCAGGAGACA---cagtatgagccaataagacctaggtgtggtgcctcaaggtggtgagggaagt Alignment from Spaln_aa2Genome CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACT aatgagcactgactatgtctctaaaatgcagtgtttttgtattattctagCACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGTGCCTATCAGTTCTTCCAGGAGACACAgtatgagccaataagacctaggtgtggtgcctcaaggtggtgagggaagt Alignment from Spaln_nt2Genome CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACT GCA aatgagcactgactatgtctctaaaatgcagtgtttttgtattattctagCACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGTGCCTATCAGTTCTTCCAGGAGACACAgtatgagccaataagacctaggtgtggtgcctcaagGTGgtgagggaagt Alignment from Pairagon CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aatgagcactgactatgtctctaaaatgcagtgtttttgtattattctagCACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGTGCCTATCAGTTCTTCCAGGAGACA---CAgtatgagccaataagacctaggtgtggtgcctcaaggtggtgagggaagt Alignment from Exonerate_protein2genome CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aatgagcactgactatgtctctaaaatgcagtgtttttgtattattctagCACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGTGCCTATCAGTTCTTCCAGGAGACA---CAgtatgagccaataagacctaggtgtggtgcctcaaggtggtgagggaagt Alignment from Exonerate_coding2genome CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACTGCA aatgagcactgactatgtctctaaaatgcagtgtttttgtattattctagCACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGTGCCTATCAGTTCTTCCAGGAGACA---CAgtatgagccaataagacctaggtgtggtgcctcaaggtggtgagggaagt Alignment from GeneWise CACACAGATGAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGCGCCTATCAGTTCTTCCGAGAGGCACT aatgagcactgactatgtctctaaaatgcagtgtttttgtattattctagCACACAGAGAAAGAAGGTGATGTTAACTGTTTTTAAACATAATCATGGTGCCTATCAGTTCTTCCAGGAGACACAgtatgagccaataagacctaggtgtggtgcctcaaggtggtgagggaagt #### Naa40_ID2074_6 --> 1 - 2 Original Alignment cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---------------------ag caggctcctttattgggtctaagcactcgatcccggccctgctctcccagcTATGAAGTACAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACATTGTTGGTGAAGCAGATGAAaggtgagtagcttttacactaccgggggaaagaacttgctgaggaggtgggt Alignment from CESAR cTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---------------------ag caggctcctttattgggtctaagcactcgatcccggccctgctctcccagcTATGAAGTACAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACATTGTTGGTGAAGCAGATGAAaggtgagtagcttttacactaccgggggaaagaacttgctgaggaggtgggt Alignment from Spaln_aa2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAGC-------------------- caggctcctttattgggtctaagcactcgatcccggccctgctctcccagCTATGAAGTACAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACATTGTTGGTGAAGCAGATGAAAGgtgagtagcttttacactaccgggggaaagaacttgctgaggaggtgggt Alignment from Spaln_nt2Genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAACAG- caggctcctttattgggtctaagcactcgatcccggccctgctctcccagCTATGAAGTACAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACATTgttggtgaagcagatgaaaggtgagtagcttttacactaccgggggaaagaacttgctgaggaggtgggt Alignment from Pairagon CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---------------------AG caggctcctttattgggtctaagcactcgatcccggccctgctctcccagCTATGAAGTACAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACATTGTTGGTGAAGCAGATGAAAGgtgagtagcttttacactaccgggggaaagaacttgctgaggaggtgggt Alignment from Exonerate_protein2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC caggctcctttattgggtctaagcactcgatcccggccctgctctcccagCTATGAAGTACAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACattgttggtgaagcagatgaaaggtgagtagcttttacactaccgggggaaagaacttgctgaggaggtgggt Alignment from Exonerate_coding2genome CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC caggctcctttattgggtctaagcactcgatcccggccctgctctcccagCTATGAAGTACAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACattgttggtgaagcagatgaaaggtgagtagcttttacactaccgggggaaagaacttgctgaggaggtgggt Alignment from GeneWise CTATGAAGTGCAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTCCTCATTCAGATCCTGCAGCTCATGGCCAAC---------------------AG caggctcctttattgggtctaagcactcgatcccggccctgctctcccagCTATGAAGTACAGCTGGAAAGCAAGGTACGGCGGAAAGGCCTAGGGAAGTTTCTCATTCAGATCCTCCAGCTCATGGCCAACATTGTTGGTGAAGCAGATGAAAGgtgagtagcttttacactaccgggggaaagaacttgctgaggaggtgggt #### Naa40_ID2075_5 --> 1 - 2 Original Alignment g------TATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg taaatagctgtcttcagaggtccctgtctctttcttctcccctcactcaggACCCGTTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCTTGTACtggtgagtacttacgccaacagtggggtagagcggaggaagaggaggaagct Alignment from CESAR g------TATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACtg taaatagctgtcttcagaggtccctgtctctttcttctcccctcactcaggACCCGTTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCTTGTACtggtgagtacttacgccaacagtggggtagagcggaggaagaggaggaagct Alignment from Spaln_aa2Genome GTATGAGCAA------AGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG taaatagctgtcttcagaggtccctgtctctttcttctcccctcactcagGACCCGTTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCTTGTACTGgtgagtacttacgccaacagtggggtagagcggaggaagaggaggaagct Alignment from Spaln_nt2Genome GTATGAGCAAAG------TGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG taaatagctgtcttcagaggtccctgtctctttcttctcccctcactcagGACCCGTTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCTTGTACTGgtgagtacttacgccaacagtggggtagagcggaggaagaggaggaagct Alignment from Pairagon ---------------------------------------------------------TATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG TAAATAGCTGTCTTCAGAGGTCCCTGTCTCTTTCTTCTCCCCTCACTCAGGACCCGTTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCTTGTACTGgtgagtacttacgccaacagtggggtagagcggaggaagaggaggaagct Alignment from Exonerate_protein2genome G------TATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG taaatagctgtcttcagaggtccctgtctctttcttctcccctcactcagGACCCGTTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCTTGTACTGgtgagtacttacgccaacagtggggtagagcggaggaagaggaggaagct Alignment from Exonerate_coding2genome G------TATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG taaatagctgtcttcagaggtccctgtctctttcttctcccctcactcagGACCCGTTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCTTGTACTGgtgagtacttacgccaacagtggggtagagcggaggaagaggaggaagct Alignment from GeneWise ----ATGTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGAGAAAAACGGGAGGAAATGACCGATGACCGAGCCTGGTACCTCATTGCTTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCCTGTACTG taaatagctgtcttcagaggtccctgtctctttcttctcccctcactcagGACCCGTTATGAGCAAAGTGAGTGGGGCTGGAAGGACCGGGAAAAGCGGGAGGAAATGACTGATGATCGTGCCTGGTACCTCATTGCGTGGGAAAACAGTTCCATCCCAGTTGCCTTTTCTCACTTCCGGTTTGATGTGGAGTGCGGGGATGAAGTCTTGTACTGgtgagtacttacgccaacagtggggtagagcggaggaagaggaggaagct #### Naaladl1_ID1443_2 --> 1 - 1 Original Alignment a---------------------------GAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg agtcagaggcttccactaatagattttattgctcttccctatcaccacagaGGGTCATTCCTCTTGTTTGCAGATGTAGAACTCTCGAAGGAACCACATGTGGCCACCAGCCCTCGGGATGAAGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCTTTCCCCAATGCAGAGCAGCCTAACAGTGTGGAAGTTggtgagctcaagtccaggaatgtcagggggggaaggccattcatggctctg Alignment from CESAR a----GAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCg gctcaaacaagtccctgttagctagtcagaggcttccactaatagattagagggtcattcctcttgtttgcagaTGTAGAACTCTCGAAGGAACCACATGTGGCCACCAGCCCTCGGGATGAAGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCTTTCCCCAATGCAGAGCAGCCTAACAGTGTGGAAGTTggtgagctcaagtccaggaatgtcagggggggaaggttttctctttcatgt Alignment from Spaln_aa2Genome A----------------------------GAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG agtcagaggcttccactaatagattttattgctcttccctatcaccacagAGGGTCATTCCTCTTGTTTGCAGATGTAGAACTCTCGAAGGAACCACATGTGGCCACCAGCCCTCGGGATGAAGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCTTTCCCCAATGCAGAGCAGCCTAACAGTGTGGAAGTTGgtgagctcaagtccaggaatgtcagggggggaaggccattcatggctctg Alignment from Spaln_nt2Genome AGAACTCTC----CAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG agtcagaggcttccactaatagattttattgctcttccctatcaccacagagggtcattcctcttgtttgcagATGTAGAACTCTCGAAGGAACCACATGTGGCCACCAGCCCTCGGGATGAAGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCTTTCCCCAATGCAGAGCAGCCTAACAGTGTGGAAGTTGgtgagctcaagtccaggaatgtcagggggggaaggccattcatggctctg Alignment from Pairagon ----AGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG agtcagaggcttccactaatagattttattgctcttccctatcaccacagagggtcattcctcttgtttgcagATGTAGAACTCTCGAAGGAACCACATGTGGCCACCAGCCCTCGGGATGAAGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCTTTCCCCAATGCAGAGCAGCCTAACAGTGTGGAAGTTGgtgagctcaagtccaggaatgtcagggggggaaggccattcatggctctg Alignment from Exonerate_protein2genome A----GAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG agtcagaggcttccactaatagattttattgctcttccctatcaccacagagggtcattcctcttgtttgcagATGTAGAACTCTCGAAGGAACCACATGTGGCCACCAGCCCTCGGGATGAAGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCTTTCCCCAATGCAGAGCAGCCTAACAGTGTGGAAGTTGgtgagctcaagtccaggaatgtcagggggggaaggccattcatggctctg Alignment from Exonerate_coding2genome A----GAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTCG agtcagaggcttccactaatagattttattgctcttccctatcaccacagagggtcattcctcttgtttgcagATGTAGAACTCTCGAAGGAACCACATGTGGCCACCAGCCCTCGGGATGAAGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCTTTCCCCAATGCAGAGCAGCCTAACAGTGTGGAAGTTGgtgagctcaagtccaggaatgtcagggggggaaggccattcatggctctg Alignment from GeneWise -------------------------CGAGAACTCTCCAAGGAACCACACGTGGCCACCAGCCCTCGGGACGAAGCCCTGGTGCAGCTGCTGCTGGGGCGCTGGAAGGATACAGCGACTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCCTTCCCCAACGCAGAGCAGCCTAACAGCGTGGAAGTC--------------------------------------------------- agtcagaggcttccactaatagattttattgctcttccctatcaccacagAGGGTCATTCCTCTTGTTTGCAGATGTAGAACTCTCGAAGGAACCACATGTGGCCACCAGCCCTCGGGATGAAGCCCTGGTTCAGCTGCTGCTGGGGCGTTGGAAGGATACAGCACCTGGGCTGGACTCAGCCAAGACCTATGAGTATAGGGTCCTGCTCTCTTTCCCCAATGCAGAGCAGCCTAACAGTGTGGAAGTTGGTGAGCTCAAGTCCAGGAATGTCAGGGGGGGAAGGCCATTCATGGCTCTG #### Naaladl1_ID1447_6 --> 1 - 2 Original Alignment tAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag caattgcaggtaccgaaaccgcccttgcttttttttttttcttcccacagt---CTCACGGGAACCTCTGCCCCTGCTTTCTGGCAGGGGGCCCTAGGCTGTGAGTACAAGCTAGGACCTGGATTTGAGCCGAATGGAAGCTTCCCTGCTGGGaggtgggtcaggacatcttttaccattcctttcccctcttgttgatttgtct Alignment from CESAR tAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGag ggacaattgcaggtaccgaaaccgctgcttttttttttttcttcccacagt---CTCACGGGAACCTCTGCCCCTGCTTTCTGGCAGGGGGCCCTAGGCTGTGAGTACAAGCTAGGACCTGGATTTGAGCCGAATGGAAGCTTCCCTGCTGGGaggtgggtcaggacatcttttaccattcctttcccctcttgttgatttgtct Alignment from Spaln_aa2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG caattgcaggtaccgaaaccgcccttgcttttttttttttcttcccacagT---CTCACGGGAACCTCTGCCCCTGCTTTCTGGCAGGGGGCCCTAGGCTGTGAGTACAAGCTAGGACCTGGATTTGAGCCGAATGGAAGCTTCCCTGCTGGGAGgtgggtcaggacatcttttaccattcctttcccctcttgttgatttgtct Alignment from Spaln_nt2Genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG caattgcaggtaccgaaaccgcccttgcttttttttttttcttcccacagT---CTCACGGGAACCTCTGCCCCTGCTTTCTGGCAGGGGGCCCTAGGCTGTGAGTACAAGCTAGGACCTGGATTTGAGCCGAATGGAAGCTTCCCTGCTGGGAGgtgggtcaggacatcttttaccattcctttcccctcttgttgatttgtct Alignment from Pairagon TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG caattgcaggtaccgaaaccgcccttgcttttttttttttcttcccacagT---CTCACGGGAACCTCTGCCCCTGCTTTCTGGCAGGGGGCCCTAGGCTGTGAGTACAAGCTAGGACCTGGATTTGAGCCGAATGGAAGCTTCCCTGCTGGGAGgtgggtcaggacatcttttaccattcctttcccctcttgttgatttgtct Alignment from Exonerate_protein2genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG caattgcaggtaccgaaaccgcccttgcttttttttttttcttcccaCAGTCTCACGGGAACCTCTGCCCCTGCTTTCTGGCAGGGGGCCCTAGGCTGTGAGTACAAGCTAGGACCTGGATTTGAGCCGAATGGAAGCTTCCCTGCTGGGAGgtgggtcaggacatcttttaccattcctttcccctcttgttgatttgtct Alignment from Exonerate_coding2genome TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG caattgcaggtaccgaaaccgcccttgcttttttttttttcttcccaCAGTCTCACGGGAACCTCTGCCCCTGCTTTCTGGCAGGGGGCCCTAGGCTGTGAGTACAAGCTAGGACCTGGATTTGAGCCGAATGGAAGCTTCCCTGCTGGGAGgtgggtcaggacatcttttaccattcctttcccctcttgttgatttgtct Alignment from GeneWise TAACCTCACCGGAACCTCTGCCCCTGCCTTCTGGCAGGGGGCCCTGGGCTGTGAGTACAAGCTGGGACCCGGCTTTGAGCCGAATGGAAGCTTCCCTGCTGGGAG caattgcaggtaccgaaaccgcccttgcttttttttttttcttcccacagT---CTCACGGGAACCTCTGCCCCTGCTTTCTGGCAGGGGGCCCTAGGCTGTGAGTACAAGCTAGGACCTGGATTTGAGCCGAATGGAAGCTTCCCTGCTGGGAGgtgggtcaggacatcttttaccattcctttcccctcttgttgatttgtct #### Naaladl1_ID1451_10 --> 0 - 1 Original Alignment ---------GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCt ggtggtggattgatgtcacttgtcctgccgaatgtttgtctgtctttcagGGTACTCTTGAGTTTCTCAGCAAGCTGCAAGAGCGCACAGTGGACTATATCAATGTGGACATCTCTGTTTTTtgtaacgcagggttggccagctgggctcaggctgggaaggggacgggttag Alignment from CESAR ---------GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCt ggtggtggattgatgtcacttgtcctgccgaatgtttgtctgtctttcagGGTACTCTTGAGTTTCTCAGCAAGCTGCAAGAGCGCACAGTGGACTATATCAATGTGGACATCTCTGTTTTTtgtaacgcagggttggccagctgggctcaggctgggaaggggacgggttag Alignment from Spaln_aa2Genome GAGTTTCTC---------AGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT ggtggtggattgatgtcacttgtcctgccgaatgtttgtctgtctttcagGGTACTCTTGAGTTTCTCAGCAAGCTGCAAGAGCGCACAGTGGACTATATCAATGTGGACATCTCTGTTTTTTgtaacgcagggttggccagctgggctcaggctgggaaggggacgggttag Alignment from Spaln_nt2Genome GAGTTTCTCA---------GCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT ggtggtggattgatgtcacttgtcctgccgaatgtttgtctgtctttcagGGTACTCTTGAGTTTCTCAGCAAGCTGCAAGAGCGCACAGTGGACTATATCAATGTGGACATCTCTGTTTTTTgtaacgcagggttggccagctgggctcaggctgggaaggggacgggttag Alignment from Pairagon ---------GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT ggtggtggattgatgtcacttgtcctgccgaatgtttgtctgtctttcagGGTACTCTTGAGTTTCTCAGCAAGCTGCAAGAGCGCACAGTGGACTATATCAATGTGGACATCTCTGTTTTTTgtaacgcagggttggccagctgggctcaggctgggaaggggacgggttag Alignment from Exonerate_protein2genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT ggtggtggattgatgtcacttgtcctgccgaatgtttgtctgtctttcagggtactcttGAGTTTCTCAGCAAGCTGCAAGAGCGCACAGTGGACTATATCAATGTGGACATCTCTGTTTTTTgtaacgcagggttggccagctgggctcaggctgggaaggggacgggttag Alignment from Exonerate_coding2genome GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT ggtggtggattgatgtcacttgtcctgccgaatgtttgtctgtctttcagggtactcttGAGTTTCTCAGCAAGCTGCAAGAGCGCACAGTGGACTATATCAATGTGGACATCTCTGTTTTTTgtaacgcagggttggccagctgggctcaggctgggaaggggacgggttag Alignment from GeneWise ---------GAGTTTCTCAGCAAGCTGCAGGAGCGCACGGTGGCCTACATCAATGTGGACATCTCTGTTTTCT ggtggtggattgatgtcacttgtcctgccgaatgtttgtctgtctttcagGGTACTCTTGAGTTTCTCAGCAAGCTGCAAGAGCGCACAGTGGACTATATCAATGTGGACATCTCTGTTTTTTgtaacgcagggttggccagctgggctcaggctgggaaggggacgggttag #### Naaladl1_ID1452_11 --> 2 - 0 Original Alignment ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG------ gggaaggggacgggttagctgtcagcagagctgtttttctccaatgccagccAATGCTACTCTCCAGGCCCAGGGAACACCACCTGTACAAAGTGTACTATTCTCTTCAACCAAAGATCTTAATgtaaggaggtgatgttcaaaggtatagggggggactatgtaatataggtt Alignment from CESAR ccAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG------ gggaaggggacgggttagctgtcagcagagctgtttttctccaatgccagccAATGCTACTCTCCAGGCCCAGGGAACACCACCTGTACAAAGTGTACTATTCTCTTCAACCAAAGATCTTAATgtaaggaggtgatgttcaaaggtatagggggggactatgtaatataggtt Alignment from Spaln_aa2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG------ gggaaggggacgggttagctgtcagcagagctgtttttctccaatgccagCCAATGCTACTCTCCAGGCCCAGGGAACACCACCTGTACAAAGTGTACTATTCTCTTCAACCAAAGATCTTAATgtaaggaggtgatgttcaaaggtatagggggggactatgtaatataggtt Alignment from Spaln_nt2Genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG------ gggaaggggacgggttagctgtcagcagagctgtttttctccaatgccagCCAATGCTACTCTCCAGGCCCAGGGAACACCACCTGTACAAAGTGTACTATTCTCTTCAACCAAAGATCTTAATgtaaggaggtgatgttcaaaggtatagggggggactatgtaatataggtt Alignment from Pairagon CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG------ gggaaggggacgggttagctgtcagcagagctgtttttctccaatgccagCCAATGCTACTCTCCAGGCCCAGGGAACACCACCTGTACAAAGTGTACTATTCTCTTCAACCAAAGATCTTAATgtaaggaggtgatgttcaaaggtatagggggggactatgtaatataggtt Alignment from Exonerate_protein2genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gggaaggggacgggttagctgtcagcagagctgtttttctccaatgccagCCAATGCTACTCTCCAGGCCCAGGGAACACCACCTGTACAAAGTGTACTATTCTCTTCAACCAAAGATcttaatgtaaggaggtgatgttcaaaggtatagggggggactatgtaatataggtt Alignment from Exonerate_coding2genome CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAG gggaaggggacgggttagctgtcagcagagctgtttttctccaatgccagCCAATGCTACTCTCCAGGCCCAGGGAACACCACCTGTACAAAGTGTACTATTCTCTTCAACCAAAGATcttaatgtaaggaggtgatgttcaaaggtatagggggggactatgtaatataggtt Alignment from GeneWise CCAATGCTACCCTCCGGGCACAGGGAACACCTCCTGTACAAAGTGTGATCTTCTCTGCCACCAAAGAGATC--- gggaaggggacgggttagctgtcagcagagctgtttttctccaatgccagCCAATGCTACTCTCCAGGCCCAGGGAACACCACCTGTACAAAGTGTACTATTCTCTTCAACCAAAGATCTTAATgtaaggaggtgatgttcaaaggtatagggggggactatgtaatataggtt #### Naaladl1_ID1453_12 --> 0 - 2 Original Alignment ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag ggtgttaaagctgggttttgccagctatcattgttcacttgggcccacagTCCAATATCAGTGCGCCAGGGTCCAGTGGCCTCAGGATCTATGATAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCaggtaagaccagaaaccagttaggtagggggcccattggcccagtatgtcca Alignment from CESAR ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCag ggtgttaaagctgggttttgccagctatcattgttcacttgggcccacagTCCAATATCAGTGCGCCAGGGTCCAGTGGCCTCAGGATCTATGATAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCaggtaagaccagaaaccagttaggtagggggcccattggcccagtatgtcca Alignment from Spaln_aa2Genome ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCA ggtgttaaagctgggttttgccagctatcattgttcacttgggcccacagTCCAATATCAGTGCGCCAGGGTCCAGTGGCCTCAGGATCTATGATAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtaagaccagaaaccagttaggtagggggcccattggcccagtatgtcca Alignment from Spaln_nt2Genome ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttgccagctatcattgttcacttgggcccacagTCCAATATCAGTGCGCCAGGGTCCAGTGGCCTCAGGATCTATGATAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtaagaccagaaaccagttaggtagggggcccattggcccagtatgtcca Alignment from Pairagon ------ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttgccagctatcattgttcacttgggcccacagTCCAATATCAGTGCGCCAGGGTCCAGTGGCCTCAGGATCTATGATAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtaagaccagaaaccagttaggtagggggcccattggcccagtatgtcca Alignment from Exonerate_protein2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttgccagctatcattgttcacttgggcccacagtccaatATCAGTGCGCCAGGGTCCAGTGGCCTCAGGATCTATGATAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtaagaccagaaaccagttaggtagggggcccattggcccagtatgtcca Alignment from Exonerate_coding2genome ATCAGTGCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttgccagctatcattgttcacttgggcccacagtccaatATCAGTGCGCCAGGGTCCAGTGGCCTCAGGATCTATGATAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtaagaccagaaaccagttaggtagggggcccattggcccagtatgtcca Alignment from GeneWise -GCACCAGGCTCCAGTGGCCTCAGTATCTATGACAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAG ggtgttaaagctgggttttgccagctatcattgttcacttgggcccacagtccaatatcagTGCGCCAGGGTCCAGTGGCCTCAGGATCTATGATAACTGGATCCGATATACCAACCGCACTAGTCCAGTATATGGACTGGTTCCCAGgtaagaccagaaaccagttaggtagggggcccattggcccagtatgtcca #### Naaladl1_ID1457_16 --> 2 - 2 Original Alignment ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga agggaactctgcatccgcaggtagggctactatgtttcttgtgcttatagggCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAG---------gagtaaaagcccctaccgcaagcagagggcaggtgtctggtagaggcacctg Alignment from CESAR ggCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTga agggaactctgcatccgcaggtagggctactatgtttcttgtgcttatagggCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAG---------gagtaaaagcccctaccgcaagcagagggcaggtgtctggtagaggcacctg Alignment from Spaln_aa2Genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAG agggaactctgcatccgcaggtagggctactatgtttcttgtgcttatagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGGAgtaaaagcccctaccgcaagcagagggcaggtgtctggtagaggcacctg Alignment from Spaln_nt2Genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA agggaactctgcatccgcaggtagggctactatgtttcttgtgcttatagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAG---------GAgtaaaagcccctaccgcaagcagagggcaggtgtctggtagaggcacctg Alignment from Pairagon GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAGCAGCCCTGA agggaactctgcatccgcaggtagggctactatgtttcttgtgcttatagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAG---------GAgtaaaagcccctaccgcaagcagagggcaggtgtctggtagaggcacctg Alignment from Exonerate_protein2genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAG agggaactctgcatccgcaggtagggctactatgtttcttgtgcttatagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGGAgtaaaagcccctaccgcaagcagagggcaggtgtctggtagaggcacctg Alignment from Exonerate_coding2genome GGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAG agggaactctgcatccgcaggtagggctactatgtttcttgtgcttatagGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGGAgtaaaagcccctaccgcaagcagagggcaggtgtctggtagaggcacctg Alignment from GeneWise -------------------------------------------------GGGCCTTTGGTGACTGCAGTGGCGAACTTTAAGGCTGCAGCTGCATCCTTGGGTGAGCACATCTTGACCCTGCAGAAGAG AGGGAACTCTGCATCCGCAGGTAGGGCTACTATGTTTCTTGTGCTTATAGGGCCTTTGGTGACGGCAGTAGCAAACTTTAAGGCTGCAGCTGCCTCATTGGGTGAGCACATCCTGACCCTAGAGAAGGAgtaaaagcccctaccgcaagcagagggcaggtgtctggtagaggcacctg #### Naaladl1_ID1458_17 --> 1 - 2 Original Alignment tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag ctggcacatgagctgctggcttgcagtgctcttctctctcactcctacagtCCTCTGCAGGTTCAAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAG---------aggtaagactacagcgtccctgctgaaaccctggggaaagggggtggagtgg Alignment from CESAR tCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAGGCACTACag ctggcacatgagctgctggcttgcagtgctcttctctctcactcctacagtCCTCTGCAGGTTCAAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAG---------aggtaagactacagcgtccctgctgaaaccctggggaaagggggtggagtgg Alignment from Spaln_aa2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG ctggcacatgagctgctggcttgcagtgctcttctctctcactcctacagTCCTCTGCAGGTTCAAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGgtaagactacagcgtccctgctgaaaccctggggaaagggggtggagtgg Alignment from Spaln_nt2Genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG ctggcacatgagctgctggcttgcagtgctcttctctctcactcctacagTCCTCTGCAGGTTCAAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGgtaagactacagcgtccctgctgaaaccctggggaaagggggtggagtgg Alignment from Pairagon TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG ctggcacatgagctgctggcttgcagtgctcttctctctcactcctacagTCCTCTGCAGGTTCAAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGgtaagactacagcgtccctgctgaaaccctggggaaagggggtggagtgg Alignment from Exonerate_protein2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG ctggcacatgagctgctggcttgcagtgctcttctctctcactcctacagTCCTCTGCAGGTTCAAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGgtaagactacagcgtccctgctgaaaccctggggaaagggggtggagtgg Alignment from Exonerate_coding2genome TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG ctggcacatgagctgctggcttgcagtgctcttctctctcactcctacagTCCTCTGCAGGTTCAAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGgtaagactacagcgtccctgctgaaaccctggggaaagggggtggagtgg Alignment from GeneWise TCCTCTGCAGGTACGAATGGTCAATGACCAGCTGATGCTCTTAGAACGGGCATTCCTGAACCCAAGGGCTTTCCCAGAGGAGAG ctggcacatgagctgctggcttgcagtgctcttctctctcactcctacagTCCTCTGCAGGTTCAAATGGTCAATGACCAGTTGATGCTCTTAGAGCGTGCATTCTTGAACCCAAGGGCTTTCCCAGAGGAGAGgtaagactacagcgtccctgctgaaaccctggggaaagggggtggagtgg #### Ndufs8_ID194_2 --> 2 - 1 Original Alignment gaCATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACa ggggtcgaggagcagagcttcctggttattatgtatttatttatttttagga---CTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCAGCGACATACagtgggtagccaatattttgaattaagcttgtcagaccattgccacgctga Alignment from CESAR gaCATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACa ttgggggtcgaggagcagagcttccttattatgtatttatttatttttagga---CTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCAGCGACATACagtgggtagccaatattttgaattaagcttgtcagaccattgccacgctga Alignment from Spaln_aa2Genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ggggtcgaggagcagagcttcctggttattatgtatttatttatttttagGA---CTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCAGCGACATACAgtgggtagccaatattttgaattaagcttgtcagaccattgccacgctga Alignment from Spaln_nt2Genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ggggtcgaggagcagagcttcctggttattatgtatttatttatttttagGA---CTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCAGCGACATACAgtgggtagccaatattttgaattaagcttgtcagaccattgccacgctga Alignment from Pairagon GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ggggtcgaggagcagagcttcctggttattatgtatttatttatttttagGA---CTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCAGCGACATACAgtgggtagccaatattttgaattaagcttgtcagaccattgccacgctga Alignment from Exonerate_protein2genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ggggtcgaggagcagagcttcctggttattatgtatttatttatttttagGA---CTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCAGCGACATACAgtgggtagccaatattttgaattaagcttgtcagaccattgccacgctga Alignment from Exonerate_coding2genome GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ggggtcgaggagcagagcttcctggttattatgtatttatttatttttagGA---CTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCAGCGACATACAgtgggtagccaatattttgaattaagcttgtcagaccattgccacgctga Alignment from GeneWise GACATCTTAATGGACAAAGCCTTCATAGCAGCGCAGTGGCGGCAACGTACA ggggtcgaggagcagagcttcctggttattatgtatttatttatttttagGA---CTTAATGGACAAAGCCTTCATAGCAGTGCAGTGGCAGCGACATACAgtgggtagccaatattttgaattaagcttgtcagaccattgccacgctga #### Nfkb2_ID9827_5 --> 0 - 2 Original Alignment ---------ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca gctgatgttgcgtaaggtgcatggggcagtttaacacttcaattttccagACCTACACAATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGAGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTcagtgagaggtgctgccctgtcctgcagtggcatgatttctgaacagcctca Alignment from CESAR ---------ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTca gctgatgttgcgtaaggtgcatggggcagtttaacacttcaattttccagACCTACACAATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGAGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTcagtgagaggtgctgccctgtcctgcagtggcatgatttctgaacagcctca Alignment from Spaln_aa2Genome ATCTGTAACTAT---------GAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgatgttgcgtaaggtgcatggggcagtttaacacttcaattttccagACCTACACAATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGAGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtgagaggtgctgccctgtcctgcagtggcatgatttctgaacagcctca Alignment from Spaln_nt2Genome ATCTGTAAC---------TATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgatgttgcgtaaggtgcatggggcagtttaacacttcaattttccagACCTACACAATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGAGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtgagaggtgctgccctgtcctgcagtggcatgatttctgaacagcctca Alignment from Pairagon -----------------------------------------------------------ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA GCTGATGTTGCGTAAGGTGCATGGGGCAGTTTAACACTTCAATTTTCCAGACCTACACAATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGAGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtgagaggtgctgccctgtcctgcagtggcatgatttctgaacagcctca Alignment from Exonerate_protein2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgatgttgcgtaaggtgcatggggcagtttaacacttcaattttccagacctacacaATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGAGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtgagaggtgctgccctgtcctgcagtggcatgatttctgaacagcctca Alignment from Exonerate_coding2genome ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgatgttgcgtaaggtgcatggggcagtttaacacttcaattttccagacctacacaATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGAGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtgagaggtgctgccctgtcctgcagtggcatgatttctgaacagcctca Alignment from GeneWise ---------ATCTGTAACTATGAGGGACCGGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCACCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAGTTGGGAGTGTGCGCTGTGTCTGTAGGACCCAAGGACATGACTGCTCA gctgatgttgcgtaaggtgcatggggcagtttaacacttcaattttccagACCTACACAATCTGTAACTATGAGGGACCAGCCAAGATTGAGGTGGACCTGGTGACACACAGTGACCCGCCTCGTGCGCATGCCCACAGTCTGGTGGGCAAGCAGTGTTCAGAACTAGGAGTGTGTGCCATCTCTGTAGGACCCAAGGACATGACTGCTCAgtgagaggtgctgccctgtcctgcagtggcatgatttctgaacagcctca #### Nfkb2_ID9830_8 --> 2 - 1 Original Alignment agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg cccacctgcaagccaatcaatgtgtccctccatgtgtgtttcctttgcagaaTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCAGGTTCTGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAA---ggtaagtagactgaagctccctggggcgggctgtagaggtaatctggaaat Alignment from CESAR agTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAg cccacctgcaagccaatcaatgtgtccctccatgtgtgtttcctttgcagaaTCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCAGGTTCTGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAA---ggtaagtagactgaagctccctggggcgggctgtagaggtaatctggaaat Alignment from Spaln_aa2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAA- cccacctgcaagccaatcaatgtgtccctccatgtgtgtttcctttgcagAATCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCAGGTTCTGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAGgtaagtagactgaagctccctggggcgggctgtagaggtaatctggaaat Alignment from Spaln_nt2Genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG cccacctgcaagccaatcaatgtgtccctccatgtgtgtttcctttgcagAATCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCAGGTTCTGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGC---AAGgtaagtagactgaagctccctggggcgggctgtagaggtaatctggaaat Alignment from Pairagon AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAAAAG cccacctgcaagccaatcaatgtgtccctccatgtgtgtttcctttgcagAATCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCAGGTTCTGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGC---AAGgtaagtagactgaagctccctggggcgggctgtagaggtaatctggaaat Alignment from Exonerate_protein2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAA cccacctgcaagccaatcaatgtgtccctccatgtgtgtttcctttgcagAATCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCAGGTTCTGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAGgtaagtagactgaagctccctggggcgggctgtagaggtaatctggaaat Alignment from Exonerate_coding2genome AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAA cccacctgcaagccaatcaatgtgtccctccatgtgtgtttcctttgcagAATCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCAGGTTCTGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAGgtaagtagactgaagctccctggggcgggctgtagaggtaatctggaaat Alignment from GeneWise AGTCTCCAGGGGCCTCGAACCTGAAGATCTCCCGAATGGACAAGACAGCGGGTTCCGTGCGCGGTGGAGACGAAGTTTATTTGCTCTGTGATAAGGTGCAAA cccacctgcaagccaatcaatgtgtccctccatgtgtgtttcctttgcagAATCTCCAGGGGCCTTGAACCTGAAGATCTCCCGAATGGACAAAACAGCAGGTTCTGTGCATGGGGGAGATGAAGTTTATTTGCTCTGTGAGAGGGTGCAAGgtaagtagactgaagctccctggggcgggctgtagaggtaatctggaaat #### Nfkb2_ID9831_9 --> 2 - 0 Original Alignment acGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cggcagggctgcaacctctccttgtggctatatccatctgtccaccacagacGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTTTCTCCCACAGATGTTCATAAA---gtatgttgtaggggctagagcctgtcctggagacagaactatggacatac Alignment from CESAR acGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cggcagggctgcaacctctccttgtggctatatccatctgtccaccacagacGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTTTCTCCCACAGATGTTCATAAA---gtatgttgtaggggctagagcctgtcctggagacagaactatggaca Alignment from Spaln_aa2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAA cggcagggctgcaacctctccttgtggctatatccatctgtccaccacagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTTTCTCCCACAGATGTTCATAAAgtatgttgtaggggctagagcctgtcctggagacagaactatggacatac Alignment from Spaln_nt2Genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAAC-AG cggcagggctgcaacctctccttgtggctatatccatctgtccaccacagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTTTCTCCCACAGATGTTCATAAAGTATgttgtaggggctagagcctgtcctggagacagaactatggacatac Alignment from Pairagon ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAA--------------------------------------------------- cggcagggctgcaacctctccttgtggctatatccatctgtccaccacagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTTTCTCCCACAGATGTTCATAAAGTATGTTGTAGGGGCTAGAGCCTGTCCTGGAGACAGAACTATGGACATAC Alignment from Exonerate_protein2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAA cggcagggctgcaacctctccttgtggctatatccatctgtccaccacagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTTTCTCCCACAGATGTTCATAAAgtatgttgtaggggctagagcctgtcctggagacagaactatggacatac Alignment from Exonerate_coding2genome ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAA cggcagggctgcaacctctccttgtggctatatccatctgtccaccacagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTTTCTCCCACAGATGTTCATAAAgtatgttgtaggggctagagcctgtcctggagacagaactatggacatac Alignment from GeneWise ACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGATGGCAAGCCTTTGGGGACTTCTCTCCCACAGACGTTCATAAACAG cggcagggctgcaacctctccttgtggctatatccatctgtccaccacagACGACATTGAGGTTCGGTTCTATGAGGATGATGAGAATGGGTGGCAAGCCTTTGGGGACTTTTCTCCCACAGATGTTCAT---AAAgtatgttgtaggggctagagcctgtcctggagacagaactatggacatac #### Nfkb2_ID9832_10 --> 0 - 1 Original Alignment ---------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAg tatggacatacattgctggcactatgttctccttgttctctccccccaagATTAAAGATTATGCCATCGTGTTCCGGACACCACCCTATCACAAGATGAAGATCGAGAGGCCTGTAACAGTGTTCCTGCAGCTGAAGCGCAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTACCCTTTGGTAGAAggtgagtcaggcttcagcattcttaaaagctagacggaatcaggccagcca Alignment from CESAR ---------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAg tatggacatacattgctggcactatgttctccttgttctctccccccaagATTAAAGATTATGCCATCGTGTTCCGGACACCACCCTATCACAAGATGAAGATCGAGAGGCCTGTAACAGTGTTCCTGCAGCTGAAGCGCAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTACCCTTTGGTAGAAggtgagtcaggcttcagcattcttaaaagctagacggaatcaggccagcca Alignment from Spaln_aa2Genome TATGCCATT---------GTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttctccttgttctctccccccaagATTAAAGATTATGCCATCGTGTTCCGGACACCACCCTATCACAAGATGAAGATCGAGAGGCCTGTAACAGTGTTCCTGCAGCTGAAGCGCAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTACCCTTTGGTAGAAGgtgagtcaggcttcagcattcttaaaagctagacggaatcaggccagcca Alignment from Spaln_nt2Genome TATGCCATTGT--GTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttctccttgttctctccccccaagattaaagATTATGCCATCGTGTTCCGGACACCACCCTATCACAAGATGAAGATCGAGAGGCCTGTAACAGTGTTCCTGCAGCTGAAGCGCAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTACCCTTTGGTAGAAGgtgagtcaggcttcagcattcttaaaagctagacggaatcaggccagcca Alignment from Pairagon -----------------------------------------------------------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAG TATGGACATACATTGCTGGCACTATGTTCTCCTTGTTCTCTCCCCCCAAGATTAAAGATTATGCCATCGTGTTCCGGACACCACCCTATCACAAGATGAAGATCGAGAGGCCTGTAACAGTGTTCCTGCAGCTGAAGCGCAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTACCCTTTGGTAGAAGgtgagtcaggcttcagcattcttaaaagctagacggaatcaggccagcca Alignment from Exonerate_protein2genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttctccttgttctctccccccaagattaaagatTATGCCATCGTGTTCCGGACACCACCCTATCACAAGATGAAGATCGAGAGGCCTGTAACAGTGTTCCTGCAGCTGAAGCGCAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTACCCTTTGGTAGAAGgtgagtcaggcttcagcattcttaaaagctagacggaatcaggccagcca Alignment from Exonerate_coding2genome TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttctccttgttctctccccccaagattaaagatTATGCCATCGTGTTCCGGACACCACCCTATCACAAGATGAAGATCGAGAGGCCTGTAACAGTGTTCCTGCAGCTGAAGCGCAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTACCCTTTGGTAGAAGgtgagtcaggcttcagcattcttaaaagctagacggaatcaggccagcca Alignment from GeneWise ---------TATGCCATTGTGTTCCGGACACCGCCCTATCACAAGATGAAGATCGAGAGGCCTGTAACGGTGTTCCTGCAGCTGAAACGCAAGCGTGGGGGCGATGTCTCGGACTCCAAACAGTTCACATATTACCCTCTGGTGGAAG tatggacatacattgctggcactatgttctccttgttctctccccccaagATTAAAGATTATGCCATCGTGTTCCGGACACCACCCTATCACAAGATGAAGATCGAGAGGCCTGTAACAGTGTTCCTGCAGCTGAAGCGCAAGCGTGGGGGTGATGTCTCAGACTCCAAACAGTACACATATTACCCTTTGGTAGAAGgtgagtcaggcttcagcattcttaaaagctagacggaatcaggccagcca #### Nfkb2_ID9835_13 --> 2 - 2 Original Alignment ctCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACac caggaatgcttgagggttagcatgcaccactgtgtgtttctggttgccagctCGTGAGTACAATGCGCGCCTGTTTGGTCTGGCGCAGCGCAGTGCCCGAGCGTTGCTGGACTATGGTGTCACTGCAGATGCACGTGCTCTGCTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAG---------acgtaagtcacgcatggattagagtatgggctaccatgagatctccagggcg Alignment from CESAR ctCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACac caggaatgcttgagggttagcatgcaccactgtgtgtttctggttgccagctCGTGAGTACAATGCGCGCCTGTTTGGTCTGGCGCAGCGCAGTGCCCGAGCGTTGCTGGACTATGGTGTCACTGCAGATGCACGTGCTCTGCTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAG---------acgtaagtcacgcatggattagagtatgggctaccatgagatctccagggcg Alignment from Spaln_aa2Genome CTCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAA caggaatgcttgagggttagcatgcaccactgtgtgtttctggttgccagCTCGTGAGTACAATGCGCGCCTGTTTGGTCTGGCGCAGCGCAGTGCCCGAGCGTTGCTGGACTATGGTGTCACTGCAGATGCACGTGCTCTGCTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGACgtaagtcacgcatggattagagtatgggctaccatgagatctccagggcg Alignment from Spaln_nt2Genome CTCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAA caggaatgcttgagggttagcatgcaccactgtgtgtttctggttgccagCTCGTGAGTACAATGCGCGCCTGTTTGGTCTGGCGCAGCGCAGTGCCCGAGCGTTGCTGGACTATGGTGTCACTGCAGATGCACGTGCTCTGCTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGACgtaagtcacgcatggattagagtatgggctaccatgagatctccagggcg Alignment from Pairagon CTCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAA caggaatgcttgagggttagcatgcaccactgtgtgtttctggttgccagCTCGTGAGTACAATGCGCGCCTGTTTGGTCTGGCGCAGCGCAGTGCCCGAGCGTTGCTGGACTATGGTGTCACTGCAGATGCACGTGCTCTGCTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGACgtaagtcacgcatggattagagtatgggctaccatgagatctccagggcg Alignment from Exonerate_protein2genome CTCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACAC caggaatgcttgagggttagcatgcaccactgtgtgtttctggttgccagCTCGTGAGTACAATGCGCGCCTGTTTGGTCTGGCGCAGCGCAGTGCCCGAGCGTTGCTGGACTATGGTGTCACTGCAGATGCACGTGCTCTGCTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGACGTAAGTCACgcatggattagagtatgggctaccatgagatctccagggcg Alignment from Exonerate_coding2genome CTCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAACGGAGACAC caggaatgcttgagggttagcatgcaccactgtgtgtttctggttgccagCTCGTGAGTACAATGCGCGCCTGTTTGGTCTGGCGCAGCGCAGTGCCCGAGCGTTGCTGGACTATGGTGTCACTGCAGATGCACGTGCTCTGCTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGACGTAAGTCACgcatggattagagtatgggctaccatgagatctccagggcg Alignment from GeneWise CTCGCGAGTACAACGCGCGCCTGTTCGGTCTGGCGCAGCGCAGCGCCCGAGCGTTGCTGGACTACGGCGTCACCGCAGACGCGCGTGCTCTGCTAGCGGGACAGCGCCACCTGCTGATGGCACAGGACGAGAA caggaatgcttgagggttagcatgcaccactgtgtgtttctggttgccagCTCGTGAGTACAATGCGCGCCTGTTTGGTCTGGCGCAGCGCAGTGCCCGAGCGTTGCTGGACTATGGTGTCACTGCAGATGCACGTGCTCTGCTAGCGGGACAGCGTCACCTGCTGATGGCACAGGACGAGACgtaagtcacgcatggattagagtatgggctaccatgagatctccagggcg #### Nfkb2_ID9837_15 --> 0 - 1 Original Alignment ------------ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg gattgaaagcaagaagtctaaagctggctacctgtctctcctttccgtagGTTAGGGGTGTAACACCTCTGCATCTTGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTAGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCTCTCAGGGCAGGTGCAGCTGCCCCTGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---CACATGCCTGATTTTGAGggtaggttgccaattgctcttgtaccaagaacaaggatggaaacccaggag Alignment from CESAR ------------ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGg gattgaaagcaagaagtctaaagctggctacctgtctctcctttccgtagGTTAGGGGTGTAACACCTCTGCATCTTGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTAGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCTCTCAGGGCAGGTGCAGCTGCCCCTGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---CACATGCCTGATTTTGAGggtaggttgccaattgctcttgtaccaagaacaaggatggaaacccaggag Alignment from Spaln_aa2Genome ACGCCTCTGCAC------------CTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG gattgaaagcaagaagtctaaagctggctacctgtctctcctttccgtagGTTAGGGGTGTAACACCTCTGCATCTTGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTAGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCTCTCAGGGCAGGTGCAGCTGCCCCTGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---CACATGCCTGATTTTGAGGgtaggttgccaattgctcttgtaccaagaacaaggatggaaacccaggag Alignment from Spaln_nt2Genome ------------ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG gattgaaagcaagaagtctaaagctggctacctgtctctcctttccgtagGTTAGGGGTGTAACACCTCTGCATCTTGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTAGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCTCTCAGGGCAGGTGCAGCTGCCCCTGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---CACATGCCTGATTTTGAGGgtaggttgccaattgctcttgtaccaagaacaaggatggaaacccaggag Alignment from Pairagon --------------------------------------------------------------ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG GATTGAAAGCAAGAAGTCTAAAGCTGGCTACCTGTCTCTCCTTTCCGTAGGTTAGGGGTGTAACACCTCTGCATCTTGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTAGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCTCTCAGGGCAGGTGCAGCTGCCCCTGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---CACATGCCTGATTTTGAGGgtaggttgccaattgctcttgtaccaagaacaaggatggaaacccaggag Alignment from Exonerate_protein2genome ------------ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG gattgaaagcaagaagtctaaagctggctacctgtctctcctttccgtagGTTAGGGGTGTAACACCTCTGCATCTTGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTAGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCTCTCAGGGCAGGTGCAGCTGCCCCTGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---CACATGCCTGATTTTGAGGgtaggttgccaattgctcttgtaccaagaacaaggatggaaacccaggag Alignment from Exonerate_coding2genome ------------ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG gattgaaagcaagaagtctaaagctggctacctgtctctcctttccgtagGTTAGGGGTGTAACACCTCTGCATCTTGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTAGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCTCTCAGGGCAGGTGCAGCTGCCCCTGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---CACATGCCTGATTTTGAGGgtaggttgccaattgctcttgtaccaagaacaaggatggaaacccaggag Alignment from GeneWise ------------ACGCCTCTGCACCTGGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTGGGTGCAGACCCCACGCTGCTGGATCGGCACGGAGACTCCGCCCTCCACTTGGCTCTCCGGGCAGGTGCTGCAGCCCCAGAGCTGTTGCAGGCACTGTTGCGCAGCGGAGCCCATGCTGTGCCCCAAATATTGCACATGCCTGATTTTGAGG gattgaaagcaagaagtctaaagctggctacctgtctctcctttccgtagGTTAGGGGTGTAACACCTCTGCATCTTGCGGTAATCACTGGGCAGACAAGGGTGGTGAGCTTCCTGCTGCAGGTAGGTGCAGACCCCACGCTGCTGGATAGGCATGGAGACTCTGCCCTCCACTTGGCTCTCAGGGCAGGTGCAGCTGCCCCTGAGCTGTTGCAGGCACTGTTGCGCAGTGAAGCCCATGCTGTGCCCCAAATA---CACATGCCTGATTTTGAGGgtaggttgccaattgctcttgtaccaagaacaaggatggaaacccaggag #### Nfkb2_ID9841_19 --> 0 - 1 Original Alignment GTGAAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg ggtctggatggctgtagaggagtcgtcgctgattctttttgtgcctccag------------------AATGCCGCTCAGAACACCACAGAGCCACCCCTGGCCCCACCCAGCCCTGCAggtgagcttgcagtggtctctggtacctcaatcaagaggtgatatccttag Alignment from CESAR GTGAAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAg agggaaagataggcttaaggtctggtcgctgattctttttgtgcctccag------------------AATGCCGCTCAGAACACCACAGAGCCACCCCTGGCCCCACCCAGCCCTGCAggtgagcttgcagtggtctctggtacctcaatcaagaggtgatatccttag Alignment from Spaln_aa2Genome GTGAAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ggtctggatggctgtagaggagtcgtcgctgattctttttgtgcctccag------------------AATGCCGCTCAGAACACCACAGAGCCACCCCTGGCCCCACCCAGCCCTGCAGgtgagcttgcagtggtctctggtacctcaatcaagaggtgatatccttag Alignment from Spaln_nt2Genome A AATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG GgtctggatggctgtagaggagtcgtcgctgattctttttgtgcctccagAATGCCGCTCAGAACACCACAGAGCCACCCCTGGCCCCACCCAGCCCTGCAGgtgagcttgcagtggtctctggtacctcaatcaagaggtgatatccttag Alignment from Pairagon GTGAAGACTCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ggtctggatggctgtagaggagtcgtcgctgattctttttgtgcctccag------------------AATGCCGCTCAGAACACCACAGAGCCACCCCTGGCCCCACCCAGCCCTGCAGgtgagcttgcagtggtctctggtacctcaatcaagaggtgatatccttag Alignment from Exonerate_protein2genome TCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ggtctggatggctgtagaggagtcgtcgctgattctttttGTGCCTCCAGAATGCCGCTCAGAACACCACAGAGCCACCCCTGGCCCCACCCAGCCCTGCAGgtgagcttgcagtggtctctggtacctcaatcaagaggtgatatccttag Alignment from Exonerate_coding2genome TCTGCTGCTAAATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ggtctggatggctgtagaggagtcgtcgctgattctttttGTGCCTCCAGAATGCCGCTCAGAACACCACAGAGCCACCCCTGGCCCCACCCAGCCCTGCAGgtgagcttgcagtggtctctggtacctcaatcaagaggtgatatccttag Alignment from GeneWise AATGCTGCTCAGAACACCACGGAGCCACCCCTGGCCCCACCCAGCCCTGCAG ggtctggatggctgtagaggagtcgtcgctgattctttttgtgcctccagAATGCCGCTCAGAACACCACAGAGCCACCCCTGGCCCCACCCAGCCCTGCAGgtgagcttgcagtggtctctggtacctcaatcaagaggtgatatccttag #### Nmrk1_ID4439_5 --> 1 - 2 Original Alignment g------CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGag gaggaaggaaaagagccttgtcttgtggcccgcggctctgatgaggacaggCGGGCACCTCTGGATACCATATGGAATAGAAGTTACTGCCTAACTGTTCCATATGAACAATGTAAGAGGAGAAGGaggtaattccggagattatctctgaattgtaattctaaagattagattcagg Alignment from CESAR g------CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGag gaggaaggaaaagagccttgtcttgtggcccgcggctctgatgaggacaggCGGGCACCTCTGGATACCATATGGAATAGAAGTTACTGCCTAACTGTTCCATATGAACAATGTAAGAGGAGAAGGaggtaattccggagattatctctgaattgtaattctaaagattagattcagg Alignment from Spaln_aa2Genome GCCTCTGGACACC------ATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gaggaaggaaaagagccttgtcttgtggcccgcggctctgatgaggacagGCGGGCACCTCTGGATACCATATGGAATAGAAGTTACTGCCTAACTGTTCCATATGAACAATGTAAGAGGAGAAGGAGgtaattccggagattatctctgaattgtaattctaaagattagattcagg Alignment from Spaln_nt2Genome GCCTCTGGACAC------CATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gaggaaggaaaagagccttgtcttgtggcccgcggctctgatgaggacagGCGGGCACCTCTGGATACCATATGGAATAGAAGTTACTGCCTAACTGTTCCATATGAACAATGTAAGAGGAGAAGGAGgtaattccggagattatctctgaattgtaattctaaagattagattcagg Alignment from Pairagon G------CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gaggaaggaaaagagccttgtcttgtggcccgcggctctgatgaggacagGCGGGCACCTCTGGATACCATATGGAATAGAAGTTACTGCCTAACTGTTCCATATGAACAATGTAAGAGGAGAAGGAGgtaattccggagattatctctgaattgtaattctaaagattagattcagg Alignment from Exonerate_protein2genome G------CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gaggaaggaaaagagccttgtcttgtggcccgcggctctgatgaggacagGCGGGCACCTCTGGATACCATATGGAATAGAAGTTACTGCCTAACTGTTCCATATGAACAATGTAAGAGGAGAAGGAGgtaattccggagattatctctgaattgtaattctaaagattagattcagg Alignment from Exonerate_coding2genome G------CCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gaggaaggaaaagagccttgtcttgtggcccgcggctctgatgaggacagGCGGGCACCTCTGGATACCATATGGAATAGAAGTTACTGCCTAACTGTTCCATATGAACAATGTAAGAGGAGAAGGAGgtaattccggagattatctctgaattgtaattctaaagattagattcagg Alignment from GeneWise ----AAGCCTCTGGACACCATATGGAACAGAAGTTACTTCCTGACCGTTCCATATGAAGAATGTAAGAGGAGAAGGAG gaggaaggaaaagagccttgtcttgtggcccgcggctctgatgaggacagGCGGGCACCTCTGGATACCATATGGAATAGAAGTTACTGCCTAACTGTTCCATATGAACAATGTAAGAGGAGAAGGAGgtaattccggagattatctctgaattgtaattctaaagattagattcagg #### Noc3l_ID7660_15 --> 0 - 1 Original Alignment GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAg agaaagcactctcatttgttttgttccttcttctcttctcttcccttaagGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCAT---------------ggtaaggtagtccattatagggagagttcactggcctcctttcccctgtca Alignment from CESAR GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAg agaaagcactctcatttgttttgttccttcttctcttctcttcccttaagGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCAT---------------ggtaaggtagtccattatagggagagttcactggcctcctttcccctgtca Alignment from Spaln_aa2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCAT---------ATTCTTTCTGGACAAG agaaagcactctcatttgttttgttccttcttctcttctcttcccttaagGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATGGTAAGGTAGTCCATTATAGGGAGAgttcactggcctcctttcccctgtca Alignment from Spaln_nt2Genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG agaaagcactctcatttgttttgttccttcttctcttctcttcccttaagGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCAT----------GGTAAGgtagtccattatagggagagttcactggcctcctttcccctgtca Alignment from Pairagon GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTTTCTGGACAAG agaaagcactctcatttgttttgttccttcttctcttctcttcccttaagGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCAT---------------Ggtaaggtagtccattatagggagagttcactggcctcctttcccctgtca Alignment from Exonerate_protein2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTT agaaagcactctcatttgttttgttccttcttctcttctcttcccttaagGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATGGTAAGgtagtccattatagggagagttcactggcctcctttcccctgtca Alignment from Exonerate_coding2genome GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCATATTCTT agaaagcactctcatttgttttgttccttcttctcttctcttcccttaagGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATGGTAAGgtagtccattatagggagagttcactggcctcctttcccctgtca Alignment from GeneWise GAGCTAAGTTATCAAGAAAGTCTCCACTGTGTTCAAACTGCTTTTCAT--------------------------------------------------- agaaagcactctcatttgttttgttccttcttctcttctcttcccttaagGAACTAAGTTATCAAGAAAGTCTCCATTGTGTTCAAACTGCTTTTCATGGTAAGGTAGTCCATTATAGGGAGAGTTCACTGGCCTCCTTTCCCCTGTCA #### Npas4_ID776_5 --> 1 - 1 Original Alignment t---------------------------------------GTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGt ttttgagtaaggtacacagaaggccgacggcccttctttcttgcccacagtGCCCAGCTGGCCCACAAGAAGGCACACACTTTTCAGGTGGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGtgtaagattccagggaggccatacatcagtgttgtctgactccggcttttt Alignment from CESAR t---------------------------------------GTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGt ttttgagtaaggtacacagaaggccgacggcccttctttcttgcccacagtGCCCAGCTGGCCCACAAGAAGGCACACACTTTTCAGGTGGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGtgtaagattccagggaggccatacatcagtgttgtctgactccggcttttt Alignment from Spaln_aa2Genome ---GTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTG ttttgagtaaggtacacagaaggccgacggcccttctttcttgcccacagtgcccagctggcccacaagaaggcacacacttttcagGTGGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGTgtaagattccagggaggccatacatcagtgttgtctgactccggcttttt Alignment from Spaln_nt2Genome TGTCCTAATC--TACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT ttttgagtaaggtacacagaaggccgacggcccttctttcttgcccacagtgcccagctggcccacaagaaggcacacacttttcagGTGGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGTgtaagattccagggaggccatacatcagtgttgtctgactccggcttttt Alignment from Pairagon --TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT ttttgagtaaggtacacagaaggccgacggcccttctttcttgcccacagtgcccagctggcccacaagaaggcacacacttttcagGTGGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGTgtaagattccagggaggccatacatcagtgttgtctgactccggcttttt Alignment from Exonerate_protein2genome TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT ttttgagtaaggtacacagaaggccgacggcccttctttcttgcccacagtgcccagctggcccacaagaaggcacacacttttcaggtGGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGTgtaagattccagggaggccatacatcagtgttgtctgactccggcttttt Alignment from Exonerate_coding2genome TGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT ttttgagtaaggtacacagaaggccgacggcccttctttcttgcccacagtgcccagctggcccacaagaaggcacacacttttcaggtGGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGTgtaagattccagggaggccatacatcagtgttgtctgactccggcttttt Alignment from GeneWise ------CTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCCGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGT ttttgagtaaggtacacagaaggccgacggcccttctttcttgcccacagtgcccagctggcccacaagaaggcacacacttttcagGTGGTCCTAATCTACCTGGGCTTTGAGCGCAGCGAACTGCTCTGTAAATCATGGTATGGACTGCTACACCCTGAGGACCTGGCCCAAGCTTCTTCTCAACACTACCGCCTGTgtaagattccagggaggccatacatcagtgttgtctgactccggcttttt #### Npm3_ID9576_4 --> 0 - 1 Original Alignment CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATC---------g cttcaagtgtgcaggccaacactactcatgcttgtccttttctcttgcagCTGAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGATTGAGGTCTGGTTCAGGCCCAGTTCGGATC---------CATCAGATTGTGCTAAATggtatggagagagaatcctttactcccaacctgccccagtctcagatccta Alignment from CESAR CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATC---------g cttcaagtgtgcaggccaacactactcatgcttgtccttttctcttgcagCTGAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGATTGAGGTCTGGTTCAGGCCCAGTTCGGATC---------CATCAGATTGTGCTAAATggtatggagagagaatcctttactcccaacctgccccagtctcagatccta Alignment from Spaln_aa2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG cttcaagtgtgcaggccaacactactcatgcttgtccttttctcttgcagCTGAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGATTGAGGTCTGGTTCAGGCCCAGTTCGGATCCATCAGATTGTGCTAAATGgtatggagagagaatcctttactcccaacctgccccagtctcagatccta Alignment from Spaln_nt2Genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG cttcaagtgtgcaggccaacactactcatgcttgtccttttctcttgcagCTGAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGATTGAGGTCTGGTTCAGGCCCAGTTCGGATCCATCAGATTGTGCTAAATGgtatggagagagaatcctttactcccaacctgccccagtctcagatccta Alignment from Pairagon CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG--------- cttcaagtgtgcaggccaacactactcatgcttgtccttttctcttgcagCTGAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGATTGAGGTCTGGTTCAGGCCCAGTTCGGATC---------CATCAGATTGTGCTAAATGgtatggagagagaatcctttactcccaacctgccccagtctcagatccta Alignment from Exonerate_protein2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG cttcaagtgtgcaggccaacactactcatgcttgtccttttctcttgcagCTGAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGATTGAGGTCTGGTTCAGGCCCAGTTCGGATCCATCAGATTGTGCTAAATGgtatggagagagaatcctttactcccaacctgccccagtctcagatccta Alignment from Exonerate_coding2genome CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCG cttcaagtgtgcaggccaacactactcatgcttgtccttttctcttgcagCTGAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGATTGAGGTCTGGTTCAGGCCCAGTTCGGATCCATCAGATTGTGCTAAATGgtatggagagagaatcctttactcccaacctgccccagtctcagatccta Alignment from GeneWise CTCAGTGTGGATGATTTCCAACTCCAACCACCTGTCACCTTCCGCCTGAAGTCCGGTTCTGGCCCAGTTCGGATCACTGGCCGGCATCAGATCGTT------- cttcaagtgtgcaggccaacactactcatgcttgtccttttctcttgcagCTGAGTGTGGACGATCTCCAACTCCAACCACCTGTCACCTTCCGATTGAGGTCTGGTTCAGGCCCAGTTCGGATC---------CATCAGATTGTGCTAAATGgtatggagagagaatcctttactcccaacctgccccagtctcagatccta #### Nt5c2_ID10036_17 --> 0 - 0 Original Alignment AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG--------- gcggggacttgtatgtagttgcataacttccctgcctcctcctccctaagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGAGTCGCGCGgtaagtaatgttactttcaactgacagttaagatggaccacaaaggtgat Alignment from CESAR AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG--------- gcggggacttgtatgtagttgcataacttccctgcctcctcctccctaagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGAGTCGCGCGgtaagtaatgttactttcaactgacagttaagatggaccacaaaggtgat Alignment from Spaln_aa2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG--------- gcggggacttgtatgtagttgcataacttccctgcctcctcctccctaagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGAGTCGCGCGgtaagtaatgttactttcaactgacagttaagatggaccacaaaggtgat Alignment from Spaln_nt2Genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG- gcggggacttgtatgtagttgcataacttccctgcctcctcctccctaagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGAgtcgcgcggtaagtaatgttactttcaactgacagttaagatggaccacaaaggtgat Alignment from Pairagon AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG--------- gcggggacttgtatgtagttgcataacttccctgcctcctcctccctaagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGAGTCGCGCGgtaagtaatgttactttcaactgacagttaagatggaccacaaaggtgat Alignment from Exonerate_protein2genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gcggggacttgtatgtagttgcataacttccctgcctcctcctccctaagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGagtcgcgcggtaagtaatgttactttcaactgacagttaagatggaccacaaaggtgat Alignment from Exonerate_coding2genome AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG gcggggacttgtatgtagttgcataacttccctgcctcctcctccctaagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGagtcgcgcggtaagtaatgttactttcaactgacagttaagatggaccacaaaggtgat Alignment from GeneWise AAAGTAACTCATGACATGGACATGTGCTATGGGATGATGGGAAGCCTGTTCCGCAGCGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCGTTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTG--------- gcggggacttgtatgtagttgcataacttccctgcctcctcctccctaagGAAGTAACTCATGACATGGACATGTGCTATGGCATGATGGGAAGCCTGTTCCGCAGTGGCTCCCGGCAGACACTCTTTGCCAGCCAAGTGATGCGCTATGCAGATCTCTATGCGGCCTCATTCATCAACCTGCTGTACTACCCATTCAGCTACCTCTTCAGAGCTGCCCATGTCCTGAGTCGCGCGgtaagtaatgttactttcaactgacagttaagatggaccacaaaggtgat #### Nt5c2_ID10040_13 --> 0 - 1 Original Alignment ------------------------------------AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGg tgtctgggagagagttcaaatgaatttcaaatcatcttctcttgtggcagGATCTTCCCCCTAACAGAGTCACACAAGTGAACAGGAAAACTGGAAAACTGAAGATCGGCTCCTACACAGGCCCCCTGCAGCAC---GTCGTCTACTCAGGGggtaagagagctgtctgtctgcttccctttcttgtggacgactctgcatgg Alignment from CESAR tatggtttcacagtcaagtgtagtcagttgatcattgagattaggttttct Alignment from Spaln_aa2Genome -------AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgtctgggagagagttcaaatgaatttcaaatcatcttctcttgtggcaggatcttccccctaacagagtcacacaagTGAACAGGAAAACTGGAAAACTGAAGATCGGCTCCTACACAGGCCCCCTGCAGCAC---GTCGTCTACTCAGGGGgtaagagagctgtctgtctgcttccctttcttgtggacgactctgcatgg Alignment from Spaln_nt2Genome AAAACTGGA-AAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgtctgggagagagttcaaatgaatttcaaatcatcttctcttgtggcaggatcttccccctaacagagtcacacaagtgaacagGAAAACTGGAAAACTGAAGATCGGCTCCTACACAGGCCCCCTGCAGCACG---TCGTCTACTCAGGGGgtaagagagctgtctgtctgcttccctttcttgtggacgactctgcatgg Alignment from Pairagon -------------------AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgtctgggagagagttcaaatgaatttcaaatcatcttctcttgtggcaggatcttccccctaacagAGTCACACAAGTGAACAGGAAAACTGGAAAACTGAAGATCGGCTCCTACACAGGCCCCCTGCAGCACG---TCGTCTACTCAGGGGgtaagagagctgtctgtctgcttccctttcttgtggacgactctgcatgg Alignment from Exonerate_protein2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgtctgggagagagttcaaatgaatttcaaatcatcttctcttgtggcaggatcttccccctaacagagtcacacaagtgaacaggAAAACTGGAAAACTGAAGATCGGCTCCTACACAGGCCCCCTGCAGCAC---GTCGTCTACTCAGGGGgtaagagagctgtctgtctgcttccctttcttgtggacgactctgcatgg Alignment from Exonerate_coding2genome AAAACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgtctgggagagagttcaaatgaatttcaaatcatcttctcttgtggcaggatcttccccctaacagagtcacacaagtgaacaggAAAACTGGAAAACTGAAGATCGGCTCCTACACAGGCCCCCTGCAGCAC---GTCGTCTACTCAGGGGgtaagagagctgtctgtctgcttccctttcttgtggacgactctgcatgg Alignment from GeneWise -----------ACTGGAAAACTGAAAATTGGCACCTACACGGGCCCCCTGCAGCACGGCATTGTCTACTCAGGGG tgtctgggagagagttcaaatgaatttcaaatcatcttctcttgtggcaggatcttccccctaacagagtcacacaagTGAACAGGAAAACTGGAAAACTGAAGATCGGCTCCTACACAGGCCCCCTGCAGCAC---GTCGTCTACTCAGGGGgtaagagagctgtctgtctgcttccctttcttgtggacgactctgcatgg #### Nudt22_ID1971_4 --> 1 - 0 Original Alignment gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gtcctatacagtgtggatatctaccaggcctaaagtccctgtcgcctcaggTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACA---gttggtagtgaattgaccttctagttggctgttatcgggttcagattact Alignment from CESAR gTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gtcctatacagtgtggatatctaccaggcctaaagtccctgtcgcctcaggTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACA---gttggtagtgaattgaccttctagttggctgttatcgggttcagatt Alignment from Spaln_aa2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACA gtcctatacagtgtggatatctaccaggcctaaagtccctgtcgcctcagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACAgttggtagtgaattgaccttctagttggctgttatcgggttcagattact Alignment from Spaln_nt2Genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACA-G gtcctatacagtgtggatatctaccaggcctaaagtccctgtcgcctcagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACAGTTGgtagtgaattgaccttctagttggctgttatcgggttcagattact Alignment from Pairagon GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACA gtcctatacagtgtggatatctaccaggcctaaagtccctgtcgcctcagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACAgttggtagtgaattgaccttctagttggctgttatcgggttcagattact Alignment from Exonerate_protein2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gtcctatacagtgtggatatctaccaggcctaaagtccctgtcgcctcagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACAGTTggtagtgaattgaccttctagttggctgttatcgggttcagattact Alignment from Exonerate_coding2genome GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACACAG gtcctatacagtgtggatatctaccaggcctaaagtccctgtcgcctcagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACAGTTggtagtgaattgaccttctagttggctgttatcgggttcagattact Alignment from GeneWise GTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACA gtcctatacagtgtggatatctaccaggcctaaagtccctgtcgcctcagGTGCAGCTTGACTTCAGAGGAGGTCAGGAGTTATTACCTGAGTGGGGGACCTGAGGCCCACGAGTCTACAGGAATCATCTTTGTGGAGACAgttggtagtgaattgaccttctagttggctgttatcgggttcagattact #### Nudt8_ID267_2 --> 1 - 0 Original Alignment tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaaccttaaaaacctaactgtggtccctccatctattgatttctggcagtTTCCCAGGTGGTAAGTGTGATCCTGATGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTC------------------------------gtaaagtatctacactctcatagcacaatgttcgatccttgatggtcggc Alignment from CESAR tTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaaccttaaaaacctaactgtggtccctccatctattgatttctggcagtTTCCCAGGTGGTAAGTGTGATCCTGATGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTC------------------------------gtaaagtatctacactctca Alignment from Spaln_aa2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTG taaaccttaaaaacctaactgtggtccctccatctattgatttctggcagTTTCCCAGGTGGTAAGTGTGATCCTGATGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCgtaaagtatctacactctcatagcacaatgttcgatccttgatggtcggc Alignment from Spaln_nt2Genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTAA---TACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGG taaaccttaaaaacctaactgtggtccctccatctattgatttctggcagTTTCCCAGGTGGTAAGTGTGATCCTGATGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCGTAAAgtatctacactctcatagcacaatgttcgatccttgatggtcggc Alignment from Pairagon TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTG taaaccttaaaaacctaactgtggtccctccatctattgatttctggcagTTTCCCAGGTGGTAAGTGTGATCCTGATGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCgtaaagtatctacactctcatagcacaatgttcgatccttgatggtcggc Alignment from Exonerate_protein2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaaccttaaaaacctaactgtggtccctccatctattgatttctggcagTTTCCCAGGTGGTAAGTGTGATCCTGATGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCGTAAAGTATCTACACTCTCATAGCACAATGttcgatccttgatggtcggc Alignment from Exonerate_coding2genome TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGAT---GTAATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTGTGGGGTGTCCTGCAGCCAGTGTATGACCGG taaaccttaaaaacctaactgtggtccctccatctattgatttctggcagTTTCCCAGGTGGTAAGTGTGATCCTGATGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCGTAAAGTATCTACACTCTCATAGCACAATGttcgatccttgatggtcggc Alignment from GeneWise TTTCCCAGGCGGTAAGTGTGATCCCGACGACCAAGATGTA---ATACATACGGCCCTTCGGGAGACTCAGGAGGAGCTGGGCCTAGAGGTGCCCAAGGAGCACGTG taaaccttaaaaacctaactgtggtccctccatctattgatttctggcagTTTCCCAGGTGGTAAGTGTGATCCTGATGACCAAGATGTAGTAATACACACAGCCCTTCAGGAGACACAGGAGGAACTGGACCTAGAAGTACCCAAGGAGCATGTCgtaaagtatctacactctcatagcacaatgttcgatccttgatggtcggc #### Nudt8_ID268_3 --> 0 - 0 Original Alignment ------------------------------GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ccaagattgcccaagtcacccagactgcaaagttgcttgtgtctctctagAATATTTCTTCCAATCACCTTGTTTGCTCTGAAAAGGCAACCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAAgtacacggtgactactgagaagatgggctgtcctaacaggggactcatgg Alignment from CESAR ttaggaggcagggcaagaagatttctgagtttgaggccagcctgatccaaa Alignment from Spaln_aa2Genome AAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ccaagattgcccaagtcacccagactgcaaagttgcttgtgtctctctagaatatttcttccaatcaccttgtttgctctgaaaagGCAACCATA---GTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAAgtacacggtgactactgagaagatgggctgtcctaacaggggactcatgg Alignment from Spaln_nt2Genome GGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ccaagattgcccaagtcacccagactgcaaagttgcttgtgtctctctagaatatttcttccaatcaccttgtttgctctgaaaagGCAA-CCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAAgtacacggtgactactgagaagatgggctgtcctaacaggggactcatgg Alignment from Pairagon ------------------------------GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGG---------------------------------------------------- ccaagattgcccaagtcacccagactgcaaagttgcttgtgtctctctagAATATTTCTTCCAATCACCTTGTTTGCTCTGAAAAGGCAACCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAAGTACACGGTGACTACTGAGAAGATGGGCTGTCCTAACAGGGGACTCATGG Alignment from Exonerate_protein2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ccaagattgcccaagtcacccagactgcaaagttgcttgtgtctctctagaatatttcttccaatcaccttgtttgctctGAAAAGGCAACCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAAgtacacggtgactactgagaagatgggctgtcctaacaggggactcatgg Alignment from Exonerate_coding2genome GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ccaagattgcccaagtcacccagactgcaaagttgcttgtgtctctctagaatatttcttccaatcaccttgtttgctctGAAAAGGCAACCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAAgtacacggtgactactgagaagatgggctgtcctaacaggggactcatgg Alignment from GeneWise ------------------------------GAAAAGGCAACCATAGTCCCAGTACTTGCCAACGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAG ccaagattgcccaagtcacccagactgcaaagttgcttgtgtctctctagAATATTTCTTCCAATCACCTTGTTTGCTCTGAAAAGGCAACCATAGTCCCAGTACTTGCCAATGTGGGCCCACTGGATCTGCAGAGCCTTAGGCCCAACCTTGAGGAAgtacacggtgactactgagaagatgggctgtcctaacaggggactcatgg #### Nxf1_ID2344_4 --> 0 - 0 Original Alignment ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG gaaatacccagctcagttacacgttcactttgtgttcttttccatcacag---CCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGTAGTGTCCCATTCAACCCCATTGAGgtatccaagatagagttagatctgaaaggctgtgtaaggacgtggactac Alignment from CESAR ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG actgaaatacccagctcagttacaccactttgtgttcttttccatcacag---CCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGTAGTGTCCCATTCAACCCCATTGAGgtatccaagatagagttagatctgaaaggctgtgtaaggacgtggactac Alignment from Spaln_aa2Genome ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG gaaatacccagctcagttacacgttcactttgtgttcttttccatcacagCCTTATGGT---AGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGTAGTGTCCCATTCAACCCCATTGAGgtatccaagatagagttagatctgaaaggctgtgtaaggacgtggactac Alignment from Spaln_nt2Genome -CTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG gaaatacccagctcagttacacgttcactttgtgttcttttccatcacagCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGTAGTGTCCCATTCAACCCCATTGAGgtatccaagatagagttagatctgaaaggctgtgtaaggacgtggactac Alignment from Pairagon ATTCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG gaaatacccagctcagttacacgttcactttgtgttcttttccatcacag---CCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGTAGTGTCCCATTCAACCCCATTGAGgtatccaagatagagttagatctgaaaggctgtgtaaggacgtggactac Alignment from Exonerate_protein2genome CCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG gaaatacccagctcagttacacgttcactttgtgttcttttccatcacagCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGTAGTGTCCCATTCAACCCCATTGAGgtatccaagatagagttagatctgaaaggctgtgtaaggacgtggactac Alignment from Exonerate_coding2genome CCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG gaaatacccagctcagttacacgttcactttgtgttcttttccatcacagCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGTAGTGTCCCATTCAACCCCATTGAGgtatccaagatagagttagatctgaaaggctgtgtaaggacgtggactac Alignment from GeneWise CCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGCAGTGTCCCCTTCAATCCCATCGAG gaaatacccagctcagttacacgttcactttgtgttcttttccatcacagCCTTATGGTAGAAAGTATGACAAAACGTGGCTTCTGAGCATGATTCAGAGCAAATGTAGTGTCCCATTCAACCCCATTGAGgtatccaagatagagttagatctgaaaggctgtgtaaggacgtggactac #### Nxf1_ID2345_5 --> 0 - 0 Original Alignment TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggactacaaattgaagattctttatggtacttactttttgatgtttcag------------AATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtagacaagggcctgtgaaacacagttagaacactaaggagcacta Alignment from CESAR TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tgtgtaaggacgtggactacaaatttggtacttactttttgatgtttcag------------AATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtagacaagggcctgtgaaacacagttagaacactaaggagcacta Alignment from Spaln_aa2Genome TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggactacaaattgaagattctttatggtacttactttttgatgtttcag------------AATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtagacaagggcctgtgaaacacagttagaacactaaggagcacta Alignment from Spaln_nt2Genome -ATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggactacaaattgaagattctttatggtacttactttttgatgtttcagAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtagacaagggcctgtgaaacacagttagaacactaaggagcacta Alignment from Pairagon TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggactacaaattgaagattctttatggtacttactttttgatgtttcag------------AATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtagacaagggcctgtgaaacacagttagaacactaaggagcacta Alignment from Exonerate_protein2genome CTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggactacaaattgaagattctttatggtacttactttttgatGTTTCAGAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtagacaagggcctgtgaaacacagttagaacactaaggagcacta Alignment from Exonerate_coding2genome CTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggactacaaattgaagattctttatggtacttactttttgatGTTTCAGAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtagacaagggcctgtgaaacacagttagaacactaaggagcacta Alignment from GeneWise ---------------------TTTCACTATGAAAATACACGGGCCCATTTTTTTGTGGAGGATGCCACTACTGCTTCTGCATTAAAGGGTGTCAACCATAAGATCCAGGATCGAGAAAACAGAAGG tggactacaaattgaagATTCTTTATGGTACTTACTTTTTGATGTTTCAGAATACACGTGCTCATTTTTTTGTGGAGGATGCAACTACTGGTTCCACATTAAAAGGTGTAAACCATAAGATCCAGGATCGAGAGAACAGACGGgtaagtagacaagggcctgtgaaacacagttagaacactaaggagcacta #### Nxf1_ID2346_6 --> 0 - 0 Original Alignment ---------ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacgctgtccccaattgtcttctgctttgctatcattgtcttaagGGAGACGCAATATCGATCATCATTAATGCATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCCGAACAAATAGAACAGCTCAAGgtgaatctggctccagtcacaaggccctcaacctccatcattgatggcta Alignment from CESAR ---------ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacgctgtccccaattgtcttctgctttgctatcattgtcttaagGGAGACGCAATATCGATCATCATTAATGCATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCCGAACAAATAGAACAGCTCAAGgtgaatctggctccagtcacaaggccctcaacctccatcattgatggcta Alignment from Spaln_aa2Genome ATATCTATCATCATCAAT---------GCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacgctgtccccaattgtcttctgctttgctatcattgtcttaagGGAGACGCAATATCGATCATCATTAATGCATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCCGAACAAATAGAACAGCTCAAGgtgaatctggctccagtcacaaggccctcaacctccatcattgatggcta Alignment from Spaln_nt2Genome ---------ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacgctgtccccaattgtcttctgctttgctatcattgtcttaagGGAGACGCAATATCGATCATCATTAATGCATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCCGAACAAATAGAACAGCTCAAGgtgaatctggctccagtcacaaggccctcaacctccatcattgatggcta Alignment from Pairagon ---------ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacgctgtccccaattgtcttctgctttgctatcattgtcttaagGGAGACGCAATATCGATCATCATTAATGCATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCCGAACAAATAGAACAGCTCAAGgtgaatctggctccagtcacaaggccctcaacctccatcattgatggcta Alignment from Exonerate_protein2genome -----ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacgctgtccccaattgtcttctgctttgctatcattgtcttaagggagACGCAATATCGATCATCATTAATGCATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCCGAACAAATAGAACAGCTCAAGgtgaatctggctccagtcacaaggccctcaacctccatcattgatggcta Alignment from Exonerate_coding2genome -----ATATCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacgctgtccccaattgtcttctgctttgctatcattgtcttaagggagACGCAATATCGATCATCATTAATGCATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCCGAACAAATAGAACAGCTCAAGgtgaatctggctccagtcacaaggccctcaacctccatcattgatggcta Alignment from GeneWise --------TCTATCATCATCAATGCTTCTGCTCCACCCTACACTGTACAGAATGAACTGAAGCCCGAACAAATAGAGCAGCTCAAG gttattacgctgtccccaattgtcttctgctttgctatcattgtcttaagggagACGCAATATCGATCATCATTAATGCATCTGCTCCACCCTACACTGTGCAGAATGAACTGAAGGCCGAACAAATAGAACAGCTCAAGgtgaatctggctccagtcacaaggccctcaacctccatcattgatggcta #### Nxf1_ID2348_8 --> 2 - 0 Original Alignment at---------TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctaagacttcccctcacttctttcttaccttaagatTTATGGGAATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCGAAGAGAACATTCCTGAGgtaccagttctttctttttttatttcaccattttaacttaattaactagt Alignment from CESAR at---------TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctaagacttcccctcacttctttcttaccttaagatTTATGGGAATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCGAAGAGAACATTCCTGAGgtaccagttctttctttttttatttcaccattttaacttaattaactagt Alignment from Spaln_aa2Genome ATTTGGTGGCCCAG---------AACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctaagacttcccctcacttctttcttaccttaagATTTATGGGAATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCGAAGAGAACATTCCTGAGgtaccagttctttctttttttatttcaccattttaacttaattaactagt Alignment from Spaln_nt2Genome ATTT---------GGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctaagacttcccctcacttctttcttaccttaagATTTATGGGAATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCGAAGAGAACATTCCTGAGgtaccagttctttctttttttatttcaccattttaacttaattaactagt Alignment from Pairagon AT---------TTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctaagacttcccctcacttctttcttaccttaagATTTATGGGAATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCGAAGAGAACATTCCTGAGgtaccagttctttctttttttatttcaccattttaacttaattaactagt Alignment from Exonerate_protein2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctaagacttcccctcacttctttcttaccttaagatttatgggAATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCGAAGAGAACATTCCTGAGgtaccagttctttctttttttatttcaccattttaacttaattaactagt Alignment from Exonerate_coding2genome ATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctaagacttcccctcacttctttcttaccttaagatttatgggAATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCGAAGAGAACATTCCTGAGgtaccagttctttctttttttatttcaccattttaacttaattaactagt Alignment from GeneWise --------GATTTGGTGGCCCAGAACATCGATGTTGTTCTAAACCGCAGAAGCTGTATGGCAGCCACCCTGCGGATCATTGAAGAGAACATTCCTGAG ggtatgggcacaatctctaagacttcccctcacttctttcttaccttaagATTTATGGGAATTGGTGGCTCAGAACATTGTTGTTGTTCTAAACCGCAGGAGCTGCATGGCAGCCACCCTCCGCATCATCGAAGAGAACATTCCTGAGgtaccagttctttctttttttatttcaccattttaacttaattaactagt #### Nxf1_ID2352_12 --> 0 - 0 Original Alignment ------------------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtttttattcagtttctcatagcctgtttcctacctactgcagGGCATCCCTCAACCACCTGATGGCCATGAGCTACCCCCTCCGATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtaaggggtggggctagaattagaactgtgagagcagagaatattggtcc Alignment from CESAR ------------------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtttttattcagtttctcatagcctgtttcctacctactgcagGGCATCCCTCAACCACCTGATGGCCATGAGCTACCCCCTCCGATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtaaggggtggggctagaattagaactgtgagagcagagaatattggtcc Alignment from Spaln_aa2Genome ----------------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtttttattcagtttctcatagcctgtttcctacctactgcagGGCATCCCTCAACCACCTGATGGCCATGAGCTACCCCCTCCGATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtaaggggtggggctagaattagaactgtgagagcagagaatattggtcc Alignment from Spaln_nt2Genome GC-CTGGATGGCCATG------------AGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtttttattcagtttctcatagcctgtttcctacctactgcagGGCATCCCTCAACCACCTGATGGCCATGAGCTACCCCCTCCGATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtaaggggtggggctagaattagaactgtgagagcagagaatattggtcc Alignment from Pairagon ------------------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtttttattcagtttctcatagcctgtttcctacctactgcagGGCATCCCTCAACCACCTGATGGCCATGAGCTACCCCCTCCGATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtaaggggtggggctagaattagaactgtgagagcagagaatattggtcc Alignment from Exonerate_protein2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtttttattcagtttctcatagcctgtttcctacctactgcagggcatccctcaaccacctGATGGCCATGAGCTACCCCCTCCGATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtaaggggtggggctagaattagaactgtgagagcagagaatattggtcc Alignment from Exonerate_coding2genome GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtttttattcagtttctcatagcctgtttcctacctactgcagggcatccctcaaccacctGATGGCCATGAGCTACCCCCTCCGATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtaaggggtggggctagaattagaactgtgagagcagagaatattggtcc Alignment from GeneWise ------------------GATGGCCATGAGCTACCCCCTCCAATTTCCTTTGATGTCGAAGCCCCTACAATGTTACCACCCTGCAAG aaatccagtttttattcagtttctcatagcctgtttcctacctactgcagGGCATCCCTCAACCACCTGATGGCCATGAGCTACCCCCTCCGATTTCCTTTGACGTTGAAGCCCCTACAATGTTACCACCCTGCAAGgtaaggggtggggctagaattagaactgtgagagcagagaatattggtcc #### Nxf1_ID2354_14 --> 1 - 2 Original Alignment gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg aatgactggactatgcatacttattggttaggttggcattcccgttgcaggTACTACGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCACGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---aggtaagtagtgcatatgtttgaccctatctggaacccttacaacccccaga Alignment from CESAR gTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCcg aatgactggactatgcatacttattggttaggttggcattcccgttgcaggTACTACGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCACGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---aggtaagtagtgcatatgtttgaccctatctggaacccttacaacccccaga Alignment from Spaln_aa2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGT aatgactggactatgcatacttattggttaggttggcattcccgttgcagGTACTACGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCACGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTAGgtaagtagtgcatatgtttgaccctatctggaacccttacaacccccaga Alignment from Spaln_nt2Genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCT-GTCCG aatgactggactatgcatacttattggttaggttggcattcccgttgcagGTACTACGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCACGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTAGGTAAgtagtgcatatgtttgaccctatctggaacccttacaacccccaga Alignment from Pairagon GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG aatgactggactatgcatacttattggttaggttggcattcccgttgcagGTACTACGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCACGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTA---Ggtaagtagtgcatatgtttgaccctatctggaacccttacaacccccaga Alignment from Exonerate_protein2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG aatgactggactatgcatacttattggttaggttggcattcccgttgcagGTACTACGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCACGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---AGgtaagtagtgcatatgtttgaccctatctggaacccttacaacccccaga Alignment from Exonerate_coding2genome GTACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGTCCG aatgactggactatgcatacttattggttaggttggcattcccgttgcagGTACTACGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCACGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCT---AGgtaagtagtgcatatgtttgaccctatctggaacccttacaacccccaga Alignment from GeneWise --------------------TACTATGTAATTTATGACTCAGGAGACCGCCAGGGTCTCCTGTATGCCTACCATGATGGCGCCTGTTGCTCGCTAAGCATTCCTTACAACCCTCAGAATCCTGT aatgactggactatgcatacttattggttagGTTGGCATTCCCGTTGCAGGTACTACGTCATTTGTGACTCAGGAGACCGTCAGGGTCTTCTGTATGCCTACCACGATGGTGCTTGTTGCTCATTAAGCATCCCTTACAACCCTCAGAACCCTAGgtaagtagtgcatatgtttgaccctatctggaacccttacaacccccaga #### Nxf1_ID2355_15 --> 1 - 1 Original Alignment aAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCa ccactgttccaactactacagaacagtacgggtctctggttgggtgacaga---------GCTGAATATGTCAAAGACTGTAGAAATGTAAAGAAGCTTAAAGAACCCagtacgtgcattgtgtgagcaatccaggtgggagacaatcagtagagccag Alignment from CESAR aAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCa gattacaggccactgttccaactacgtacgggtctctggttgggtgacaga---------GCTGAATATGTCAAAGACTGTAGAAATGTAAAGAAGCTTAAAGAACCCagtacgtgcattgtgtgagcaatccaggtgggagacaatcagtagagccag Alignment from Spaln_aa2Genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA ccactgttccaactactacagaacagtacgggtctctggttgggtgacagA---------GCTGAATATGTCAAAGACTGTAGAAATGTAAAGAAGCTTAAAGAACCCAgtacgtgcattgtgtgagcaatccaggtgggagacaatcagtagagccag Alignment from Spaln_nt2Genome AGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA ccactgttccaactactacagaacagtacgggtctctggttgggtgacagAGCTGAATATGTCAAAGACTGTAGAAATGTAAAGAAGCTTAAAGAACCCAgtacgtgcattgtgtgagcaatccaggtgggagacaatcagtagagccag Alignment from Pairagon AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA ccactgttccaactactacagaacagtacgggtctctggttgggtgacag---------AGCTGAATATGTCAAAGACTGTAGAAATGTAAAGAAGCTTAAAGAACCCAgtacgtgcattgtgtgagcaatccaggtgggagacaatcagtagagccag Alignment from Exonerate_protein2genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA ccactgttccaactactacagaacagtacgggtctctggttGGGTGACAGAGCTGAATATGTCAAAGACTGTAGAAATGTAAAGAAGCTTAAAGAACCCAgtacgtgcattgtgtgagcaatccaggtgggagacaatcagtagagccag Alignment from Exonerate_coding2genome AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA ccactgttccaactactacagaacagtacgggtctctggttGGGTGACAGAGCTGAATATGTCAAAGACTGTAGAAATGTAAAGAAGCTTAAAGAACCCAgtacgtgcattgtgtgagcaatccaggtgggagacaatcagtagagccag Alignment from GeneWise AAAAAACTTAGCTGAATATGTCAAAGACAGCAGAAATGTGAAGAAGCTTAAAGAACCCA ccactgttccaactactacagaacagtacgggtctctggttgggtgacagA---------GCTGAATATGTCAAAGACTGTAGAAATGTAAAGAAGCTTAAAGAACCCAgtacgtgcattgtgtgagcaatccaggtgggagacaatcagtagagccag #### Nxf1_ID2356_16 --> 2 - 0 Original Alignment ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA agccaatttagtcaaagcctacatttggctttcttcatgatcatttctagccCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGATATAAGTGCCCAA---gtaggtttgtcctgttttatcctaacagaaacctagaggtggggtgaata Alignment from CESAR ccCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA agccaatttagtcaaagcctacatttggctttcttcatgatcatttctagccCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGATATAAGTGCCCAA---gtaggtttgtcctgttttatcctaacagaaacctagaggtggggtga Alignment from Spaln_aa2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAA agccaatttagtcaaagcctacatttggctttcttcatgatcatttctagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGATATAAGTGCCCAAgtaggtttgtcctgttttatcctaacagaaacctagaggtggggtgaata Alignment from Spaln_nt2Genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAA agccaatttagtcaaagcctacatttggctttcttcatgatcatttctagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGATATAAGTGCCCAAgtaggtttgtcctgttttatcctaacagaaacctagaggtggggtgaata Alignment from Pairagon CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAA agccaatttagtcaaagcctacatttggctttcttcatgatcatttctagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGATATAAGTGCCCAAgtaggtttgtcctgttttatcctaacagaaacctagaggtggggtgaata Alignment from Exonerate_protein2genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGCACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAG agccaatttagtcaaagcctacatttggctttcttcatgatcatttctagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGATATAAGTGCCCAAGTAGGT---TTGTCCTGTTTTATCCTAACAGAAACCTAGAGGTGGGgtga Alignment from Exonerate_coding2genome CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACA agccaatttagtcaaagcctacatttggctttcttcatgatcatttctagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGATATAAGTGCCCAA---gtaggtttgtcctgttttatcctaacagaaacctagaggtggggtga Alignment from GeneWise CCCAGCGGTTCCGACTCTTAAAGCATACACGTCTTAATGTCGTTGCCTTCCTCAATGAGTTACCCAAAACTCAACATGACGTTAACGCCTTCGTGGTAGATATAAGTGCCCAAACAAGC-- agccaatttagtcaaagcctacatttggctttcttcatgatcatttctagCCCAGCGGTTCCGACTCCTAAAGCATACACGTCTGAATGTTGTTGCCTTCCTTAATGAGTTACCCAAAACTCAACATGATGTCAATGCCTTTGTGGTAGATATAAGTGCCCAAGTAGGTTTgtcctgttttatcctaacagaaacctagaggtggggtgaata #### Nxf1_ID2358_18 --> 2 - 2 Original Alignment tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA------gg tgcagcttaaatgactataaggagctggcttactgttttttgtttttcagtgGATGGGAAGTCTCGAGACTCTTTACATGCTTTTACAAGGACGTTCATTGCTGTTCCTGCCAGCAATACCTCCAAGgggtgagtagttaacttattagattgagtactatcatcaatgtgctaggaag Alignment from CESAR tgGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA------gg tgcagcttaaatgactataaggagctggcttactgttttttgtttttcagtgGATGGGAAGTCTCGAGACTCTTTACATGCTTTTACAAGGACGTTCATTGCTGTTCCTGCCAGCAATACCTCCAAGgggtgagtagttaacttattagattgagtactatcatcaatgtgctaggaag Alignment from Spaln_aa2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCAGGG----- tgcagcttaaatgactataaggagctggcttactgttttttgtttttcagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTTACAAGGACGTTCATTGCTGTTCCTGCCAGCAATACCTCCAAGGGgtgagtagttaacttattagattgagtactatcatcaatgtgctaggaag Alignment from Spaln_nt2Genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA------GG tgcagcttaaatgactataaggagctggcttactgttttttgtttttcagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTTACAAGGACGTTCATTGCTGTTCCTGCCAGCAATACCTCCAAGGGgtgagtagttaacttattagattgagtactatcatcaatgtgctaggaag Alignment from Pairagon TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTC------AGG tgcagcttaaatgactataaggagctggcttactgttttttgtttttcagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTTACAAGGACGTTCATTGCTGTTCCTGCCAGCAATACCTCCAAGGGgtgagtagttaacttattagattgagtactatcatcaatgtgctaggaag Alignment from Exonerate_protein2genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA------GG tgcagcttaaatgactataaggagctggcttactgttttttgtttttcagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTTACAAGGACGTTCATTGCTGTTCCTGCCAGCAATACCTCCAAGGGgtgagtagttaacttattagattgagtactatcatcaatgtgctaggaag Alignment from Exonerate_coding2genome TGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA------GG tgcagcttaaatgactataaggagctggcttactgttttttgtttttcagTGGATGGGAAGTCTCGAGACTCTTTACATGCTTTTACAAGGACGTTCATTGCTGTTCCTGCCAGCAATACCTCCAAGGGgtgagtagttaacttattagattgagtactatcatcaatgtgctaggaag Alignment from GeneWise -------ACATTACTGTGTTTTTCTGTCAATGGAGTCTTCAAGGAAGTGGATGGGAAGTCTCGAGATTCTTTACGTGCTTTCACAAGAACGTTCATTGCTGTTCCTGCCAGCAATTCA------GG tgcagcttaaatgactataaggagCTGGCTTACTGTTTTTTGTTTTTCAGTG---------------------GATGGGAAGTCTCGAGACTCTTTACATGCTTTTACAAGGACGTTCATTGCTGTTCCTGCCAGCAATACCTCCAAGGGgtgagtagttaacttattagattgagtactatcatcaatgtgctaggaag #### Otub1_ID2061_5 --> 1 - 0 Original Alignment gTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG atccaatgagcccacattggctccaacactcctcctctgtttccgagcagg------GCAGTGTCTGCCAAGAGTAAAGAAGACCTGGTATCCCAGGGCTTCACTGAGTTTACAATTGAAGACTTCCACAACACAgtacaggagctcacccatatctggctgggttagtactgttgccatttctg Alignment from CESAR gTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG tctgctatccaatgagcccacattgacactcctcctctgtttccgagcagg------GCAGTGTCTGCCAAGAGTAAAGAAGACCTGGTATCCCAGGGCTTCACTGAGTTTACAATTGAAGACTTCCACAACACAgtacaggagctcacccatatctggctgggttagtactgttgccatttctg Alignment from Spaln_aa2Genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG caatgagcccacattggctccaacactcctcctctgtttccgagC---AGGGCAGTGTCTGCCAAGAGTAAAGAAGACCTGGTATCCCAGGGCTTCACTGAGTTTACAATTGAAGACTTCCACAACACAgtacaggagctcacccatatctggctgggttagtactgttgccatttctg Alignment from Spaln_nt2Genome AGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG atccaatgagcccacattggctccaacactcctcctctgtttccgagcagGGCAGTGTCTGCCAAGAGTAAAGAAGACCTGGTATCCCAGGGCTTCACTGAGTTTACAATTGAAGACTTCCACAACACAgtacaggagctcacccatatctggctgggttagtactgttgccatttctg Alignment from Pairagon TCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACAC--------------------------------------------------- atccaatgagcccacattggctccaacactcctcctctgtttccgagcagggcag---------TGTCTGCCAAGAGTAAAGAAGACCTGGTATCCCAGGGCTTCACTGAGTTTACAATTGAAGACTTCCACAACACAGTACAGGAGCTCACCCATATCTGGCTGGGTTAGTACTGTTGCCATTTCTG Alignment from Exonerate_protein2genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG atccaatgagcccacattggctccaacactcctcctctgtttccGAGCAGGGCAGTGTCTGCCAAGAGTAAAGAAGACCTGGTATCCCAGGGCTTCACTGAGTTTACAATTGAAGACTTCCACAACACAgtacaggagctcacccatatctggctgggttagtactgttgccatttctg Alignment from Exonerate_coding2genome GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG atccaatgagcccacattggctccaacactcctcctctgtttccGAGCAGGGCAGTGTCTGCCAAGAGTAAAGAAGACCTGGTATCCCAGGGCTTCACTGAGTTTACAATTGAAGACTTCCACAACACAgtacaggagctcacccatatctggctgggttagtactgttgccatttctg Alignment from GeneWise GTTCAAAGCCGTGTCTGCCAAGAGTAAAGAGGACCTGGTATCCCAGGGCTTCACTGAATTCACAATTGAAGACTTCCACAACACG caatgagcccacattggctccaacactcctcctctgtttccgagC---AGGGCAGTGTCTGCCAAGAGTAAAGAAGACCTGGTATCCCAGGGCTTCACTGAGTTTACAATTGAAGACTTCCACAACACAgtacaggagctcacccatatctggctgggttagtactgttgccatttctg #### Pacs1_ID876_18 --> 2 - 2 Original Alignment agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt ggctctctgaggaactataatactagaattgtcttctctccttcccacagagCCACTAGACGTGGTGGGTCGTGTGATGCAATATGTCAATGGAGCTATCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGC---------ttgtacttctatggtaagggacatcagcagctttctagaattgggtagattg Alignment from CESAR agCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGtt ggctctctgaggaactataatactagaattgtcttctctccttcccacagagCCACTAGACGTGGTGGGTCGTGTGATGCAATATGTCAATGGAGCTATCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGC---------ttgtacttctatggtaagggacatcagcagctttctagaattgggtagattg Alignment from Spaln_aa2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAG ggctctctgaggaactataatactagaattgtcttctctccttcccacagAGCCACTAGACGTGGTGGGTCGTGTGATGCAATATGTCAATGGAGCTATCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCTTgtacttctatggtaagggacatcagcagctttctagaattgggtagattg Alignment from Spaln_nt2Genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAG ggctctctgaggaactataatactagaattgtcttctctccttcccacagAGCCACTAGACGTGGTGGGTCGTGTGATGCAATATGTCAATGGAGCTATCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCTTgtacttctatggtaagggacatcagcagctttctagaattgggtagattg Alignment from Pairagon AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCATAAGTT ggctctctgaggaactataatactagaattgtcttctctccttcccacagAGCCACTAGACGTGGTGGGTCGTGTGATGCAATATGTCAATGGAGCTATCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGC---------TTgtacttctatggtaagggacatcagcagctttctagaattgggtagattg Alignment from Exonerate_protein2genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCAT--AAGTT ggctctctgaggaactataatactagaattgtcttctctccttcccacagAGCCACTAGACGTGGTGGGTCGTGTGATGCAATATGTCAATGGAGCTATCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCTTGTACTTCTATGgtaagggacatcagcagctttctagaattgggtagattg Alignment from Exonerate_coding2genome AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAGGCAT--AAGTT ggctctctgaggaactataatactagaattgtcttctctccttcccacagAGCCACTAGACGTGGTGGGTCGTGTGATGCAATATGTCAATGGAGCTATCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCTTGTACTTCTATGgtaagggacatcagcagctttctagaattgggtagattg Alignment from GeneWise AGCCACTGGACGTGGTGGGTCGTGTGATGCAGTATGTCAATGGAGCTACCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCAG ggctctctgaggaactataatactagaattgtcttctctccttcccacagAGCCACTAGACGTGGTGGGTCGTGTGATGCAATATGTCAATGGAGCTATCACAACACACCAGCTGCCTGTGGCTGAAGCCATGTTGACCTGCTTgtacttctatggtaagggacatcagcagctttctagaattgggtagattg #### Pacs1_ID878_16 --> 1 - 1 Original Alignment cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAg aagaatgctgagacctaatatgatgaccccagcccctcttcttgctctagc---AACTGCAACTCATCCATGCCAAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGTTTCCTCATCATTCTCCTAggtaaggcctgaccattgaggagttctttgttaacagacctggttcctaca Alignment from CESAR cTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAg gagaagaatgctgagacctaatatgaccccagcccctcttcttgctctagc---AACTGCAACTCATCCATGCCAAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGTTTCCTCATCATTCTCCTAggtaaggcctgaccattgaggagttctttgttaacagacctggttcctaca Alignment from Spaln_aa2Genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aagaatgctgagacctaatatgatgaccccagcccctcttcttgctctagC---AACTGCAACTCATCCATGCCAAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGTTTCCTCATCATTCTCCTAGgtaaggcctgaccattgaggagttctttgttaacagacctggttcctaca Alignment from Spaln_nt2Genome CAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aagaatgctgagacctaatatgatgaccccagcccctcttcttgctctagCAACTGCAACTCATCCATGCCAAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGTTTCCTCATCATTCTCCTAGgtaaggcctgaccattgaggagttctttgttaacagacctggttcctaca Alignment from Pairagon CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aagaatgctgagacctaatatgatgaccccagcccctcttcttgctctag---CAACTGCAACTCATCCATGCCAAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGTTTCCTCATCATTCTCCTAGgtaaggcctgaccattgaggagttctttgttaacagacctggttcctaca Alignment from Exonerate_protein2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aagaatgctgagacctaatatgatgaccccagcccctcttcttgctcTAGCAACTGCAACTCATCCATGCCAAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGTTTCCTCATCATTCTCCTAGgtaaggcctgaccattgaggagttctttgttaacagacctggttcctaca Alignment from Exonerate_coding2genome CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aagaatgctgagacctaatatgatgaccccagcccctcttcttgctcTAGCAACTGCAACTCATCCATGCCAAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGTTTCCTCATCATTCTCCTAGgtaaggcctgaccattgaggagttctttgttaacagacctggttcctaca Alignment from GeneWise CTGCAACTGCAACTCATCCATGCCGAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTGAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGCTTCCTCATCATTCCCCTAG aagaatgctgagacctaatatgatgaccccagcccctcttcttgctctagC---AACTGCAACTCATCCATGCCAAGGCCGGTCAAGGTGGCAGCTGTGGGCAGCCAGAGCTACCTTAGCTCCATCCTCCGTTTTTTTGTCAAGTCCCTTGCCAGCAAGACCCCAGACTGGCTGGGTTACATGCGTTTCCTCATCATTCTCCTAGgtaaggcctgaccattgaggagttctttgttaacagacctggttcctaca #### Patl1_ID3333_18 --> 1 - 2 Original Alignment gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTG---------ca tggtctccctccctttcccttctatttccttcttccctgtttctcccaaggACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGCTGCCCTTTCCAATCCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGATTTTTCTGcagtgagttttgaacacatttcattaccttctcagacattgcaacacaggac Alignment from CESAR gACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTG---------ca tggtctccctccctttcccttctatttccttcttccctgtttctcccaaggACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGCTGCCCTTTCCAATCCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGATTTTTCTGcagtgagttttgaacacatttcattaccttctcagacattgcaacacaggac Alignment from Spaln_aa2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAA---------CTGCA tggtctccctccctttcccttctatttccttcttccctgtttctcccaagGACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGCTGCCCTTTCCAATCCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGATTTTTCTGCAgtgagttttgaacacatttcattaccttctcagacattgcaacacaggac Alignment from Spaln_nt2Genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTG---------CA tggtctccctccctttcccttctatttccttcttccctgtttctcccaagGACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGCTGCCCTTTCCAATCCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGATTTTTCTGCAgtgagttttgaacacatttcattaccttctcagacattgcaacacaggac Alignment from Pairagon GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAA---------CTGCA tggtctccctccctttcccttctatttccttcttccctgtttctcccaagGACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGCTGCCCTTTCCAATCCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGATTTTTCTGCAgtgagttttgaacacatttcattaccttctcagacattgcaacacaggac Alignment from Exonerate_protein2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAG tggtctccctccctttcccttctatttccttcttccctgtttctcccaagGACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGCTGCCCTTTCCAATCCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGATTTTTCTGCAGtgagttttgaacacatttcattaccttctcagacattgcaacacaggac Alignment from Exonerate_coding2genome GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAG tggtctccctccctttcccttctatttccttcttccctgtttctcccaagGACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGCTGCCCTTTCCAATCCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGATTTTTCTGCAGtgagttttgaacacatttcattaccttctcagacattgcaacacaggac Alignment from GeneWise GACAGAGGTGATGTTCATGGCAACCCGAGAACTTCTACGGATCCCCCAAGCTGCCCTGGCCAAACCAATCTCTATCCCTACAAATCTAGTGTCCCTTTTTTCTCGCTATGTTGACCGGCAGAAACTGAACTTGCTGGAAACAAAACTGCAGCTGGTTCAGGGGATACGG tggtctccctccctttcccttctatttccttcttccctgtttctcccaagGACAGAGGTGATGTTCATGGCAACCCGAGAACTTGTTCGCATCCTCCAAGCTGCCCTTTCCAATCCAATCTCTATCCCTACAAATCTAGTGTCTCTTTTTTCTCGTTTTGTTGACCGACAGAAACTGAACTTGTTAGAAACCAAACTGATTTTTCTGCAG---------tgagttttgaacacatttcattaccttctcagacattgca #### Pcnxl3_ID1159_34 --> 2 - 0 Original Alignment gc---------AGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgcgtgagacagcacgccagctgccaagggctgtatctatttttccttaggcGATTCTATCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGGGGTACCCCCAAATCTCAGgttggtagcctgtggaaaaaggcaaccccaggagctctcaggttggttca Alignment from CESAR gc---------AGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgcgtgagacagcacgccagctgccaagggctgtatctatttttccttaggcGATTCTATCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGGGGTACCCCCAAATCTCAGgttggtagcctgtggaaaaaggcaaccccaggagctctcaggttggttca Alignment from Spaln_aa2Genome GCAGCAGTGAGCAGCCCCTC---------CCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgcgtgagacagcacgccagctgccaagggctgtatctatttttccttagGCGATTCTATCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGGGGTACCCCCAAATCTCAGgttggtagcctgtggaaaaaggcaaccccaggagctctcaggttggttca Alignment from Spaln_nt2Genome GCAGCAGTGA---------GCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgcgtgagacagcacgccagctgccaagggctgtatctatttttccttagGCGATTCTATCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGGGGTACCCCCAAATCTCAGgttggtagcctgtggaaaaaggcaaccccaggagctctcaggttggttca Alignment from Pairagon ------------------------------------------------------------CAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG TGCGTGAGACAGCACGCCAGCTGCCAAGGGCTGTATCTATTTTTCCTTAGGCGATTCTATCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGGGGTACCCCCAAATCTCAGgttggtagcctgtggaaaaaggcaaccccaggagctctcaggttggttca Alignment from Exonerate_protein2genome TGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgcgtgagacagcacgccagctgccaagggctgtatctatttttccttaggcgattctatcagcagTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGGGGTACCCCCAAATCTCAGgttggtagcctgtggaaaaaggcaaccccaggagctctcaggttggttca Alignment from Exonerate_coding2genome TGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgcgtgagacagcacgccagctgccaagggctgtatctatttttccttaggcgattctatcagcagTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGGGGTACCCCCAAATCTCAGgttggtagcctgtggaaaaaggcaaccccaggagctctcaggttggttca Alignment from GeneWise --------GGCAGCAGTGAGCAGCCCCTCCCACCAGGTCCTAGCTGGGGACCACGGCCTTCCCTCAGTGGCTCTGGTGATGGGCGGCCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGCTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCTGAGGGACCCAGTGGGAAGTGGAGTCTGGGGGGTCGGAAGGGACTGGGAGGACCTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGAGGCACCCCCAAATCTCAG tgcgtgagacagcacgccagctgccaagggctgtatctatttttccttagGCGATTCTATCAGCAGTGAGCAGCCCCTTCCACCAGGTCCTAGCTGGGGACCCCGGCCTTCCCTAAGTGGCTCTGGTGATGGGCGACCCCCTCCTCTGCTGCAGTGGCCTCCCCCTCGGCTCCCTGGACCACCCCCTGTTTCACCTGCTCCCACTGAGGGTCCCCGGCCCTCAAGACCTTCTGGCCCTGCTCTCCTCAATTCAGAGGGACCCAGTGGGAAGTGGAGTTTGGGGGGTCGGAAGGGACTGGGAGGAACTGATGGGGAGCCAGCCTCAGGGAGCCCCAAAGGGGGTACCCCCAAATCTCAGgttggtagcctgtggaaaaaggcaaccccaggagctctcaggttggttca #### Pcnxl3_ID1160_33 --> 1 - 1 Original Alignment aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA------------g cacaatgcctcgccatgtacccctcatactgtctcctcttttgcctacagaCTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTGGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAATCATCCTCCCTTGGTGCATCCTACGCCTGAAAATGCAGCAGAAAACGGACAAggtaagtgcaaagcttaattgaaactatgcgtgagacagcacgccagctgc Alignment from CESAR aCTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA------------g cacaatgcctcgccatgtacccctcatactgtctcctcttttgcctacagaCTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTGGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAATCATCCTCCCTTGGTGCATCCTACGCCTGAAAATGCAGCAGAAAACGGACAAggtaagtgcaaagcttaattgaaactatgcgtgagacagcacgccagctgc Alignment from Spaln_aa2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA------------G cacaatgcctcgccatgtacccctcatactgtctcctcttttgcctacagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTGGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAATCATCCTCCCTTGGTGCATCCTACGCCTGAAAATGCAGCAGAAAACGGACAAGgtaagtgcaaagcttaattgaaactatgcgtgagacagcacgccagctgc Alignment from Spaln_nt2Genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG------------ cacaatgcctcgccatgtacccctcatactgtctcctcttttgcctacagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTGGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAATCATCCTCCCTTGGTGCATCCTACGCCTGAAAATGCAGCAGAAAACGGACAAGgtaagtgcaaagcttaattgaaactatgcgtgagacagcacgccagctgc Alignment from Pairagon ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG------------ cacaatgcctcgccatgtacccctcatactgtctcctcttttgcctacagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTGGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAATCATCCTCCCTTGGTGCATCCTACGCCTGAAAATGCAGCAGAAAACGGACAAGgtaagtgcaaagcttaattgaaactatgcgtgagacagcacgccagctgc Alignment from Exonerate_protein2genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG cacaatgcctcgccatgtacccctcatactgtctcctcttttgcctacagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTGGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAATCATCCTCCCTTGGTGCATCCTACGCCTGAAAATGCAGCAGaaaacggacaaggtaagtgcaaagcttaattgaaactatgcgtgagacagcacgccagctgc Alignment from Exonerate_coding2genome ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCAG cacaatgcctcgccatgtacccctcatactgtctcctcttttgcctacagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTGGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAATCATCCTCCCTTGGTGCATCCTACGCCTGAAAATGCAGCAGaaaacggacaaggtaagtgcaaagcttaattgaaactatgcgtgagacagcacgccagctgc Alignment from GeneWise ACTTCATAAGGGCTGTGGCGCTGGCTGTAATAGCGGAGGGAATGTGGATGACTCGGACTGTGGTGGGGGTGGCGGCCTGACCTCCCTCAGCAATCATCCGCCCTTGGCACACCCTACGCCTGAAAATGCAGCA------------G cacaatgcctcgccatgtacccctcatactgtctcctcttttgcctacagACTCCATAAGGGCTGTGGTGCTGGCTGTAATAGTGGAGGCAATGTGGATGACTCAGATTGTGGTGGGGGTGGTGGCCTGGCCTCCCTCAGCAATCATCCTCCCTTGGTGCATCCTACGCCTGAAAATGCAGCAGAAAACGGACAAGgtaagtgcaaagcttaattgaaactatgcgtgagacagcacgccagctgc #### Pcnxl3_ID1162_31 --> 0 - 0 Original Alignment GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG ttcccctgaacagtggtccctgttattgcctgacccccactttcttgcag------TTCACATCTCCTGACGAGTATGAGGAACCAGCAGCTCTGTATGACACCATCGCAGCCAATGAGGAACGGCTTGTCATCTCACATGAGGGAGACCCTGCCTGGCGGAGTGCCATTCTCAGCAACACCCCCTCCCTGCTGGCGCTACGCCATGTCATGGATGACGCTTCTGATGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGgtaagtcagatggtcttaatccgtttggcagcccatgttgctccttggtc Alignment from CESAR GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG tatgccttcccctgaacagtggtccttgcctgacccccactttcttgcag------TTCACATCTCCTGACGAGTATGAGGAACCAGCAGCTCTGTATGACACCATCGCAGCCAATGAGGAACGGCTTGTCATCTCACATGAGGGAGACCCTGCCTGGCGGAGTGCCATTCTCAGCAACACCCCCTCCCTGCTGGCGCTACGCCATGTCATGGATGACGCTTCTGATGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGgtaagtcagatggtcttaatccgtttggcagcccatgttgctccttggtc Alignment from Spaln_aa2Genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG ttcccctgaacagtggtccctgttattgcctgacccccactttcttgcag------TTCACATCTCCTGACGAGTATGAGGAACCAGCAGCTCTGTATGACACCATCGCAGCCAATGAGGAACGGCTTGTCATCTCACATGAGGGAGACCCTGCCTGGCGGAGTGCCATTCTCAGCAACACCCCCTCCCTGCTGGCGCTACGCCATGTCATGGATGACGCTTCTGATGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGgtaagtcagatggtcttaatccgtttggcagcccatgttgctccttggtc Alignment from Spaln_nt2Genome GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG ttcccctgaacagtggtccctgttattgcctgacccccactttcttgcag------TTCACATCTCCTGACGAGTATGAGGAACCAGCAGCTCTGTATGACACCATCGCAGCCAATGAGGAACGGCTTGTCATCTCACATGAGGGAGACCCTGCCTGGCGGAGTGCCATTCTCAGCAACACCCCCTCCCTGCTGGCGCTACGCCATGTCATGGATGACGCTTCTGATGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGgtaagtcagatggtcttaatccgtttggcagcccatgttgctccttggtc Alignment from Pairagon GACCATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG ttcccctgaacagtggtccctgttattgcctgacccccactttcttgcag------TTCACATCTCCTGACGAGTATGAGGAACCAGCAGCTCTGTATGACACCATCGCAGCCAATGAGGAACGGCTTGTCATCTCACATGAGGGAGACCCTGCCTGGCGGAGTGCCATTCTCAGCAACACCCCCTCCCTGCTGGCGCTACGCCATGTCATGGATGACGCTTCTGATGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGgtaagtcagatggtcttaatccgtttggcagcccatgttgctccttggtc Alignment from Exonerate_protein2genome CATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG ttcccctgaacagtggtccctgttattgcctgacccccactttcttgCAGTTCACATCTCCTGACGAGTATGAGGAACCAGCAGCTCTGTATGACACCATCGCAGCCAATGAGGAACGGCTTGTCATCTCACATGAGGGAGACCCTGCCTGGCGGAGTGCCATTCTCAGCAACACCCCCTCCCTGCTGGCGCTACGCCATGTCATGGATGACGCTTCTGATGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGgtaagtcagatggtcttaatccgtttggcagcccatgttgctccttggtc Alignment from Exonerate_coding2genome CATTTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG ttcccctgaacagtggtccctgttattgcctgacccccactttcttgCAGTTCACATCTCCTGACGAGTATGAGGAACCAGCAGCTCTGTATGACACCATCGCAGCCAATGAGGAACGGCTTGTCATCTCACATGAGGGAGACCCTGCCTGGCGGAGTGCCATTCTCAGCAACACCCCCTCCCTGCTGGCGCTACGCCATGTCATGGATGACGCTTCTGATGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGgtaagtcagatggtcttaatccgtttggcagcccatgttgctccttggtc Alignment from GeneWise TTCACATCTCCTGATGAGTATGAGGAACCAGCAGCCCTGTATGACGCCATCGCGGCCAATGAGGAGCGGCTAGTCATCTCACATGAGGGGGACCCTGCCTGGCGCAGTGCCATCCTCAGCAACACCCCCTCCCTGCTGGCGCTGCGCCATGTCATGGACGACGCTTCTGACGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAG ttcccctgaacagtggtccctgttattgcctgacccccactttcttgcagTTCACATCTCCTGACGAGTATGAGGAACCAGCAGCTCTGTATGACACCATCGCAGCCAATGAGGAACGGCTTGTCATCTCACATGAGGGAGACCCTGCCTGGCGGAGTGCCATTCTCAGCAACACCCCCTCCCTGCTGGCGCTACGCCATGTCATGGATGACGCTTCTGATGAGTACAAGATCATCATGCTCAACAGGCGCCACCTCAGCTTCCGAGTCATCAAGgtaagtcagatggtcttaatccgtttggcagcccatgttgctccttggtc #### Pcnxl3_ID1163_30 --> 1 - 0 Original Alignment c------------------------CTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG gggaagaaacaaacttctccccctgttgtgtggtctctactgtttttcagcCTTTTTTTTACAGCTTCAATTATTCTAGAGCCCTTCCTCTACGGCCTGCATGCCCTGTTCAAGGGAGACTTCCGGATCACCTCTCCCCGCGATGAATGGGTCTTTGCTGACATGGATCTACTTCACCGAGTGGTAGCCCCGGGGGTTCGTATGGCTCTCAAGCTTCACCAGgtgagtggtataggccaggcagagtaggaggcaggtgtgagatatgcctt Alignment from CESAR c------------------------CTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG gggaagaaacaaacttctccccctgttgtgtggtctctactgtttttcagcCTTTTTTTTACAGCTTCAATTATTCTAGAGCCCTTCCTCTACGGCCTGCATGCCCTGTTCAAGGGAGACTTCCGGATCACCTCTCCCCGCGATGAATGGGTCTTTGCTGACATGGATCTACTTCACCGAGTGGTAGCCCCGGGGGTTCGTATGGCTCTCAAGCTTCACCAGgtgagtggtataggccaggcagagtaggaggcaggtgtgagatatgcctt Alignment from Spaln_aa2Genome AGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG gggaagaaacaaacttctccccctgttgtgtggtctctactgtttttcagccttttttttacagcttcaattattctagAGCCCTTCCTCTACGGCCTGCATGCCCTGTTCAAGGGAGACTTCCGGATCACCTCTCCCCGCGATGAATGGGTCTTTGCTGACATGGATCTACTTCACCGAGTGGTAGCCCCGGGGGTTCGTATGGCTCTCAAGCTTCACCAGgtgagtggtataggccaggcagagtaggaggcaggtgtgagatatgcctt Alignment from Spaln_nt2Genome CCTGGAGCCCTT----------CCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG gggaagaaacaaacttctccccctgttgtgtggtctctactgtttttcagccttttttttacagCTTCAATTATTCTAGAGCCCTTCCTCTACGGCCTGCATGCCCTGTTCAAGGGAGACTTCCGGATCACCTCTCCCCGCGATGAATGGGTCTTTGCTGACATGGATCTACTTCACCGAGTGGTAGCCCCGGGGGTTCGTATGGCTCTCAAGCTTCACCAGgtgagtggtataggccaggcagagtaggaggcaggtgtgagatatgcctt Alignment from Pairagon C----------CTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG gggaagaaacaaacttctccccctgttgtgtggtctctactgtttttcagccttttttttacagCTTCAATTATTCTAGAGCCCTTCCTCTACGGCCTGCATGCCCTGTTCAAGGGAGACTTCCGGATCACCTCTCCCCGCGATGAATGGGTCTTTGCTGACATGGATCTACTTCACCGAGTGGTAGCCCCGGGGGTTCGTATGGCTCTCAAGCTTCACCAGgtgagtggtataggccaggcagagtaggaggcaggtgtgagatatgcctt Alignment from Exonerate_protein2genome CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG gggaagaaacaaacttctccccctgttgtgtggtctctactgtttttcagccttttttttacagcttcaattatTCTAGAGCCCTTCCTCTACGGCCTGCATGCCCTGTTCAAGGGAGACTTCCGGATCACCTCTCCCCGCGATGAATGGGTCTTTGCTGACATGGATCTACTTCACCGAGTGGTAGCCCCGGGGGTTCGTATGGCTCTCAAGCTTCACCAGgtgagtggtataggccaggcagagtaggaggcaggtgtgagatatgcctt Alignment from Exonerate_coding2genome CCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG gggaagaaacaaacttctccccctgttgtgtggtctctactgtttttcagccttttttttacagcttcaattatTCTAGAGCCCTTCCTCTACGGCCTGCATGCCCTGTTCAAGGGAGACTTCCGGATCACCTCTCCCCGCGATGAATGGGTCTTTGCTGACATGGATCTACTTCACCGAGTGGTAGCCCCGGGGGTTCGTATGGCTCTCAAGCTTCACCAGgtgagtggtataggccaggcagagtaggaggcaggtgtgagatatgcctt Alignment from GeneWise ----------------------AGCCTGGAGCCCTTCCTCTATGGCCTGCACGCCCTGTTCAAGGGGGACTTCCGCATCACCTCTCCCCGTGACGAGTGGGTCTTTGCCGACATGGATCTGCTTCACCGAGTGGTAGCCCCTGGGGTTCGCATGGCCCTCAAGCTTCACCAG gggaagaaacaaacttctccccctgttgtgtggtctctactgtttttcagCCTTTTTTTTACAGCTTCAATTATTCTAGAGCCCTTCCTCTACGGCCTGCATGCCCTGTTCAAGGGAGACTTCCGGATCACCTCTCCCCGCGATGAATGGGTCTTTGCTGACATGGATCTACTTCACCGAGTGGTAGCCCCGGGGGTTCGTATGGCTCTCAAGCTTCACCAGgtgagtggtataggccaggcagagtaggaggcaggtgtgagatatgcctt #### Pcnxl3_ID1168_25 --> 1 - 1 Original Alignment cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---g gggttcagagaggaccacccagtgcatatcttccatttctctttgtgaagcACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAATTggtaagttactacttgcctaggccttcacaggcaagttgccccctggaggg Alignment from CESAR cACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---g gggttcagagaggaccacccagtgcatatcttccatttctctttgtgaagcACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAATTggtaagttactacttgcctaggccttcacaggcaagttgccccctggaggg Alignment from Spaln_aa2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---G gggttcagagaggaccacccagtgcatatcttccatttctctttgtgaagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAATTGgtaagttactacttgcctaggccttcacaggcaagttgccccctggaggg Alignment from Spaln_nt2Genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---G gggttcagagaggaccacccagtgcatatcttccatttctctttgtgaagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAATTGgtaagttactacttgcctaggccttcacaggcaagttgccccctggaggg Alignment from Pairagon CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACC-------------------------------------------------------- gggttcagagaggaccacccagtgcatatcttccatttctctttgtgaagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAATTGGTAAGTTACTACTTGCCTAGGCCTTCACAGGCAAGTTGCCCCCTGGAGGG Alignment from Exonerate_protein2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---G gggttcagagaggaccacccagtgcatatcttccatttctctttgtgaagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAATTGgtaagttactacttgcctaggccttcacaggcaagttgccccctggaggg Alignment from Exonerate_coding2genome CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCA---G gggttcagagaggaccacccagtgcatatcttccatttctctttgtgaagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAATTGgtaagttactacttgcctaggccttcacaggcaagttgccccctggaggg Alignment from GeneWise CACTAAACGTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAGGCG gggttcagagaggaccacccagtgcatatcttccatttctctttgtgaagCACTAAACCTGTGGACCATTCTAACACTCGCCTAGTGACACAGCTGGACCGGAACCCAATTGgtaagttactacttgcctaggccttcacaggcaagttgccccctggaggg #### Pcnxl3_ID1169_24 --> 2 - 2 Original Alignment acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa cagaggagaggagagggaggcagactctgcccatgctcttgtgcccgcagac---GCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTCTCTACCCCACTCAACCCCTTACTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaagtatggctcaggggaggtaatgattaagagctgatgtcccagaggcctta Alignment from CESAR acTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaa ctgcagaggagaggagagggaggcatctgcccatgctcttgtgcccgcagac---GCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTCTCTACCCCACTCAACCCCTTACTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACaagtatggctcaggggaggtaatgattaagagctgatgtcccagaggcctta Alignment from Spaln_aa2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA cagaggagaggagagggaggcagactctgcccatgctcttgtgcccgcagAC---GCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTCTCTACCCCACTCAACCCCTTACTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtatggctcaggggaggtaatgattaagagctgatgtcccagaggcctta Alignment from Spaln_nt2Genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA cagaggagaggagagggaggcagactctgcccatgctcttgtgcccgcagAC---GCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTCTCTACCCCACTCAACCCCTTACTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtatggctcaggggaggtaatgattaagagctgatgtcccagaggcctta Alignment from Pairagon ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA cagaggagaggagagggaggcagactctgcccatgctcttgtgcccgcagAC---GCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTCTCTACCCCACTCAACCCCTTACTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtatggctcaggggaggtaatgattaagagctgatgtcccagaggcctta Alignment from Exonerate_protein2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA cagaggagaggagagggaggcagactctgcccatgctcttgtgcccgcagAC---GCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTCTCTACCCCACTCAACCCCTTACTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtatggctcaggggaggtaatgattaagagctgatgtcccagaggcctta Alignment from Exonerate_coding2genome ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA cagaggagaggagagggaggcagactctgcccatgctcttgtgcccgcagAC---GCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTCTCTACCCCACTCAACCCCTTACTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtatggctcaggggaggtaatgattaagagctgatgtcccagaggcctta Alignment from GeneWise ACTCAGCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTCTTTTCTACCCCACTCAACCCCCTGCTGGGCAGCGCAGTCTTCATCATGTCCTACGCAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAA cagaggagaggagagggaggcagactctgcccatgctcttgtgcccgcagAC---GCTATGCTGTTCCTTCAGGCCCTGCTCTCAGGGCTTTTCTCTACCCCACTCAACCCCTTACTGGGCAGTGCAGTATTCATTATGTCCTACACAAGGCCCCTCAAGTTCTGGGAGAGGGACTACAAgtatggctcaggggaggtaatgattaagagctgatgtcccagaggcctta #### Pcnxl3_ID1180_13 --> 0 - 0 Original Alignment AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC--------- tccatggaccctagtattcgttgccaacatgcagtgttattttgacacagAGTGTGCAACCTGATGCAGCATCCCCCATGCACATGATTGGGgtagtaacttgaggggtgatactctggccagtgggcactgggaaggtcta Alignment from CESAR AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC------------ tccatggaccctagtattcgttgccaacatgcagtgttattttgacacagAGTGTGCAACCTGATGCAGCATCCCCCATGCACATGATTGGGGTAgtaacttgaggggtgatactctggccagtgggcactgggaaggtcta Alignment from Spaln_aa2Genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC--------- tccatggaccctagtattcgttgccaacatgcagtgttattttgacacagAGTGTGCAACCTGATGCAGCATCCCCCATGCACATGATTGGGgtagtaacttgaggggtgatactctggccagtgggcactgggaaggtcta Alignment from Spaln_nt2Genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC--------- tccatggaccctagtattcgttgccaacatgcagtgttattttgacacagAGTGTGCAACCTGATGCAGCATCCCCCATGCACATGATTGGGgtagtaacttgaggggtgatactctggccagtgggcactgggaaggtcta Alignment from Pairagon AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC------------ tccatggaccctagtattcgttgccaacatgcagtgttattttgacacagAGTGTGCAACCTGATGCAGCATCCCCCATGCACATGATTGGGGTAgtaacttgaggggtgatactctggccagtgggcactgggaaggtcta Alignment from Exonerate_protein2genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC tccatggaccctagtattcgttgccaacatgcagtgttattttgacacagAGTGTGCAACCTGATGCAGCATCCCCCATGCACatgattggggtagtaacttgaggggtgatactctggccagtgggcactgggaaggtcta Alignment from Exonerate_coding2genome AGCGTGCAGCCTGATGCAGCATCCCCAATGCAC tccatggaccctagtattcgttgccaacatgcagtgttattttgacacagAGTGTGCAACCTGATGCAGCATCCCCCATGCACatgattggggtagtaacttgaggggtgatactctggccagtgggcactgggaaggtcta Alignment from GeneWise tccatggaccctagtattcgttgccaacatgcagtgttattttgacacagagtgtgcaacctgatgcagcatcccccatgcacatgattggggtagtaacttgaggggtgatactctggccagtgggcactgggaaggtcta #### Pcnxl3_ID1188_5 --> 2 - 1 Original Alignment ac---ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa tggatgaggccctgggttccacctacagaaactatttacttttattccagacGGGATCAAAGAGCTGGTACGGGAACAGGGTAGCAACAATGTAATTGTTACCTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGagtaactgggcaaaactggcaagcagatgtcttgtgataacaatcatcccc Alignment from CESAR ac---ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGa tggatgaggccctgggttccacctacagaaactatttacttttattccagacGGGATCAAAGAGCTGGTACGGGAACAGGGTAGCAACAATGTAATTGTTACCTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGagtaactgggcaaaactggcaagcagatgtcttgtgataacaatcatcccc Alignment from Spaln_aa2Genome AC---ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA tggatgaggccctgggttccacctacagaaactatttacttttattccagACGGGATCAAAGAGCTGGTACGGGAACAGGGTAGCAACAATGTAATTGTTACCTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaagcagatgtcttgtgataacaatcatcccc Alignment from Spaln_nt2Genome AC---ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA tggatgaggccctgggttccacctacagaaactatttacttttattccagACGGGATCAAAGAGCTGGTACGGGAACAGGGTAGCAACAATGTAATTGTTACCTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaagcagatgtcttgtgataacaatcatcccc Alignment from Pairagon AC---ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA tggatgaggccctgggttccacctacagaaactatttacttttattccagACGGGATCAAAGAGCTGGTACGGGAACAGGGTAGCAACAATGTAATTGTTACCTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaagcagatgtcttgtgataacaatcatcccc Alignment from Exonerate_protein2genome AC---ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA tggatgaggccctgggttccacctacagaaactatttacttttattccagACGGGATCAAAGAGCTGGTACGGGAACAGGGTAGCAACAATGTAATTGTTACCTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaagcagatgtcttgtgataacaatcatcccc Alignment from Exonerate_coding2genome AC---ATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA tggatgaggccctgggttccacctacagaaactatttacttttattccagACGGGATCAAAGAGCTGGTACGGGAACAGGGTAGCAACAATGTAATTGTTACCTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaagcagatgtcttgtgataacaatcatcccc Alignment from GeneWise --GACATCAAGGAGCTGGTACGGGAACAGGGCAGCAACAACGTGATCGTGACCTCTGCCGATCGAGAAATGCTGAAGCTCAGCTCCCAAGAGAAACTGA tggatgaggccctgggttccacctacagaaactatttacttttattccagACGGGATCAAAGAGCTGGTACGGGAACAGGGTAGCAACAATGTAATTGTTACCTCTGCTGACCGAGAAATGCTGAAGCTCAGCTCCAAAGAGAAACTGAgtaactgggcaaaactggcaagcagatgtcttgtgataacaatcatcccc #### Pcnxl3_ID1191_2 --> 0 - 2 Original Alignment GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAag agcaagcagttctgtgagaagggatgcaaaacaggagctttcctctgcag---CCGCCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCACGTTTGACCAGGGTGAGATTGTGGAAAAACGCAACTCTACCATGGGGGAGAAGGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAaggtgagggatcccaggccatgtcagggattgtcctttctctgggcttgtga Alignment from CESAR GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAag tcaagcaagcagttctgtgagaagggcaaaacaggagctttcctctgcag---CCGCCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCACGTTTGACCAGGGTGAGATTGTGGAAAAACGCAACTCTACCATGGGGGAGAAGGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAaggtgagggatcccaggccatgtcagggattgtcctttctctgggcttgtga Alignment from Spaln_aa2Genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG agcaagcagttctgtgagaagggatgcaaaacaggagctttcctctgcag---CCGCCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCACGTTTGACCAGGGTGAGATTGTGGAAAAACGCAACTCTACCATGGGGGAGAAGGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtgagggatcccaggccatgtcagggattgtcctttctctgggcttgtga Alignment from Spaln_nt2Genome CTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG agcaagcagttctgtgagaagggatgcaaaacaggagctttcctctgcagCCGCCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCACGTTTGACCAGGGTGAGATTGTGGAAAAACGCAACTCTACCATGGGGGAGAAGGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtgagggatcccaggccatgtcagggattgtcctttctctgggcttgtga Alignment from Pairagon CTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG agcaagcagttctgtgagaagggatgcaaaacaggagctttcctctgcagCCGCCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCACGTTTGACCAGGGTGAGATTGTGGAAAAACGCAACTCTACCATGGGGGAGAAGGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtgagggatcccaggccatgtcagggattgtcctttctctgggcttgtga Alignment from Exonerate_protein2genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG agcaagcagttctgtgagaagggatgcaaaacaggagctttcctctgcagCCG---CCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCACGTTTGACCAGGGTGAGATTGTGGAAAAACGCAACTCTACCATGGGGGAGAAGGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtgagggatcccaggccatgtcagggattgtcctttctctgggcttgtga Alignment from Exonerate_coding2genome GTCCTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG agcaagcagttctgtgagaagggatgcaaaacaggagctttcctctgcagCCG---CCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCACGTTTGACCAGGGTGAGATTGTGGAAAAACGCAACTCTACCATGGGGGAGAAGGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtgagggatcccaggccatgtcagggattgtcctttctctgggcttgtga Alignment from GeneWise -------------CTGCCCCCCAGCCTGATGGTGGCTGGAGTGTACTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCATGTTCGACCAGGGCGAGATTGTGGAGAAACGCAACTCTACCATGGGGGAGCAGGAAGAAGAGGCTGCCCAGGGGGAGAGCAGTCTCCCAAG agcaagcagttctgtgagaagggatgcaaaacaggagCTTTCCTCTGCAGCCGCCCCCCAGTCTCATGGTGGCTGGAGTGTATTGCCTGGTGGTAGCTGTCATCTTTGCTACCATCAAGACTGTGAACTATCGCCTGCATGCCACGTTTGACCAGGGTGAGATTGTGGAAAAACGCAACTCTACCATGGGGGAGAAGGAAGAAGAGGCTGCCCAGGGGGAAAGCAGTCTCCCAAGgtgagggatcccaggccatgtcagggattgtcctttctctgggcttgtga #### Pcx_ID554_4 --> 0 - 1 Original Alignment GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg gaataatgagagagaggaacatgagctgaactttttttccctcaaaatagGAAAATGGTGTAGACGCAGTGCATCCTGGCTATGGATTTCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTTGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCTATTGCC---------ggtgagttagctgtagcaagaagccctcccctggcagggagagacagtctg Alignment from CESAR GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAg gaataatgagagagaggaacatgagctgaactttttttccctcaaaatagGAAAATGGTGTAGACGCAGTGCATCCTGGCTATGGATTTCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTTGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCTATTGCC---------ggtgagttagctgtagcaagaagccctcccctggcagggagagacagtctg Alignment from Spaln_aa2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCC- gaataatgagagagaggaacatgagctgaactttttttccctcaaaatagGAAAATGGTGTAGACGCAGTGCATCCTGGCTATGGATTTCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTTGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCGgtgagttagctgtagcaagaagccctcccctggcagggagagacagtctg Alignment from Spaln_nt2Genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gaataatgagagagaggaacatgagctgaactttttttccctcaaaatagGAAAATGGTGTAGACGCAGTGCATCCTGGCTATGGATTTCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTTGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCTATTGCC---------Ggtgagttagctgtagcaagaagccctcccctggcagggagagacagtctg Alignment from Pairagon GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gaataatgagagagaggaacatgagctgaactttttttccctcaaaatagGAAAATGGTGTAGACGCAGTGCATCCTGGCTATGGATTTCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTTGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCTATTGCC---------Ggtgagttagctgtagcaagaagccctcccctggcagggagagacagtctg Alignment from Exonerate_protein2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCA gaataatgagagagaggaacatgagctgaactttttttccctcaaaatagGAAAATGGTGTAGACGCAGTGCATCCTGGCTATGGATTTCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTTGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCGgtgagttagctgtagcaagaagccctcccctggcagggagagacagtctg Alignment from Exonerate_coding2genome GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCA gaataatgagagagaggaacatgagctgaactttttttccctcaaaatagGAAAATGGTGTAGACGCAGTGCATCCTGGCTATGGATTTCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTTGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCTATTGCCGgtgagttagctgtagcaagaagccctcccctggcagggagagacagtctg Alignment from GeneWise GAAAATGGTGTAGATGCGGTGCATCCTGGCTATGGGTTCCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTGGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCCATTGCCATCGCTGCAG gaataatgagagagaggaacatgagctgaactttttttccctcaaaatagGAAAATGGTGTAGACGCAGTGCATCCTGGCTATGGATTTCTCTCAGAGCGAGCAGACTTTGCCCAGGCCTGCCAAGATGCTGGAGTCCGGTTCATTGGTCCAAGCCCAGAGGTTGTCCGCAAGATGGGAGACAAGGTGGAAGCCCGGGCTATT---------GCCGgtgagttagctgtagcaagaagccctcccctggcagggagagacagtctg #### Pcx_ID563_12 --> 2 - 1 Original Alignment gaCATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg accctggactcctgggagcagccatgacaagaactttctcaacttctcaggaCATGTCATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCA---------ggtaacttattgcgggggaggtacatttttaacaccttaatgggaacacgg Alignment from CESAR gaCATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAg accctggactcctgggagcagccatgacaagaactttctcaacttctcaggaCATGTCATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCA---------ggtaacttattgcgggggaggtacatttttaacaccttaatgggaacacgg Alignment from Spaln_aa2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTG- accctggactcctgggagcagccatgacaagaactttctcaacttctcagGACATGTCATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGgtaacttattgcgggggaggtacatttttaacaccttaatgggaacacgg Alignment from Spaln_nt2Genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG accctggactcctgggagcagccatgacaagaactttctcaacttctcagGACATGTCATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTG---------CAGgtaacttattgcgggggaggtacatttttaacaccttaatgggaacacgg Alignment from Pairagon GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATAG accctggactcctgggagcagccatgacaagaactttctcaacttctcagGACATGTCATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTG---------CAGgtaacttattgcgggggaggtacatttttaacaccttaatgggaacacgg Alignment from Exonerate_protein2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGG accctggactcctgggagcagccatgacaagaactttctcaacttctcagGACATGTCATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGgtaacttattgcgggggaggtacatttttaacaccttaatgggaacacgg Alignment from Exonerate_coding2genome GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGG accctggactcctgggagcagccatgacaagaactttctcaacttctcagGACATGTCATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGgtaacttattgcgggggaggtacatttttaacaccttaatgggaacacgg Alignment from GeneWise GACATGTCATGGTGAATGGCCCTACCACTCCAATCCCTGTCAATGTGAGCCCCAGTCCTGTGGATCCTGCTGTTCCTGTGGTGCCCATA------------------------------------------ accctggactcctgggagcagccatgacaagaactttctcaacttctcagGACATGTCATGGTGAATGGCCCTACCACCCCAATCCCAGTCAATGTGACCCCCAGTCCTGTAGATCCTGCTGTTCCTGCAGGTAACTTATTGCGGGGGAGGTACATTTTTAACACCTTAATGGGAACACGG #### Pcx_ID566_15 --> 0 - 1 Original Alignment GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg cacagcaggtccctcttgaccataattcacccacagttaatttcttatagGACATGGCGGGCCTGCTGAAGCCTGCTGCCTGCACCATGCTGGTCAGTTCCCTGTGGGACCGGTTCCCAGACCTCCCACTGCACATCCATACCCATGATACGTCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGCGCACAAGCAGGGGCTGATGTTGTAGATGTGGTCGCAGTAGACTCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTTGGAC---ggtaagtaggcagaggaacgacttgacagaggaacgacttagggccaaacc Alignment from CESAR GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACACAg cacagcaggtccctcttgaccataattcacccacagttaatttcttatagGACATGGCGGGCCTGCTGAAGCCTGCTGCCTGCACCATGCTGGTCAGTTCCCTGTGGGACCGGTTCCCAGACCTCCCACTGCACATCCATACCCATGATACGTCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGCGCACAAGCAGGGGCTGATGTTGTAGATGTGGTCGCAGTAGACTCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTTGGAC---ggtaagtaggcagaggaacgacttgacagaggaacgacttagggccaaacc Alignment from Spaln_aa2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACA cacagcaggtccctcttgaccataattcacccacagttaatttcttatagGACATGGCGGGCCTGCTGAAGCCTGCTGCCTGCACCATGCTGGTCAGTTCCCTGTGGGACCGGTTCCCAGACCTCCCACTGCACATCCATACCCATGATACGTCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGCGCACAAGCAGGGGCTGATGTTGTAGATGTGGTCGCAGTAGACTCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTTGGACGgtaagtaggcagaggaacgacttgacagaggaacgacttagggccaaacc Alignment from Spaln_nt2Genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACA cacagcaggtccctcttgaccataattcacccacagttaatttcttatagGACATGGCGGGCCTGCTGAAGCCTGCTGCCTGCACCATGCTGGTCAGTTCCCTGTGGGACCGGTTCCCAGACCTCCCACTGCACATCCATACCCATGATACGTCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGCGCACAAGCAGGGGCTGATGTTGTAGATGTGGTCGCAGTAGACTCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTTGGACGgtaagtaggcagaggaacgacttgacagaggaacgacttagggccaaacc Alignment from Pairagon GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACA cacagcaggtccctcttgaccataattcacccacagttaatttcttatagGACATGGCGGGCCTGCTGAAGCCTGCTGCCTGCACCATGCTGGTCAGTTCCCTGTGGGACCGGTTCCCAGACCTCCCACTGCACATCCATACCCATGATACGTCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGCGCACAAGCAGGGGCTGATGTTGTAGATGTGGTCGCAGTAGACTCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTTGGACGgtaagtaggcagaggaacgacttgacagaggaacgacttagggccaaacc Alignment from Exonerate_protein2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACA cacagcaggtccctcttgaccataattcacccacagttaatttcttatagGACATGGCGGGCCTGCTGAAGCCTGCTGCCTGCACCATGCTGGTCAGTTCCCTGTGGGACCGGTTCCCAGACCTCCCACTGCACATCCATACCCATGATACGTCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGCGCACAAGCAGGGGCTGATGTTGTAGATGTGGTCGCAGTAGACTCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTTGGACGgtaagtaggcagaggaacgacttgacagaggaacgacttagggccaaacc Alignment from Exonerate_coding2genome GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGAC---GTGGCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACA cacagcaggtccctcttgaccataattcacccacagttaatttcttatagGACATGGCGGGCCTGCTGAAGCCTGCTGCCTGCACCATGCTGGTCAGTTCCCTGTGGGACCGGTTCCCAGACCTCCCACTGCACATCCATACCCATGATACGTCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGCGCACAAGCAGGGGCTGATGTTGTAGATGTGGTCGCAGTAGACTCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTTGGACGgtaagtaggcagaggaacgacttgacagaggaacgacttagggccaaacc Alignment from GeneWise GACATGGCGGGCCTGCTGAAGCCTGCCGCCTGCACCATGCTGGTCAGCTCCCTCCGGGACCGATTCCCCGACCTCCCACTGCACATCCATACCCATGATACATCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGTGCACAAGCAGGGGCTGATGTTGTGGACGTG---GCAGTAGACTCCATGTCTGGGATGACCTCACAGCCAAGCATGGGGGCCCTGGTGGCCTGTACCAAAGGGACTCCTTTGGACA cacagcaggtccctcttgaccataattcacccacagttaatttcttatagGACATGGCGGGCCTGCTGAAGCCTGCTGCCTGCACCATGCTGGTCAGTTCCCTGTGGGACCGGTTCCCAGACCTCCCACTGCACATCCATACCCATGATACGTCAGGGGCAGGTGTGGCAGCCATGCTGGCCTGCGCACAAGCAGGGGCTGATGTTGTAGATGTGGTCGCAGTAGACTCCATGTCAGGGATGACCTCACAGCCAAGCATGGGGGCCTTGGTGGCCTGTACCAAAGGGACTCCCTTGGACGgtaagtaggcagaggaacgacttgacagaggaacgacttagggccaaacc #### Pcx_ID568_17 --> 0 - 0 Original Alignment ------------------GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacctctggcgctcgcctggcatccttactttcttccctctcacctgcagATCAGTTTCCCAGGCTCCGTGAAACCATCCTCCAAGATTGTGGGAGACCTGGCCCAGTTCATGGTGCAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATCCCGCATGGAGGTTTCCCTAAGCCGTTTCATTCTAAAgtgaggcaggtgcatcgtggtgggacaggggcttgcaccaagaaccttct Alignment from CESAR ------------------GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacctctggcgctcgcctggcatccttactttcttccctctcacctgcagATCAGTTTCCCAGGCTCCGTGAAACCATCCTCCAAGATTGTGGGAGACCTGGCCCAGTTCATGGTGCAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATCCCGCATGGAGGTTTCCCTAAGCCGTTTCATTCTAAAgtgaggcaggtgcatcgtggtgggacaggggcttgcaccaagaaccttct Alignment from Spaln_aa2Genome GTGACA------------------CCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacctctggcgctcgcctggcatccttactttcttccctctcacctgcagATCAGTTTCCCAGGCTCCGTGAAACCATCCTCCAAGATTGTGGGAGACCTGGCCCAGTTCATGGTGCAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATCCCGCATGGAGGTTTCCCTAAGCCGTTTCATTCTAAAgtgaggcaggtgcatcgtggtgggacaggggcttgcaccaagaaccttct Alignment from Spaln_nt2Genome GGTGACACCATCCTC----CAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacctctggcgctcgcctggcatccttactttcttccctctcacctgcagatcagtttcccagGCTCCGTGAAACCATCCTCCAAGATTGTGGGAGACCTGGCCCAGTTCATGGTGCAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATCCCGCATGGAGGTTTCCCTAAGCCGTTTCATTCTAAAgtgaggcaggtgcatcgtggtgggacaggggcttgcaccaagaaccttct Alignment from Pairagon -----GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacctctggcgctcgcctggcatccttactttcttccctctcacctgcagatcagtttcccagGCTCCGTGAAACCATCCTCCAAGATTGTGGGAGACCTGGCCCAGTTCATGGTGCAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATCCCGCATGGAGGTTTCCCTAAGCCGTTTCATTCTAAAgtgaggcaggtgcatcgtggtgggacaggggcttgcaccaagaaccttct Alignment from Exonerate_protein2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacctctggcgctcgcctggcatccttactttcttccctctcacctgcagatcagtttcccaggctccGTGAAACCATCCTCCAAGATTGTGGGAGACCTGGCCCAGTTCATGGTGCAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATCCCGCATGGAGGTTTCCCTAAGCCGTTTCATTCTAAAgtgaggcaggtgcatcgtggtgggacaggggcttgcaccaagaaccttct Alignment from Exonerate_coding2genome GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG tacctctggcgctcgcctggcatccttactttcttccctctcacctgcagatcagtttcccaggctccGTGAAACCATCCTCCAAGATTGTGGGAGACCTGGCCCAGTTCATGGTGCAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATCCCGCATGGAGGTTTCCCTAAGCCGTTTCATTCTAAAgtgaggcaggtgcatcgtggtgggacaggggcttgcaccaagaaccttct Alignment from GeneWise ------------------GTGACACCATCCTCCAAGATTGTGGGGGACCTGGCCCAGTTCATGGTGCAGAATGGGTTGAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATTCCCCATGGGGGTTTCCCTGAGCCCTTTCGCTCTAAG-------------------------------------------------- tacctctggcgctcgcctggcatccttactttcttccctctcacctgcagATCAGTTTCCCAGGCTCCGTGAAACCATCCTCCAAGATTGTGGGAGACCTGGCCCAGTTCATGGTGCAGAATGGGTCAAGCCGGGCAGAGGCAGAAGCTCAGGCAGAAGAGCTGTCCTTCCCCCGCTCTGTGGTGGAGTTCCTGCAGGGCTACATTGGCATCCCGCATGGAGGTTTCCCTAAGCCGTTTCATTCTAAAGTGAGGCAGGTGCATCGTGGTGGGACAGGGGCTTGCACCAAGAACCTTCT #### Pdcd11_ID10119_13 --> 0 - 0 Original Alignment GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG--- tgaaggcctgctgctgcaaggaggtgacgagcctgatcttttccacatagGTGGTAAAGGTGGCAGTGCTAAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGATTGCTGAGTGACTCACGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCCGTGCGCATTGGGCAGTTGgtgagtaggcagtgacttcatctaacagtgacagtgtctggagaggaaac Alignment from CESAR GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG--- tgaaggcctgctgctgcaaggaggtgacgagcctgatcttttccacatagGTGGTAAAGGTGGCAGTGCTAAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGATTGCTGAGTGACTCACGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCCGTGCGCATTGGGCAGTTGgtgagtaggcagtgacttcatctaacagtgacagtgtctggagaggaaac Alignment from Spaln_aa2Genome GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAGTTG tgaaggcctgctgctgcaaggaggtgacgagcctgatcttttccacatagGTGGTAAAGGTGGCAGTGCTAAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGATTGCTGAGTGACTCACGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCCGTGCGCATTGGGCAGTTGgtgagtaggcagtgacttcatctaacagtgacagtgtctggagaggaaac Alignment from Spaln_nt2Genome GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAGT-- tgaaggcctgctgctgcaaggaggtgacgagcctgatcttttccacatagGTGGTAAAGGTGGCAGTGCTAAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGATTGCTGAGTGACTCACGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCCGTGCGCATTGGGCAGTTGgtgagtaggcagtgacttcatctaacagtgacagtgtctggagaggaaac Alignment from Pairagon GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAGTTG tgaaggcctgctgctgcaaggaggtgacgagcctgatcttttccacatagGTGGTAAAGGTGGCAGTGCTAAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGATTGCTGAGTGACTCACGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCCGTGCGCATTGGGCAGTTGgtgagtaggcagtgacttcatctaacagtgacagtgtctggagaggaaac Alignment from Exonerate_protein2genome GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG tgaaggcctgctgctgcaaggaggtgacgagcctgatcttttccacatagGTGGTAAAGGTGGCAGTGCTAAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGATTGCTGAGTGACTCACGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCCGTGCGCATTGGGCAGttggtgagtaggcagtgacttcatctaacagtgacagtgtctggagaggaaac Alignment from Exonerate_coding2genome GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAG tgaaggcctgctgctgcaaggaggtgacgagcctgatcttttccacatagGTGGTAAAGGTGGCAGTGCTAAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGATTGCTGAGTGACTCACGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCCGTGCGCATTGGGCAGttggtgagtaggcagtgacttcatctaacagtgacagtgtctggagaggaaac Alignment from GeneWise GTGGTAAAGGTGGCAGTGCTGAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGACTGTTGAGTGACTCGCGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGGAGCTGTGCGCATCGGGCAGTTG tgaaggcctgctgctgcaaggaggtgacgagcctgatcttttccacatagGTGGTAAAGGTGGCAGTGCTAAGCTGTGAGCCTTCCAAGGAGAGGATGCTCCTGTCCTTCAGATTGCTGAGTGACTCACGGCCAAAGGATCCGGGTGTTGAGAGCAGTCAGAAGAAAACAGAAGCCGTGCGCATTGGGCAGTTGgtgagtaggcagtgacttcatctaacagtgacagtgtctggagaggaaac #### Pdcd11_ID10134_28 --> 1 - 0 Original Alignment cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gtgtgcagacaccacttctgccccatcttgatgggtagctgccaccccagcGTGAATCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAGGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAGTCTGAG---------gtgaggaccgccttctatcctccctgggcagcattgcctcatctcaccca Alignment from CESAR cGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gtgtgcagacaccacttctgccccatcttgatgggtagctgccaccccagcGTGAATCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAGGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAGTCTGAG---------gtgaggaccgccttctatcctccctgggcagcattgcctca Alignment from Spaln_aa2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gtgtgcagacaccacttctgccccatcttgatgggtagctgccaccccagCGTGAATCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAGGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAGTCTGAGGTGAGGACCgccttctatcctccctgggcagcattgcctcatctcaccca Alignment from Spaln_nt2Genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAG gtgtgcagacaccacttctgccccatcttgatgggtagctgccaccccagCGTGAATCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAGGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAGTCTGAGgtgaggaccgccttctatcctccctgggcagcattgcctcatctcaccca Alignment from Pairagon CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAG gtgtgcagacaccacttctgccccatcttgatgggtagctgccaccccagCGTGAATCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAGGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAGTCTGAGgtgaggaccgccttctatcctccctgggcagcattgcctcatctcaccca Alignment from Exonerate_protein2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gtgtgcagacaccacttctgccccatcttgatgggtagctgccaccccagCGTGAATCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAGGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAGTCTGAG---------gtgaggaccgccttctatcctccctgggcagcattgcctca Alignment from Exonerate_coding2genome CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAGAGCGAGCAG gtgtgcagacaccacttctgccccatcttgatgggtagctgccaccccagCGTGAATCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAGGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAGTCTGAG---------gtgaggaccgccttctatcctccctgggcagcattgcctca Alignment from GeneWise CGTGAACCCCATGAAGAACCTGATAGAGCTGTCGCTCCTTCCCAGCGACACTGGGAGGCCAGACGTGTTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGAGGAGCGGAGGGGCTGAGGAGGGCCAGAAAAGGAAAGAGAAGAACCAGAAGAGACGGGAGGAGAAGGAAGAGCCCCAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGCCAGGAGTCTGAG gtgtgcagacaccacttctgccccatcttgatgggtagctgccaccccagCGTGAATCCCATGAAGAACCTGATAGAGCTGTCACTCCTTCCCAGTGACACTGGGAGGCCAGATGTATTCTCTCCTGCTCCAGAACCAAAACAAGAGGAGGGGAGCGGAGGGGCTGAGGAGGGCCAAAAAAGGAAGGAGAAGAACCAGAAGAGACGGGACGAGAAGGAAGAGCCACAGAAGTCACAGAGGGGTGGGCGAGGCAAGCGGGAGCGGCATGAGTCTGAGgtgaggaccgccttctatcctccctgggcagcattgcctcatctcaccca #### Pdcd11_ID10135_29 --> 0 - 0 Original Alignment ---GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggagaaaccccccatgtgatctcgtcactttcgcagATGGACCTAGTAAACAAGAGGCCAAAGAGGTCTGGAGCTGCAGAAGAAGATGACAGTGGTGTGGAAGCTTCAGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaggatgtgctggctgctaactggggaatggctttggggaagagctcct Alignment from CESAR ---GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggagaaaccccccatgtgatctcgtcactttcgcagATGGACCTAGTAAACAAGAGGCCAAAGAGGTCTGGAGCTGCAGAAGAAGATGACAGTGGTGTGGAAGCTTCAGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaggatgtgctggctgctaactggggaatggctttggggaagagctcct Alignment from Spaln_aa2Genome GAACTAGTGAACAAG---AGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggagaaaccccccatgtgatctcgtcactttcgcagATGGACCTAGTAAACAAGAGGCCAAAGAGGTCTGGAGCTGCAGAAGAAGATGACAGTGGTGTGGAAGCTTCAGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaggatgtgctggctgctaactggggaatggctttggggaagagctcct Alignment from Spaln_nt2Genome GGAACTAGTGAACAA--GAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGA------AGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggagaaaccccccatgtgatctcgtcactttcgcagATGGACCTAGTAAACAAGAGGCCAAAGAGGTCTGGAGCTGCAGAAGAAGATGACAGTGGTGTGGAAGCTTCAGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaggatgtgctggctgctaactggggaatggctttggggaagagctcct Alignment from Pairagon ---GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGA------AGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggagaaaccccccatgtgatctcgtcactttcgcagATGGACCTAGTAAACAAGAGGCCAAAGAGGTCTGGAGCTGCAGAAGAAGATGACAGTGGTGTGGAAGCTTCAGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaggatgtgctggctgctaactggggaatggctttggggaagagctcct Alignment from Exonerate_protein2genome ---GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggagaaaccccccatgtgatctcgtcactttcgcagATGGACCTAGTAAACAAGAGGCCAAAGAGGTCTGGAGCTGCAGAAGAAGATGACAGTGGTGTGGAAGCTTCAGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaggatgtgctggctgctaactggggaatggctttggggaagagctcct Alignment from Exonerate_coding2genome ---GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggagaaaccccccatgtgatctcgtcactttcgcagATGGACCTAGTAAACAAGAGGCCAAAGAGGTCTGGAGCTGCAGAAGAAGATGACAGTGGTGTGGAAGCTTCAGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaggatgtgctggctgctaactggggaatggctttggggaagagctcct Alignment from GeneWise ---GAACTAGTGAACAAGAGGCCAAAGAAGTCTGGAGCCGCAGAAGAAGACGACAGTGGTGTGGAA------GTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCGAAGCTGCCACCCAGG tgctctcagggtgaggagaaaccccccatgtgatctcgtcactttcgcagATGGACCTAGTAAACAAGAGGCCAAAGAGGTCTGGAGCTGCAGAAGAAGATGACAGTGGTGTGGAAGCTTCAGTGTACTACCGGGAAGGAGAGGATGAGGTGGGGGAGCCAAAGCTGCCACCCAGGgtaggatgtgctggctgctaactggggaatggctttggggaagagctcct #### Pdcd11_ID10140_34 --> 2 - 2 Original Alignment at---------GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag tgtggtgagatctctgggttgtcttggcatccatgttctttatttcacagatGCTGTGGACGTGGATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCaggtaaagtcaacaacagggctcattgctgatagagtgtggggtgggaagag Alignment from CESAR at---------GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCag tgtggtgagatctctgggttgtcttggcatccatgttctttatttcacagatGCTGTGGACGTGGATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCaggtaaagtcaacaacagggctcattgctgatagagtgtggggtgggaagag Alignment from Spaln_aa2Genome AT---------GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggcatccatgttctttatttcacagATGCTGTGGACGTGGATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtaaagtcaacaacagggctcattgctgatagagtgtggggtgggaagag Alignment from Spaln_nt2Genome ATG---------TGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggcatccatgttctttatttcacagATGCTGTGGACGTGGATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtaaagtcaacaacagggctcattgctgatagagtgtggggtgggaagag Alignment from Pairagon AT---------GTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggcatccatgttctttatttcacagATGCTGTGGACGTGGATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtaaagtcaacaacagggctcattgctgatagagtgtggggtgggaagag Alignment from Exonerate_protein2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggcatccatgttctttatttcacagatgctgtggACGTGGATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtaaagtcaacaacagggctcattgctgatagagtgtggggtgggaagag Alignment from Exonerate_coding2genome ATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggcatccatgttctttatttcacagatgctgtggACGTGGATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtaaagtcaacaacagggctcattgctgatagagtgtggggtgggaagag Alignment from GeneWise --------CATGTGGATGTGATCGTCAAGTTTGCCCAGCTGGAGTTCCAGCTCGGGGACGTGGAGCGCGCTAAAGCCATTTTTGAAAACACACTGAGCACCTACCCCAAACGCACAGACGTCTGGTCAGTCTACATCGACATGACCATCAAGCACGGCAGCCAGACAGCAGTCAG tgtggtgagatctctgggttgtcttggcatccatgttctttatttcacagATGCTGTGGACGTGGATGTGATTGTCAAGTTTGCCCAGCTGGAGTTCCAGCTTGGGGATGTGGAGCGAGCTAAAGCCATTTTTGAAAACACACTGAGCGCCTACCCCAAACGCACGGATGTCTGGTCAGTCTACATCGACATGACCATCAAGCATGGCAGCCATACAGCAGTCAGgtaaagtcaacaacagggctcattgctgatagagtgtggggtgggaagag #### Pde6c_ID7533_3 --> 0 - 0 Original Alignment ---GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG aacaagcaaagggttcacaacaataactttcttccatactctctctacagCAAGTCTTCTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGAGAAGCCAGgtgaggaaacagctaccagtagtctccccttgccaccccaaaacagcagc Alignment from CESAR ---GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG aacaagcaaagggttcacaacaataactttcttccatactctctctacagCAAGTCTTCTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGAGAAGCCAGgtgaggaaacagctaccagtagtctccccttgccaccccaaaacagcagc Alignment from Spaln_aa2Genome GTCTTTTCTAAGTAC---CTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG aacaagcaaagggttcacaacaataactttcttccatactctctctacagCAAGTCTTCTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGAGAAGCCAGgtgaggaaacagctaccagtagtctccccttgccaccccaaaacagcagc Alignment from Spaln_nt2Genome GTCTTTTCTAAGT---ACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG aacaagcaaagggttcacaacaataactttcttccatactctctctacagCAAGTCTTCTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGAGAAGCCAGgtgaggaaacagctaccagtagtctccccttgccaccccaaaacagcagc Alignment from Pairagon -----------------------------------------------------GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG AACAAGCAAAGGGTTCACAACAATAACTTTCTTCCATACTCTCTCTACAGCAAGTCTTCTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGAGAAGCCAGgtgaggaaacagctaccagtagtctccccttgccaccccaaaacagcagc Alignment from Exonerate_protein2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG aacaagcaaagggttcacaacaataactttcttccatactctctctacagcaaGTCTTCTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGAGAAGCCAGgtgaggaaacagctaccagtagtctccccttgccaccccaaaacagcagc Alignment from Exonerate_coding2genome GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG aacaagcaaagggttcacaacaataactttcttccatactctctctacagcaaGTCTTCTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGAGAAGCCAGgtgaggaaacagctaccagtagtctccccttgccaccccaaaacagcagc Alignment from GeneWise ---GTCTTTTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGCAGCACACCAGTTACCTGTACAGTGTGGAGTCCCGGAGAAGCCAG aacaagcaaagggttcacaacaataactttcttccatactctctctacagCAAGTCTTCTCTAAGTACCTCAGCTTTGTTGCTGTCGCACTAAGGCTGAAGCACACCAGTTATCTGTACAGTGTGGAGTCCCGGAGAAGCCAGgtgaggaaacagctaccagtagtctccccttgccaccccaaaacagcagc #### Pde6c_ID7536_6 --> 0 - 2 Original Alignment GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTcc atgacttggagtgcggaggctattgcgttgtttctattttcttatttcag------------------------------ATTTTACATGGCAAAGAAGAAATCAATGTGATTccgcaagtgttccctggaagcagccacatgagttgcctctgggactttgact Alignment from CESAR GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTcc ataccttctctgcaaattaatattgcgttgtttctattttcttatttcag------------------------------ATTTTACATGGCAAAGAAGAAATCAATGTGATTccgcaagtgttccctggaagcagccacatgagttgcctctgggactttgact Alignment from Spaln_aa2Genome ATTTTACATGGAAAAGAAGAGATCAACGTGATTCC atgacttggagtgcggaggctattgcgttgtttctattttcttatttcagATTTTACATGGCAAAGAAGAAATCAATGTGATTCCgcaagtgttccctggaagcagccacatgagttgcctctgggactttgact Alignment from Spaln_nt2Genome ATTTTACATGGAAAAGAAGAGATCAACGTGATTCC atgacttggagtgcggaggctattgcgttgtttctattttcttatttcagATTTTACATGGCAAAGAAGAAATCAATGTGATTCCgcaagtgttccctggaagcagccacatgagttgcctctgggactttgact Alignment from Pairagon GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC atgacttggagtgcggaggctattgcgttgtttctattttcttatttcag------------------------------ATTTTACATGGCAAAGAAGAAATCAATGTGATTCCgcaagtgttccctggaagcagccacatgagttgcctctgggactttgact Alignment from Exonerate_protein2genome AATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC atgacttggagtgcggaggctattgcgttgtttctatTTTCTTATTTCAGATTTTACATGGCAAAGAAGAAATCAATGTGATTCCgcaagtgttccctggaagcagccacatgagttgcctctgggactttgact Alignment from Exonerate_coding2genome AATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC atgacttggagtgcggaggctattgcgttgtttctatTTTCTTATTTCAGATTTTACATGGCAAAGAAGAAATCAATGTGATTCCgcaagtgttccctggaagcagccacatgagttgcctctgggactttgact Alignment from GeneWise ---------GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCCGTCA-- atgacttggagTGCGGAGGCTATTGCGTTGTTTCTATTTTCTTATTTCAGATTTTACATGGCAAAGAAGAAATCAATGTGATTCCGCAAGTgttccctggaagcagccacatgagttgcctctgggactttgact #### Pde6c_ID7550_20 --> 0 - 0 Original Alignment ---CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaacctgaccctgcttttcttccagTTACCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGgtaggctatttgaatgaaatatagcttaacttaatttcattgacaagttt Alignment from CESAR ---CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaacctgaccctgcttttcttccagTTACCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGgtaggctatttgaatgaaatatagcttaacttaatttcattgacaagttt Alignment from Spaln_aa2Genome CCTATGATG---GACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaacctgaccctgcttttcttccagTTACCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGgtaggctatttgaatgaaatatagcttaacttaatttcattgacaagttt Alignment from Spaln_nt2Genome CCTATGATG---GACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaacctgaccctgcttttcttccagTTACCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGgtaggctatttgaatgaaatatagcttaacttaatttcattgacaagttt Alignment from Pairagon ---CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaacctgaccctgcttttcttccagTTACCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGgtaggctatttgaatgaaatatagcttaacttaatttcattgacaagttt Alignment from Exonerate_protein2genome ---CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaacctgaccctgcttttcttccagTTACCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGgtaggctatttgaatgaaatatagcttaacttaatttcattgacaagttt Alignment from Exonerate_coding2genome ---CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaacctgaccctgcttttcttccagTTACCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGgtaggctatttgaatgaaatatagcttaacttaatttcattgacaagttt Alignment from GeneWise ---CCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTATATAAG ctccccaaactctcaggaaacctcttaacctgaccctgcttttcttccagTTACCTATGATGGACAGAAGCAAAAAGGATGAACTCCCGAAACTTCAAGTGGGATTTATTGATTTTGTTTGTACTTTCGTGTACAAGgtaggctatttgaatgaaatatagcttaacttaatttcattgacaagttt #### Pitpnm1_ID318_15 --> 2 - 1 Original Alignment ctGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGa agaagaggcatgggggcagtctgatcctgttttcttgtgatttgttcaagctGAGACTTTGCCAACTCGTTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAGCCAGCATCTCAGACAGCAGCTCCCAGTACCACC---------------agtaagacagccagcattagagtgttagtcactgccttctactgttagcct Alignment from CESAR ctGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGa agaagaggcatgggggcagtctgatcctgttttcttgtgatttgttcaagctGAGACTTTGCCAACTCGTTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAGCCAGCATCTCAGACAGCAGCTCCCAGTACCACC---------------agtaagacagccagcattagagtgttagtcactgccttctactgttagcct Alignment from Spaln_aa2Genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTT- agaagaggcatgggggcagtctgatcctgttttcttgtgatttgttcaagCTGAGACTTTGCCAACTCGTTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAGCCAGCATCTCAGACAGCAGCTCCCAGTACCACCAGTAAGACAGCCAgcattagagtgttagtcactgccttctactgttagcct Alignment from Spaln_nt2Genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTG---GTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCA GCG agaagaggcatgggggcagtctgatcctgttttcttgtgatttgttcaagCTGAGACTTTGCCAACTCGTTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAGCCAGCATCTCAGACAGCAGCTCCCAGTACCACCAgtaagacagccagcattagagtgttagtcactgccttctactgttagCCT Alignment from Pairagon CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGTG---GTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCA agaagaggcatgggggcagtctgatcctgttttcttgtgatttgttcaagCTGAGACTTTGCCAACTCGTTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAGCCAGCATCTCAGACAGCAGCTCCCAGTACCACCAgtaagacagccagcattagagtgttagtcactgccttctactgttagcct Alignment from Exonerate_protein2genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGA agaagaggcatgggggcagtctgatcctgttttcttgtgatttgttcaagCTGAGACTTTGCCAACTCGTTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAGCCAGCATCTCAGACAGCAGCTCCCAGTACCACCAGTAAGACAGCCAGCAttagagtgttagtcactgccttctactgttagcct Alignment from Exonerate_coding2genome CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACCAGCGAGGTTGTTAAGA agaagaggcatgggggcagtctgatcctgttttcttgtgatttgttcaagCTGAGACTTTGCCAACTCGTTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAGCCAGCATCTCAGACAGCAGCTCCCAGTACCACCAGTAAGACAGCCAGCAttagagtgttagtcactgccttctactgttagcct Alignment from GeneWise CTGACACTTTGCAAACCCATTCGAGTCTCTTCCTGGAAGAGCTGGAGATGATGGTGCCCTCCACACCCACCTCGGCCAGT---GGTGCCTTCTGGAAGGGCAGTGAACTAGGCAATGAGCCAGCATCCCAGACAGCAGCCCCCAGCACCACC- agaagaggcatgggggcagtctgatcctgttttcttgtgatttgttcaagCTGAGACTTTGCCAACTCGTTCAAGTCTCTTCCTGGAAGAGCTGGAAATGATGGTGCCCTCCACACCCACCTCAACCAGTGACAGTGCCTTCTGGAAGGGCAGTGAGCTAGGCAATGAGCCAGCATCTCAGACAGCAGCTCCCAGTACCACCAgtaagacagccagcattagagtgttagtcactgccttctactgttagcct #### Pitpnm1_ID319_16 --> 2 - 0 Original Alignment tc---CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG ggcagtggacagcagtccaccctgactcttatatgtatgttttatcttagtcTATCTGGACCGCTGGTGGGGAAACAAGCGGATTGACTATTCACTGTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTCCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtatgtgaacccagggtgtgggcccaacgctgggacgactaggactattt Alignment from CESAR tc---CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG ggcagtggacagcagtccaccctgactcttatatgtatgttttatcttagtcTATCTGGACCGCTGGTGGGGAAACAAGCGGATTGACTATTCACTGTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTCCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtatgtgaacccagggtgtgggcccaacgctgggacgactaggactattt Alignment from Spaln_aa2Genome TC---CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG ggcagtggacagcagtccaccctgactcttatatgtatgttttatcttagTCTATCTGGACCGCTGGTGGGGAAACAAGCGGATTGACTATTCACTGTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTCCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtatgtgaacccagggtgtgggcccaacgctgggacgactaggactattt Alignment from Spaln_nt2Genome TC---CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG ggcagtggacagcagtccaccctgactcttatatgtatgttttatcttagTCTATCTGGACCGCTGGTGGGGAAACAAGCGGATTGACTATTCACTGTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTCCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtatgtgaacccagggtgtgggcccaacgctgggacgactaggactattt Alignment from Pairagon TC---CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG ggcagtggacagcagtccaccctgactcttatatgtatgttttatcttagTCTATCTGGACCGCTGGTGGGGAAACAAGCGGATTGACTATTCACTGTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTCCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtatgtgaacccagggtgtgggcccaacgctgggacgactaggactattt Alignment from Exonerate_protein2genome TC---CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG ggcagtggacagcagtccaccctgactcttatatgtatgttttatcttagTCTATCTGGACCGCTGGTGGGGAAACAAGCGGATTGACTATTCACTGTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTCCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtatgtgaacccagggtgtgggcccaacgctgggacgactaggactattt Alignment from Exonerate_coding2genome TC---CTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG ggcagtggacagcagtccaccctgactcttatatgtatgttttatcttagTCTATCTGGACCGCTGGTGGGGAAACAAGCGGATTGACTATTCACTGTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTCCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtatgtgaacccagggtgtgggcccaacgctgggacgactaggactattt Alignment from GeneWise --ATCCTGGACCGCTGGTGGGGAAACAAGCGGATCGACTATTCACTGTACTGCCCCGAGGCACTCACGGCCTTCCCCACGGTCACGCTGCCCCACCTCTTCCACGCCAGCTACTGGGAATCAGCGGATGTAGTGGCCTTCATTCTGCGCCAG ggcagtggacagcagtccaccctgactcttatatgtatgttttatcttagTCTATCTGGACCGCTGGTGGGGAAACAAGCGGATTGACTATTCACTGTACTGCCCAGAGGCACTCACAGCCTTCCCCACAGTCACACTGCCCCACCTCTTCCATGCCAGCTACTGGGAGTCAGCGGATGTAGTCGCCTTCATTCTGCGCCAGgtatgtgaacccagggtgtgggcccaacgctgggacgactaggactattt #### Pitpnm1_ID320_17 --> 0 - 0 Original Alignment ---GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG atagagccatatacgggtggaggttgtttcttgctctgtatctcctgcagGGAATTATTGAAAAGGAGCGGCCACAACTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCTGCCTTCCCTAGGGAGAAGTGGCAGCGCAAGCGCACACAGGTCAAGATCCGGgtaagtgtctggctgtcatgaaccagctggagtatgtcccctgcatgctc Alignment from CESAR ---GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG atagagccatatacgggtggaggttgtttcttgctctgtatctcctgcagGGAATTATTGAAAAGGAGCGGCCACAACTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCTGCCTTCCCTAGGGAGAAGTGGCAGCGCAAGCGCACACAGGTCAAGATCCGGgtaagtgtctggctgtcatgaaccagctggagtatgtcccctgcatgctc Alignment from Spaln_aa2Genome GTCATTGAGAAGGAGCGG---CCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG atagagccatatacgggtggaggttgtttcttgctctgtatctcctgcagGGAATTATTGAAAAGGAGCGGCCACAACTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCTGCCTTCCCTAGGGAGAAGTGGCAGCGCAAGCGCACACAGGTCAAGATCCGGgtaagtgtctggctgtcatgaaccagctggagtatgtcccctgcatgctc Alignment from Spaln_nt2Genome GTCATTGAGAAGGA---GCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG atagagccatatacgggtggaggttgtttcttgctctgtatctcctgcagGGAATTATTGAAAAGGAGCGGCCACAACTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCTGCCTTCCCTAGGGAGAAGTGGCAGCGCAAGCGCACACAGGTCAAGATCCGGgtaagtgtctggctgtcatgaaccagctggagtatgtcccctgcatgctc Alignment from Pairagon G---TCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG atagagccatatacgggtggaggttgtttcttgctctgtatctcctgcagGGAATTATTGAAAAGGAGCGGCCACAACTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCTGCCTTCCCTAGGGAGAAGTGGCAGCGCAAGCGCACACAGGTCAAGATCCGGgtaagtgtctggctgtcatgaaccagctggagtatgtcccctgcatgctc Alignment from Exonerate_protein2genome ---GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG atagagccatatacgggtggaggttgtttcttgctctgtatctcctgcagGGAATTATTGAAAAGGAGCGGCCACAACTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCTGCCTTCCCTAGGGAGAAGTGGCAGCGCAAGCGCACACAGGTCAAGATCCGGgtaagtgtctggctgtcatgaaccagctggagtatgtcccctgcatgctc Alignment from Exonerate_coding2genome ---GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG atagagccatatacgggtggaggttgtttcttgctctgtatctcctgcagGGAATTATTGAAAAGGAGCGGCCACAACTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCTGCCTTCCCTAGGGAGAAGTGGCAGCGCAAGCGCACACAGGTCAAGATCCGGgtaagtgtctggctgtcatgaaccagctggagtatgtcccctgcatgctc Alignment from GeneWise ---GTCATTGAGAAGGAGCGGCCACAGCTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCCGCCTTCCCCAGGGAGAAGTGGCAGCGCAAACGCACACAGGTCAAGATCCGG atagagccatatacgggtggaggttgtttcttgctctgtatctcctgcagGGAATTATTGAAAAGGAGCGGCCACAACTGACAGAGTGTGAGGAGCCATCCATCTATAGCCCTGCCTTCCCTAGGGAGAAGTGGCAGCGCAAGCGCACACAGGTCAAGATCCGGgtaagtgtctggctgtcatgaaccagctggagtatgtcccctgcatgctc #### Pitpnm1_ID323_20 --> 1 - 2 Original Alignment g------GGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag gcactgccaacctcaccctgtccacctatttttttatttttttgtttcaggTTTATCGGAGACCACACATATGCTGAGTGCTGCCTAACTGTCGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGTGACCCCAAGGTGCGAGCTGGTGCAGTAGATGTGGTGaggtatggtcctcagacccacatagcaacttgtcatccctgtggactggagc Alignment from CESAR g------GGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCag gcactgccaacctcaccctgtccacctatttttttatttttttgtttcaggTTTATCGGAGACCACACATATGCTGAGTGCTGCCTAACTGTCGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGTGACCCCAAGGTGCGAGCTGGTGCAGTAGATGTGGTGaggtatggtcctcagacccacatagcaacttgtcatccctgtggactggagc Alignment from Spaln_aa2Genome GGGAGACCACACC------TATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gcactgccaacctcaccctgtccacctatttttttatttttttgtttcagGTTTATCGGAGACCACACATATGCTGAGTGCTGCCTAACTGTCGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGTGACCCCAAGGTGCGAGCTGGTGCAGTAGATGTGGTGAGgtatggtcctcagacccacatagcaacttgtcatccctgtggactggagc Alignment from Spaln_nt2Genome GGGAGACCACACCTAT------GCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gcactgccaacctcaccctgtccacctatttttttatttttttgtttcagGTTTATCGGAGACCACACATATGCTGAGTGCTGCCTAACTGTCGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGTGACCCCAAGGTGCGAGCTGGTGCAGTAGATGTGGTGAGgtatggtcctcagacccacatagcaacttgtcatccctgtggactggagc Alignment from Pairagon G------GGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gcactgccaacctcaccctgtccacctatttttttatttttttgtttcagGTTTATCGGAGACCACACATATGCTGAGTGCTGCCTAACTGTCGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGTGACCCCAAGGTGCGAGCTGGTGCAGTAGATGTGGTGAGgtatggtcctcagacccacatagcaacttgtcatccctgtggactggagc Alignment from Exonerate_protein2genome G------GGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gcactgccaacctcaccctgtccacctatttttttatttttttgtttcagGTTTATCGGAGACCACACATATGCTGAGTGCTGCCTAACTGTCGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGTGACCCCAAGGTGCGAGCTGGTGCAGTAGATGTGGTGAGgtatggtcctcagacccacatagcaacttgtcatccctgtggactggagc Alignment from Exonerate_coding2genome G------GGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gcactgccaacctcaccctgtccacctatttttttatttttttgtttcagGTTTATCGGAGACCACACATATGCTGAGTGCTGCCTAACTGTCGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGTGACCCCAAGGTGCGAGCTGGTGCAGTAGATGTGGTGAGgtatggtcctcagacccacatagcaacttgtcatccctgtggactggagc Alignment from GeneWise ----AGGGGAGACCACACCTATGCCGAGTGCTGTCTGACTGTGGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGCGACCCCAAGGTGCGCGCTGGCGCAGTGGACGTGGTCAG gcactgccaacctcaccctgtccacctatttttttatttttttgtttcagGTTTATCGGAGACCACACATATGCTGAGTGCTGCCTAACTGTCGTGTCCCGAGGCACAGAAGCTGTGGTCTTCAGCATCGATGGTTCTTTCACTGCCAGTGTCTCTATCATGGGCAGTGACCCCAAGGTGCGAGCTGGTGCAGTAGATGTGGTGAGgtatggtcctcagacccacatagcaacttgtcatccctgtggactggagc #### Pkd2l1_ID8955_13 --> 0 - 2 Original Alignment GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat tgactccccagactcagcatcttttcacgctcctgcctctgtccgcacagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGGTGTGGAGGCTGCAAGGGGACAAAGCTGGGTTTCTGGAGAAGAATTT---atgttagtagtggaggctagggtaaggaatggctggctgtggcaccttttga Alignment from CESAR GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACat tgactccccagactcagcatcttttcacgctcctgcctctgtccgcacagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGGTGTGGAGGCTGCAAGGGGACAAAGCTGGGTTTCTGGAGAAGAATTT---atgttagtagtggaggctagggtaaggaatggctggctgtggcaccttttga Alignment from Spaln_aa2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGA tgactccccagactcagcatcttttcacgctcctgcctctgtccgcacagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGGTGTGGAGGCTGCAAGGGGACAAAGCTGGGTTTCTGGAGAAGAATTTATgttagtagtggaggctagggtaaggaatggctggctgtggcaccttttga Alignment from Spaln_nt2Genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatcttttcacgctcctgcctctgtccgcacagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGGTGTGGAGGCTGCAAGGGGACAAAGCTGGGTTTCTGGAGAAGAATT---TATgttagtagtggaggctagggtaaggaatggctggctgtggcaccttttga Alignment from Pairagon GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatcttttcacgctcctgcctctgtccgcacagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGGTGTGGAGGCTGCAAGGGGACAAAGCTGGGTTTCTGGAGAAGAATT---TATgttagtagtggaggctagggtaaggaatggctggctgtggcaccttttga Alignment from Exonerate_protein2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatcttttcacgctcctgcctctgtccgcacagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGGTGTGGAGGCTGCAAGGGGACAAAGCTGGGTTTCTGGAGAAGAATTT---ATgttagtagtggaggctagggtaaggaatggctggctgtggcaccttttga Alignment from Exonerate_coding2genome GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGACAT tgactccccagactcagcatcttttcacgctcctgcctctgtccgcacagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGGTGTGGAGGCTGCAAGGGGACAAAGCTGGGTTTCTGGAGAAGAATTT---ATgttagtagtggaggctagggtaaggaatggctggctgtggcaccttttga Alignment from GeneWise GTGACCCTCAATGCTGAGATTGAGAACCTAGGCCGGTCTGTTGGACACAGCCCCCCAGGCGAATTGGGCGCGGAGGCTGCCAGAGGACAAAGCTGGGTTTCTGGAGAAGAATTCGA tgactccccagactcagcatcttttcacgctcctgcctctgtccgcacagGTGACCCTCAATGCTGAGATTGAGAACCTAGGCCAGTCTGTTGGACATAGCCCTCCAGGTGAACTGGGTGTGGAGGCTGCAAGGGGACAAAGCTGGGTTTCTGGAGAAGAATTTATgttagtagtggaggctagggtaaggaatggctggctgtggcaccttttga #### Pkd2l1_ID8960_8 --> 0 - 2 Original Alignment ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat tcttcctggagtagtctatcccttgactaagaccttctctattgtgacagGGGATATTTAAGTATATCAGCTTCAATAAGACCATGACACAGCTCTCCTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCatgtaggtatacctgtaccattttaggtcactcatccttcagatcccagcat Alignment from CESAR ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCat tcttcctggagtagtctatcccttgactaagaccttctctattgtgacagGGGATATTTAAGTATATCAGCTTCAATAAGACCATGACACAGCTCTCCTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCatgtaggtatacctgtaccattttaggtcactcatccttcagatcccagcat Alignment from Spaln_aa2Genome ATATTCAAGTATATCAGCTTC---AACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagtagtctatcccttgactaagaccttctctattgtgacagGGGATATTTAAGTATATCAGCTTCAATAAGACCATGACACAGCTCTCCTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggtatacctgtaccattttaggtcactcatccttcagatcccagcat Alignment from Spaln_nt2Genome GATATTCAAGTA--TATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagtagtctatcccttgactaagaccttctctattgtgacagGGGATATTTAAGTATATCAGCTTCAATAAGACCATGACACAGCTCTCCTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggtatacctgtaccattttaggtcactcatccttcagatcccagcat Alignment from Pairagon ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagtagtctatcccttgactaagaccttctctattgtgacagGGGATATTTAAGTATATCAGCTTCAATAAGACCATGACACAGCTCTCCTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggtatacctgtaccattttaggtcactcatccttcagatcccagcat Alignment from Exonerate_protein2genome ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagtagtctatcccttgactaagaccttctctattgtgacagGGGATATTTAAGTATATCAGCTTCAATAAGACCATGACACAGCTCTCCTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggtatacctgtaccattttaggtcactcatccttcagatcccagcat Alignment from Exonerate_coding2genome ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagtagtctatcccttgactaagaccttctctattgtgacagGGGATATTTAAGTATATCAGCTTCAATAAGACCATGACACAGCTCTCCTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggtatacctgtaccattttaggtcactcatccttcagatcccagcat Alignment from GeneWise ---ATATTCAAGTATATCAGCTTCAACAAGACCATGACACAGCTCTCCTCCACCCTGGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTACGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTCGTCAAGTGCAT tcttcctggagtagtctatcccttgactaagaccttctctattgtgacagGGGATATTTAAGTATATCAGCTTCAATAAGACCATGACACAGCTCTCCTCCACCCTAGCTCGCTGTGCCAAGGACATCCTGGGCTTTGCCATCATGTTCTTCATTGTCTTCTTCGCTTATGCCCAGCTTGGCTACCTGCTTTTTGGGACCCAAGTGGAAAACTTTAGCACTTTTGTCAAGTGCATgtaggtatacctgtaccattttaggtcactcatccttcagatcccagcat #### Plcb3_ID1903_28 --> 1 - 2 Original Alignment gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAG---------------gt actatcatccaacgtctgagtctcctgttcatttctactattctcttcagg---AAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTGTATGGCCACTGGgtgtaatcccaccgagtgagtgggtgcagggacagagcttagccaccctgct Alignment from CESAR gGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGgt gtgactatcatccaacgtctgagtctgttcatttctactattctcttcagg---AAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAgtgtatggccactgggtgtaatcccaccgagtgagtgggtgcagggacagagcttagcaactacact Alignment from Spaln_aa2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT actatcatccaacgtctgagtctcctgttcatttctactattctcttcagGAAGAAGGAGCTCCAGAAGATC---CTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaatcccaccgagtgagtgggtgcagggacagagcttagccaccctgct Alignment from Spaln_nt2Genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT actatcatccaacgtctgagtctcctgttcatttctactattctcttcag---GAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaatcccaccgagtgagtgggtgcagggacagagcttagccaccctgct Alignment from Pairagon --------------------------------------------------GAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT ACTATCATCCAACGTCTGAGTCTCCTGTTCATTTCTACTATTCTCTTCAGGAAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaatcccaccgagtgagtgggtgcagggacagagcttagccaccctgct Alignment from Exonerate_protein2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT actatcatccaacgtctgagtctcctgttcatttctactattctcttcagG---AAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaatcccaccgagtgagtgggtgcagggacagagcttagccaccctgct Alignment from Exonerate_coding2genome GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT actatcatccaacgtctgagtctcctgttcatttctactattctcttcagG---AAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaatcccaccgagtgagtgggtgcagggacagagcttagccaccctgct Alignment from GeneWise GGAGAAGAAGGAACTCCAGAAGATCCTGGACAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAGGT actatcatccaacgtctgagtctcctgttcatttctactattctcttcagG---AAGAAGGAGCTCCAGAAGATCCTGGATAGGAAGCGCAACAACAGCATCTCAGAGGCCAAGACAAGGGAGAAACACAAGAAGGAAGTgtatggccactgggtgtaatcccaccgagtgagtgggtgcagggacagagcttagccaccctgct #### Plcb3_ID1906_25 --> 2 - 2 Original Alignment agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC---ct ggccccccccaacagctacactaatctgtattttacccatgattcattagagGTAACCCCTACACCTCTAGAAGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTTCGGAGCCGGCAGGATCAGGACCTGCGGGAGTTGCATAAGAAGCACCAGCGTAAGGCTGTGGCCCTCACACGCCGTCTTCTGGATGGCCTAGCCCAGGCGAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCTTTctgtgagtgtcctgcaacctgttgcaacttatggtgtgtacttacaggaata Alignment from CESAR agGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC---ct ggccccccccaacagctacactaatctgtattttacccatgattcattagagGTAACCCCTACACCTCTAGAAGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTTCGGAGCCGGCAGGATCAGGACCTGCGGGAGTTGCATAAGAAGCACCAGCGTAAGGCTGTGGCCCTCACACGCCGTCTTCTGGATGGCCTAGCCCAGGCGAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCTTTctgtgagtgtcctgcaacctgttgcaacttatggtgtgtacttacaggaata Alignment from Spaln_aa2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCTG-- ggccccccccaacagctacactaatctgtattttacccatgattcattagAGGTAACCCCTACACCTCTAGAAGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTTCGGAGCCGGCAGGATCAGGACCTGCGGGAGTTGCATAAGAAGCACCAGCGTAAGGCTGTGGCCCTCACACGCCGTCTTCTGGATGGCCTAGCCCAGGCGAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCTTTCTgtgagtgtcctgcaacctgttgcaacttatggtgtgtacttacaggaata Alignment from Spaln_nt2Genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC---CT ggccccccccaacagctacactaatctgtattttacccatgattcattagAGGTAACCCCTACACCTCTAGAAGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTTCGGAGCCGGCAGGATCAGGACCTGCGGGAGTTGCATAAGAAGCACCAGCGTAAGGCTGTGGCCCTCACACGCCGTCTTCTGGATGGCCTAGCCCAGGCGAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCTTTCTgtgagtgtcctgcaacctgttgcaacttatggtgtgtacttacaggaata Alignment from Pairagon AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC---CT ggccccccccaacagctacactaatctgtattttacccatgattcattagAGGTAACCCCTACACCTCTAGAAGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTTCGGAGCCGGCAGGATCAGGACCTGCGGGAGTTGCATAAGAAGCACCAGCGTAAGGCTGTGGCCCTCACACGCCGTCTTCTGGATGGCCTAGCCCAGGCGAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCTTTCTgtgagtgtcctgcaacctgttgcaacttatggtgtgtacttacaggaata Alignment from Exonerate_protein2genome AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC---CT ggccccccccaacagctacactaatctgtattttacccatgattcattagAGGTAACCCCTACACCTCTAGAAGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTTCGGAGCCGGCAGGATCAGGACCTGCGGGAGTTGCATAAGAAGCACCAGCGTAAGGCTGTGGCCCTCACACGCCGTCTTCTGGATGGCCTAGCCCAGGCGAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCTTTCTgtgagtgtcctgcaacctgttgcaacttatggtgtgtacttacaggaata Alignment from Exonerate_coding2genome CAGCATCCTCTCTGAGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCC---CT ggccccccccaacagctacactaatctgtattttacCCATGATTCATTAGAGGTAACCCCTACACCTCTAGAAGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTTCGGAGCCGGCAGGATCAGGACCTGCGGGAGTTGCATAAGAAGCACCAGCGTAAGGCTGTGGCCCTCACACGCCGTCTTCTGGATGGCCTAGCCCAGGCGAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCTTTCTgtgagtgtcctgcaacctgttgcaacttatggtgtgtacttacaggaata Alignment from GeneWise AGGTGACCCCTACACCTCTAGAGGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTACGGAGCCGGCAGGATCGAGACCTGCGGGAGTTGCATAAGAAGCACCAGCGCAAGGCTGTGGCCCTCACCCGCCGCCTTCTGGATGGCCTGGCCCAGGCCAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCCTG-- ggccccccccaacagctacactaatctgtattttacccatgattcattagAGGTAACCCCTACACCTCTAGAAGAGCTCAGAAGCCACAAGGCTATGGTGAAGCTTCGGAGCCGGCAGGATCAGGACCTGCGGGAGTTGCATAAGAAGCACCAGCGTAAGGCTGTGGCCCTCACACGCCGTCTTCTGGATGGCCTAGCCCAGGCGAGGGCTGAGGGGAAGTGCCGGCCCTCCCCCAGTGCCTTTCTgtgagtgtcctgcaacctgttgcaacttatggtgtgtacttacaggaata #### Plcb3_ID1910_21 --> 2 - 1 Original Alignment gaTACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg gcagagatctcatgggttcagcgatacctatcctttattatttgccttagga------------------CGAAACGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGggtgagtgggacagggcaatggtttatgtggatcttaggtacatggagtct Alignment from CESAR gaTACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGg agcagcttggaagtttcagcagagaacctatcctttattatttgccttagga------------------CGAAACGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGggtgagtgggacagggcaatggtttatgtggatcttaggtacatggagtct Alignment from Spaln_aa2Genome GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG gcagagatctcatgggttcagcgatacctatcctttattatttgccttagGA------------------CGAAACGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGGgtgagtgggacagggcaatggtttatgtggatcttaggtacatggagtct Alignment from Spaln_nt2Genome -GATACCACTA------TGTCTGCCTG----CGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG gcagagatctcatgggttcagCGATACCTATCCTTTATTATTTGCCTTAGGACGAAACGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGGgtgagtgggacagggcaatggtttatgtggatcttaggtacatggagtct Alignment from Pairagon GATACCACTATGTCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG gcagagatctcatgggttcagcgatacctatcctttattatttgccttagGA------------------CGAAACGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGGgtgagtgggacagggcaatggtttatgtggatcttaggtacatggagtct Alignment from Exonerate_protein2genome TCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG gcagagatctcatgggttcagcgatacctatcctttattatttgCCTTAGGACGAAACGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGGgtgagtgggacagggcaatggtttatgtggatcttaggtacatggagtct Alignment from Exonerate_coding2genome TCTGCCTGCGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG gcagagatctcatgggttcagcgatacctatcctttattatttgCCTTAGGACGAAACGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGGgtgagtgggacagggcaatggtttatgtggatcttaggtacatggagtct Alignment from GeneWise -------TACCAC---------------TATGTCTGCCTG------------CGAAACGAGGCCAACCAACCTTTGTGCCTGCCTGCCCTGCTTATCTACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGG GCAGAGATCTCATGGGTTCAGCGATACCTATCCTTTATTATTTGCCTTAGGACGAAACGAGGCTAACCAACCTTTGTGCTTGCCTGCCTTGCTTATATACACTGAAGCTTCTGACTACATCCCAGATGACCACCAGGgtgagtgggacagggcaatggtttatgtggatcttaggtacatggagtct #### Plcb3_ID1914_17 --> 1 - 1 Original Alignment a---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg ctagaagatgatgcttctttttctttgaccccgccccactgtccactcaggAACTACAACAGACAGCAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCATCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGggtgagctctagccctatcttagggatttttggcggataaagcaacttgac Alignment from CESAR a---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGg ctagaagatgatgcttctttttctttgaccccgccccactgtccactcaggAACTACAACAGACAGCAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCATCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGggtgagctctagccctatcttagggatttttggcggataaagcaacttgac Alignment from Spaln_aa2Genome ATACAACAAACAG---CAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ctagaagatgatgcttctttttctttgaccccgccccactgtccactcagGAACTACAACAGACAGCAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCATCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtgagctctagccctatcttagggatttttggcggataaagcaacttgac Alignment from Spaln_nt2Genome AATACAACAAACA--GCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ctagaagatgatgcttctttttctttgaccccgccccactgtccactcagGAACTACAACAGACAGCAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCATCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtgagctctagccctatcttagggatttttggcggataaagcaacttgac Alignment from Pairagon ---ATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ctagaagatgatgcttctttttctttgaccccgccccactgtccactcagGAACTACAACAGACAGCAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCATCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtgagctctagccctatcttagggatttttggcggataaagcaacttgac Alignment from Exonerate_protein2genome A---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ctagaagatgatgcttctttttctttgaccccgccccactgtccactcagGAACTACAACAGACAGCAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCATCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtgagctctagccctatcttagggatttttggcggataaagcaacttgac Alignment from Exonerate_coding2genome A---TACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ctagaagatgatgcttctttttctttgaccccgccccactgtccactcagGAACTACAACAGACAGCAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCATCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtgagctctagccctatcttagggatttttggcggataaagcaacttgac Alignment from GeneWise -GAATACAACAAACAGCAGCTCAGCCGCATCTACCCTAAGGGCACACGAGTGGACTCCTCCAACTACATGCCTCAGCTCTTCTGGAACGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGG ctagaagatgatgcttctttttctttgaccccgccccactgtccactcagGAACTACAACAGACAGCAGCTCAGCCGGATCTACACTAAGGGCAAACAGGTGGACTCTTCTAACTACATGCCTCATCTCTTTTGGAATGTGGGTTGCCAGCTTGTTGCCCTCAACTTCCAGACCTTGGgtgagctctagccctatcttagggatttttggcggataaagcaacttgac #### Plcb3_ID1918_13 --> 0 - 1 Original Alignment CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTg gagctcgattgcctaggtcctgccatctattggtacatttgtggttttag---------GGTATCCCCCTGCCTAGTCCACAGGACCTTATG---GGTATTCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTACGCAAGCAGCCTCTGGAACTGAGCAACTTGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCATCACCTCAGCTCggcaagtgtcctgtcctgacttctacccctgaacctaatgatatattcacc Alignment from CESAR CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTg aggtgaagggagctcgattgcctagtctattggtacatttgtggttttag---------GGTATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATTCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTACGCAAGCAGCCTCTGGAACTGAGCAACTTGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCATCACCTCAGCTCggcaagtgtcctgtcctgacttctacccctgaacctaatgatatattcacc Alignment from Spaln_aa2Genome CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTG gagctcgattgcctaggtcctgccatctattggtacatttgtggttttag---------GGTATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATTCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTACGCAAGCAGCCTCTGGAACTGAGCAACTTGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCATCACCTCAGCTCGgcaagtgtcctgtcctgacttctacccctgaacctaatgatatattcacc Alignment from Spaln_nt2Genome CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTG gagctcgattgcctaggtcctgccatctattggtacatttgtggttttag---------GGTATCCCCCTGCCTAGTCCACAGGACCTTATGG---GTATTCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTACGCAAGCAGCCTCTGGAACTGAGCAACTTGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCATCACCTCAGCTCGgcaagtgtcctgtcctgacttctacccctgaacctaatgatatattcacc Alignment from Pairagon CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTG gagctcgattgcctaggtcctgccatctattggtacatttgtggttttag---------GGTATCCCCCTGCCTAGTCCACAGGACCTTATGG---GTATTCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTACGCAAGCAGCCTCTGGAACTGAGCAACTTGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCATCACCTCAGCTCGgcaagtgtcctgtcctgacttctacccctgaacctaatgatatattcacc Alignment from Exonerate_protein2genome CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTG gagctcgattgcctaggtcctgccatctattggtacatttgTGGTTTTAGGGTATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATTCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTACGCAAGCAGCCTCTGGAACTGAGCAACTTGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCATCACCTCAGCTCGgcaagtgtcctgtcctgacttctacccctgaacctaatgatatattcacc Alignment from Exonerate_coding2genome CTATCTGCGGGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTG gagctcgattgcctaggtcctgccatctattggtacatttgTGGTTTTAGGGTATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATTCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTACGCAAGCAGCCTCTGGAACTGAGCAACTTGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCATCACCTCAGCTCGgcaagtgtcctgtcctgacttctacccctgaacctaatgatatattcacc Alignment from GeneWise GGCATCCCCCTGCCTAGTCCACAGGACCTGATGGGCCGTATCCTGGTGAAGAATAAGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTGCGCAAGCGGCCTCTGGAACAGAGCAACTCGGCCTTGAGTGAGAGCTCGGCCGCCACAGAGCCCTCCTCACCTCAGCTTGGGTCC- gagctcgattgcctaggtcctgccatctattggtacatttgtggttttagGGTATCCCCCTGCCTAGTCCACAGGACCTTATGGGT---ATTCTGGTGAAGAATAGGAAGCGACATCGGCCCAGCACAGGTGTCCCTGACAGCTCAGTACGCAAGCAGCCTCTGGAACTGAGCAACTTGGCACTGAGTGAGAGCTCCGCTGCCACAGAGCCCTCATCACCTCAGCTCGGCAAGTgtcctgtcctgacttctacccctgaacctaatgatatattcacc #### Plcb3_ID1923_8 --> 1 - 2 Original Alignment t------GAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGat tctggaactggctgaccaagattctcaccccttgcgttccatcccttcagtCCACTCGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGatgtgagaaacttggaaatggagtccataggctgggctctgtctccagtgca Alignment from CESAR t------GAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGat tctggaactggctgaccaagattctcaccccttgcgttccatcccttcagtCCACTCGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGatgtgagaaacttggaaatggagtccataggctgggctctgtctccagtgca Alignment from Spaln_aa2Genome TGAGTCCATTCGC------CCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaagattctcaccccttgcgttccatcccttcagTCCACTCGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagaaacttggaaatggagtccataggctgggctctgtctccagtgca Alignment from Spaln_nt2Genome TGAGTCCATTCG------CCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaagattctcaccccttgcgttccatcccttcagTCCACTCGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagaaacttggaaatggagtccataggctgggctctgtctccagtgca Alignment from Pairagon T------GAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaagattctcaccccttgcgttccatcccttcagTCCACTCGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagaaacttggaaatggagtccataggctgggctctgtctccagtgca Alignment from Exonerate_protein2genome CCGAGTTGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaagattctcaccccttgcgttccatcccttcagTCCACTCGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagaaacttggaaatggagtccataggctgggctctgtctccagtgca Alignment from Exonerate_coding2genome CCGAGTTGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaagattctcaccccttgcgttccatcccttcagTCCACTCGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagaaacttggaaatggagtccataggctgggctctgtctccagtgca Alignment from GeneWise ----GTTGAGTCCATTCGCCCTGATGAGTTTCCCTTGGAAATTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCGGATATTGACAAGATCCTGCTGGAGAT tctggaactggctgaccaagattctcaccccttgcgttccatcccttcagTCCACTCGAATCCATTCGCCCTGATGAATTTCCCTTGGAAGTTTTTGAGCGGTTCTTGAATAAACTGTGTCTGCGCCCAGATATTGACAAGATCCTGCTGGAGATgtgagaaacttggaaatggagtccataggctgggctctgtctccagtgca #### Plcb3_ID1924_7 --> 1 - 2 Original Alignment cATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGA---gt tttctgctgcctgtccatccattgacccagtgatccttttctgcttccagcATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGATGGgtgtgagcgtcagggccagggtgtgggtggggcaggatgggctattgcaata Alignment from CESAR cATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGA---gt tttctgctgcctgtccatccattgacccagtgatccttttctgcttccagcATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGATGGgtgtgagcgtcagggccagggtgtgggtggggcaggatgggctattgcaata Alignment from Spaln_aa2Genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGTT-- tttctgctgcctgtccatccattgacccagtgatccttttctgcttccagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGATGGGTgtgagcgtcagggccagggtgtgggtggggcaggatgggctattgcaata Alignment from Spaln_nt2Genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGA---GT tttctgctgcctgtccatccattgacccagtgatccttttctgcttccagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGATGGGTgtgagcgtcagggccagggtgtgggtggggcaggatgggctattgcaata Alignment from Pairagon CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGA---GT tttctgctgcctgtccatccattgacccagtgatccttttctgcttccagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGATGGGTgtgagcgtcagggccagggtgtgggtggggcaggatgggctattgcaata Alignment from Exonerate_protein2genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCG tttctgctgcctgtccatccattgacccagtgatccttttctgcttccagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGatgggtgtgagcgtcagggccagggtgtgggtggggcaggatgggctattgcaata Alignment from Exonerate_coding2genome CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCG tttctgctgcctgtccatccattgacccagtgatccttttctgcttccagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGatgggtgtgagcgtcagggccagggtgtgggtggggcaggatgggctattgcaata Alignment from GeneWise CATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACGGCGCTGGAGTCCTGTGGCCTCAACTTCAACCGAGTT-- tttctgctgcctgtccatccattgacccagtgatccttttctgcttccagCATTCTGAAGATGTTCTCGGCGGACAAGAAGCGGGTGGAGACTGCGCTGGAGTCCTGTGGCCTCAACTTAAACCGATGGGTgtgagcgtcagggccagggtgtgggtggggcaggatgggctattgcaata #### Plcb3_ID1925_6 --> 1 - 2 Original Alignment a---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGaa gagtgctgggagttccactgacaagaccgcgtgtgttcttttgaatgcagaTGGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCAGTCAAGaagtgaggtcccattccctcgcagcatcttctctcctgccctgagattggtg Alignment from CESAR a---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGaa gagtgctgggagttccactgacaagaccgcgtgtgttcttttgaatgcagaTGGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCAGTCAAGaagtgaggtcccattccctcgcagcatcttctctcctgccctgagattggtg Alignment from Spaln_aa2Genome ATACACGAAGCTGAAG---CTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA gagtgctgggagttccactgacaagaccgcgtgtgttcttttgaatgcagATGGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCAGTCAAGAAgtgaggtcccattccctcgcagcatcttctctcctgccctgagattggtg Alignment from Spaln_nt2Genome ATACACGAAG---CTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA gagtgctgggagttccactgacaagaccgcgtgtgttcttttgaatgcagATGGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCAGTCAAGAAgtgaggtcccattccctcgcagcatcttctctcctgccctgagattggtg Alignment from Pairagon -----------------------------------------------------ATACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA GAGTGCTGGGAGTTCCACTGACAAGACCGCGTGTGTTCTTTTGAATGCAGATGGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCAGTCAAGAAgtgaggtcccattccctcgcagcatcttctctcctgccctgagattggtg Alignment from Exonerate_protein2genome A---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA gagtgctgggagttccactgacaagaccgcgtgtgttcttttgaatgcagATGGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCAGTCAAGAAgtgaggtcccattccctcgcagcatcttctctcctgccctgagattggtg Alignment from Exonerate_coding2genome A---TACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA gagtgctgggagttccactgacaagaccgcgtgtgttcttttgaatgcagATGGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCAGTCAAGAAgtgaggtcccattccctcgcagcatcttctctcctgccctgagattggtg Alignment from GeneWise -GCATACACGAAGCTGAAGCTGCAGGTGAACCAGGATGGACGGATTCCGGTCAAGAA gagtgctgggagttccactgacaagaccgcgtgtgttcttttgaatgcagATGGTACACGAAGCTGAAGCTGCAGGTGAATCAGGATGGACGGATTCCAGTCAAGAAgtgaggtcccattccctcgcagcatcttctctcctgccctgagattggtg #### Plcb3_ID1927_4 --> 0 - 0 Original Alignment ---------GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG actcctccccttcttcttcgttctattccccttcccatcttcttttccagTTGGATCGTGACCCTAAGATTCGAGAAGTGTTGGGCTTTGGGGGCCCTGATACGCGGCTGGAGGAGAGACTGATGACAGTGGTGGCTGGGCCAGATTTAGTAACTACCACATTCTTGAACTTCATGGCTGTGCAGGATGGCACAGTCAAGgtaacttggtgtcaagtgacaaccaaggaaggaggggttgggttgtaaga Alignment from CESAR ---------GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG actcctccccttcttcttcgttctattccccttcccatcttcttttccagTTGGATCGTGACCCTAAGATTCGAGAAGTGTTGGGCTTTGGGGGCCCTGATACGCGGCTGGAGGAGAGACTGATGACAGTGGTGGCTGGGCCAGATTTAGTAACTACCACATTCTTGAACTTCATGGCTGTGCAGGATGGCACAGTCAAGgtaacttggtgtcaagtgacaaccaaggaaggaggggttgggttgtaaga Alignment from Spaln_aa2Genome GACCCTAAGATT---------CGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG actcctccccttcttcttcgttctattccccttcccatcttcttttccagTTGGATCGTGACCCTAAGATTCGAGAAGTGTTGGGCTTTGGGGGCCCTGATACGCGGCTGGAGGAGAGACTGATGACAGTGGTGGCTGGGCCAGATTTAGTAACTACCACATTCTTGAACTTCATGGCTGTGCAGGATGGCACAGTCAAGgtaacttggtgtcaagtgacaaccaaggaaggaggggttgggttgtaaga Alignment from Spaln_nt2Genome GGACCCTAAG--------ATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG actcctccccttcttcttcgttctattccccttcccatcttcttttccagTTGGATCGTGACCCTAAGATTCGAGAAGTGTTGGGCTTTGGGGGCCCTGATACGCGGCTGGAGGAGAGACTGATGACAGTGGTGGCTGGGCCAGATTTAGTAACTACCACATTCTTGAACTTCATGGCTGTGCAGGATGGCACAGTCAAGgtaacttggtgtcaagtgacaaccaaggaaggaggggttgggttgtaaga Alignment from Pairagon ---------GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG actcctccccttcttcttcgttctattccccttcccatcttcttttccagTTGGATCGTGACCCTAAGATTCGAGAAGTGTTGGGCTTTGGGGGCCCTGATACGCGGCTGGAGGAGAGACTGATGACAGTGGTGGCTGGGCCAGATTTAGTAACTACCACATTCTTGAACTTCATGGCTGTGCAGGATGGCACAGTCAAGgtaacttggtgtcaagtgacaaccaaggaaggaggggttgggttgtaaga Alignment from Exonerate_protein2genome CTGCCCAAGGACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG actcctccccttcttcttcgttctattccccttcccatcttcttttccagTTGGATCGTGACCCTAAGATTCGAGAAGTGTTGGGCTTTGGGGGCCCTGATACGCGGCTGGAGGAGAGACTGATGACAGTGGTGGCTGGGCCAGATTTAGTAACTACCACATTCTTGAACTTCATGGCTGTGCAGGATGGCACAGTCAAGgtaacttggtgtcaagtgacaaccaaggaaggaggggttgggttgtaaga Alignment from Exonerate_coding2genome CTGCCCAAGGACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG actcctccccttcttcttcgttctattccccttcccatcttcttttccagTTGGATCGTGACCCTAAGATTCGAGAAGTGTTGGGCTTTGGGGGCCCTGATACGCGGCTGGAGGAGAGACTGATGACAGTGGTGGCTGGGCCAGATTTAGTAACTACCACATTCTTGAACTTCATGGCTGTGCAGGATGGCACAGTCAAGgtaacttggtgtcaagtgacaaccaaggaaggaggggttgggttgtaaga Alignment from GeneWise ---------GACCCTAAGATTCGAGAAGTACTGGGCTTTGGAGGTCCTGACACCCGGCTGGAGGAGAAACTGATGACAGTGGTGGCCGGGCCAGATCCAGTAAATACCACATTCTTGAACTTCATGGCCGTGCAAGATGACACAGTCAAG actcctccccttcttcttcgttctattccccttcccatcttcttttccagTTGGATCGTGACCCTAAGATTCGAGAAGTGTTGGGCTTTGGGGGCCCTGATACGCGGCTGGAGGAGAGACTGATGACAGTGGTGGCTGGGCCAGATTTAGTAACTACCACATTCTTGAACTTCATGGCTGTGCAGGATGGCACAGTCAAGgtaacttggtgtcaagtgacaaccaaggaaggaggggttgggttgtaaga #### Plcb3_ID1928_3 --> 0 - 0 Original Alignment GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG--- aagatcaccttgtacctttaagatataagcctgaggacccctccccacagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCAAACAAgtaagcttaagattacatactcacagggccaagattgccaaagtataaga Alignment from CESAR GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG--- aagatcaccttgtacctttaagatataagcctgaggacccctccccacagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCAAACAAgtaagcttaagattacatactcacagggccaagattgccaaagtataaga Alignment from Spaln_aa2Genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG--- aagatcaccttgtacctttaagatataagcctgaggacccctccccacagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCAAACAAgtaagcttaagattacatactcacagggccaagattgccaaagtataaga Alignment from Spaln_nt2Genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG--- aagatcaccttgtacctttaagatataagcctgaggacccctccccacagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCAAACAAgtaagcttaagattacatactcacagggccaagattgccaaagtataaga Alignment from Pairagon GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCA------------------------------------------------------- aagatcaccttgtacctttaagatataagcctgaggacccctccccacagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCAAACAAGTAAGCTTAAGATTACATACTCACAGGGCCAAGATTGCCAAAGTATAAGA Alignment from Exonerate_protein2genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG--- aagatcaccttgtacctttaagatataagcctgaggacccctccccacagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCAAACAAgtaagcttaagattacatactcacagggccaagattgccaaagtataaga Alignment from Exonerate_coding2genome GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAG--- aagatcaccttgtacctttaagatataagcctgaggacccctccccacagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCAAACAAgtaagcttaagattacatactcacagggccaagattgccaaagtataaga Alignment from GeneWise GAGGTGGACACACTGGACATCAGCTCCATCAGGGACACAAGGACAGGTCGTTATGCCCGCCTGCCCAAGGAC aagatcaccttgtacctttaagatataagcctgaggacccctccccacagGAGGTGGACACACTGGATATCAGCTCCATCAGAGACACAAGAACAGGTCGTTATGCCCGCCTGCCCAAACAAgtaagcttaagattacatactcacagggccaagattgccaaagtataaga #### Pnlip_ID12751_10 --> 2 - 2 Original Alignment gt---------TGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCaa cccagaagcttttccctcccagataacactgagtattttccttacaataggtTGGGATGAGTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAGTTTTCaagtaagtaaagattgaaagcatcacacagttcttcttatatctaagtgggt Alignment from CESAR gt---------TGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCaa cccagaagcttttccctcccagataacactgagtattttccttacaataggtTGGGATGAGTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAGTTTTCaagtaagtaaagattgaaagcatcacacagttcttcttatatctaagtgggt Alignment from Spaln_aa2Genome GTTGGCGG---------TACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA cccagaagcttttccctcccagataacactgagtattttccttacaatagGTTGGGATGAGTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAGTTTTCAAgtaagtaaagattgaaagcatcacacagttcttcttatatctaagtgggt Alignment from Spaln_nt2Genome GTTGGCGGTAC---------CAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA cccagaagcttttccctcccagataacactgagtattttccttacaatagGTTGGGATGAGTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAGTTTTCAAgtaagtaaagattgaaagcatcacacagttcttcttatatctaagtgggt Alignment from Pairagon GT---------TGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA cccagaagcttttccctcccagataacactgagtattttccttacaatagGTTGGGATGAGTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAGTTTTCAAgtaagtaaagattgaaagcatcacacagttcttcttatatctaagtgggt Alignment from Exonerate_protein2genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA cccagaagcttttccctcccagataacactgagtattttccttacaataggttgggatgAGTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAGTTTTCAAgtaagtaaagattgaaagcatcacacagttcttcttatatctaagtgggt Alignment from Exonerate_coding2genome GTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA cccagaagcttttccctcccagataacactgagtattttccttacaataggttgggatgAGTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAGTTTTCAAgtaagtaaagattgaaagcatcacacagttcttcttatatctaagtgggt Alignment from GeneWise --------CGTTGGCGGTACCAGGTGACTGTCACCCTGTCTGGACAGAAGGTCACTGGGCACATTCTAGTTTCTTTGTTTGGAAATGGAGGAAACTCTAAACAGTATGAAGTTTTCAA cccagaagcttttccctcccagataacactgagtattttccttacaatagGTTGGGATGAGTGGCGGTACCAGGTAACTGTCACCCTCTCTGGACAGAAGGTCACTGGGCATATCCTAGTTTCATTGTTTGGAAATGGAGGTAACTCTAAGCAGTATGAAGTTTTCAAgtaagtaaagattgaaagcatcacacagttcttcttatatctaagtgggt #### Pola2_ID1324_16 --> 1 - 2 Original Alignment c---TCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAag tgactagtaacctggtctatccccccccatactgggaatgtggtattcagcAATTCTTCAGGGACGTCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAaggtgagtggtgtcctgccaaccccaagaagaatggaccatatttattagca Alignment from CESAR c---TCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAag tgactagtaacctggtctatccccccccatactgggaatgtggtattcagcAATTCTTCAGGGACGTCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAaggtgagtggtgtcctgccaaccccaagaagaatggaccatatttattagca Alignment from Spaln_aa2Genome C---TCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tgactagtaacctggtctatccccccccatactgggaatgtggtattcagCAATTCTTCAGGGACGTCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtgagtggtgtcctgccaaccccaagaagaatggaccatatttattagca Alignment from Spaln_nt2Genome CTCTTCCGGGAC---GTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tgactagtaacctggtctatccccccccatactgggaatgtggtattcagCAATTCTTCAGGGACGTCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtgagtggtgtcctgccaaccccaagaagaatggaccatatttattagca Alignment from Pairagon C---TCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tgactagtaacctggtctatccccccccatactgggaatgtggtattcagCAATTCTTCAGGGACGTCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtgagtggtgtcctgccaaccccaagaagaatggaccatatttattagca Alignment from Exonerate_protein2genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tgactagtaacctggtctatccccccccatactgggaatgtggtattcagcaaTTCTTCAGGGACGTCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtgagtggtgtcctgccaaccccaagaagaatggaccatatttattagca Alignment from Exonerate_coding2genome CTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tgactagtaacctggtctatccccccccatactgggaatgtggtattcagcaaTTCTTCAGGGACGTCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtgagtggtgtcctgccaaccccaagaagaatggaccatatttattagca Alignment from GeneWise -AGCTCTTCCGGGACGTCAGACAGATTCAGCCGAGTCCTTAAGCATATCCTGACGCAGAGAAG tgactagtaacctggtctatccccccccatactgggaatgtggtattcagCAATTCTTCAGGGACGTCAGACAGATTCAGCAGAGTCCTTAAGCATATTCTGACACAGAGAAGgtgagtggtgtcctgccaaccccaagaagaatggaccatatttattagca #### Pold4_ID437_2 --> 2 - 1 Original Alignment ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg aggtctagatgagcatgaggtcacttttttcacgttcctcccttcatcaggg---------CAGTCCCTCAGCCAAGAGGAAACTGAGCTGGAGCTGTTGCGGCAGTTTGACTTGGCCTGGCAGTATGGGCCTTGTACAggtaagtaccccccatttccaccctcgaatcagtctttcataaggtacttt Alignment from CESAR ggGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAg gtagtgcaaaggtctagatgagcattttttcacgttcctcccttcatcaggg---------CAGTCCCTCAGCCAAGAGGAAACTGAGCTGGAGCTGTTGCGGCAGTTTGACTTGGCCTGGCAGTATGGGCCTTGTACAggtaagtaccccccatttccaccctcgaatcagtctttcataaggtacttt Alignment from Spaln_aa2Genome GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggtctagatgagcatgaggtcacttttttcacgttcctcccttcatcagGG---------CAGTCCCTCAGCCAAGAGGAAACTGAGCTGGAGCTGTTGCGGCAGTTTGACTTGGCCTGGCAGTATGGGCCTTGTACAGgtaagtaccccccatttccaccctcgaatcagtctttcataaggtacttt Alignment from Spaln_nt2Genome AGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggtctagatgagcatgaggtcacttttttcacgttcctcccttcatcagGG-----CAGTCCCTCAGCCAAGAGGAAACTGAGCTGGAGCTGTTGCGGCAGTTTGACTTGGCCTGGCAGTATGGGCCTTGTACAGgtaagtaccccccatttccaccctcgaatcagtctttcataaggtacttt Alignment from Pairagon GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggtctagatgagcatgaggtcacttttttcacgttcctcccttcatcagGG---------CAGTCCCTCAGCCAAGAGGAAACTGAGCTGGAGCTGTTGCGGCAGTTTGACTTGGCCTGGCAGTATGGGCCTTGTACAGgtaagtaccccccatttccaccctcgaatcagtctttcataaggtacttt Alignment from Exonerate_protein2genome AGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggtctagatgagcatgaggtcacttttttcacgttcctcccttcATCAGGGCAGTCCCTCAGCCAAGAGGAAACTGAGCTGGAGCTGTTGCGGCAGTTTGACTTGGCCTGGCAGTATGGGCCTTGTACAGgtaagtaccccccatttccaccctcgaatcagtctttcataaggtacttt Alignment from Exonerate_coding2genome AGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggtctagatgagcatgaggtcacttttttcacgttcctcccttcATCAGGGCAGTCCCTCAGCCAAGAGGAAACTGAGCTGGAGCTGTTGCGGCAGTTTGACTTGGCCTGGCAGTATGGGCCTTGTACAGgtaagtaccccccatttccaccctcgaatcagtctttcataaggtacttt Alignment from GeneWise GGGAAGACACCCAGTCCCTCAGCCAGGAGGAAACAGAGCTGGAGCTGCTGAGGCAGTTTGACCTGGCCTGGCAGTATGGGCCTTGTACAG aggtctagatgagcatgaggtcacttttttcacgttcctcccttcatcagGG---------CAGTCCCTCAGCCAAGAGGAAACTGAGCTGGAGCTGTTGCGGCAGTTTGACTTGGCCTGGCAGTATGGGCCTTGTACAGgtaagtaccccccatttccaccctcgaatcagtctttcataaggtacttt #### Ppp1ca_ID408_2 --> 2 - 1 Original Alignment tg------CAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTg acctgtccagtctgtgaggtcagtgcccttttttctcctttggaaattagtgTTAACCCAGGGCTCTAGGCCTGGGAAAAATGTACAGCTAACAGAGAATGAGATTCGTGGTCTGTGTCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCGCTCAAGATCTGTggtaagtcttgcatagaaccctcttcccagaacctggatgcccctgctagt Alignment from CESAR tg------CAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTg acctgtccagtctgtgaggtcagtgcccttttttctcctttggaaattagtgTTAACCCAGGGCTCTAGGCCTGGGAAAAATGTACAGCTAACAGAGAATGAGATTCGTGGTCTGTGTCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCGCTCAAGATCTGTggtaagtcttgcatagaaccctcttcccagaacctggatgcccctgctagt Alignment from Spaln_aa2Genome TG------CAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG acctgtccagtctgtgaggtcagtgcccttttttctcctttggaaattagTGTTAACCCAGGGCTCTAGGCCTGGGAAAAATGTACAGCTAACAGAGAATGAGATTCGTGGTCTGTGTCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCGCTCAAGATCTGTGgtaagtcttgcatagaaccctcttcccagaacctggatgcccctgctagt Alignment from Spaln_nt2Genome TG------CAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG acctgtccagtctgtgaggtcagtgcccttttttctcctttggaaattagTGTTAACCCAGGGCTCTAGGCCTGGGAAAAATGTACAGCTAACAGAGAATGAGATTCGTGGTCTGTGTCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCGCTCAAGATCTGTGgtaagtcttgcatagaaccctcttcccagaacctggatgcccctgctagt Alignment from Pairagon TG------CAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG acctgtccagtctgtgaggtcagtgcccttttttctcctttggaaattagTGTTAACCCAGGGCTCTAGGCCTGGGAAAAATGTACAGCTAACAGAGAATGAGATTCGTGGTCTGTGTCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCGCTCAAGATCTGTGgtaagtcttgcatagaaccctcttcccagaacctggatgcccctgctagt Alignment from Exonerate_protein2genome GCGCCTGCTGGAAGTGCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG acctgtccagtctgtgaggtcagtgcccttttttctcctttgGAAATTAGTGTTAACCCAGGGCTCTAGGCCTGGGAAAAATGTACAGCTAACAGAGAATGAGATTCGTGGTCTGTGTCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCGCTCAAGATCTGTGgtaagtcttgcatagaaccctcttcccagaacctggatgcccctgctagt Alignment from Exonerate_coding2genome GCGCCTGCTGGAAGTGCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG acctgtccagtctgtgaggtcagtgcccttttttctcctttgGAAATTAGTGTTAACCCAGGGCTCTAGGCCTGGGAAAAATGTACAGCTAACAGAGAATGAGATTCGTGGTCTGTGTCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCGCTCAAGATCTGTGgtaagtcttgcatagaaccctcttcccagaacctggatgcccctgctagt Alignment from GeneWise -----GTGCAGGGCTCACGGCCTGGGAAGAACGTGCAGCTGACAGAGAACGAGATCCGTGGTCTGTGCCTCAAATCCCGGGAGATTTTCCTGAGCCAGCCCATTCTTCTGGAGCTTGAGGCGCCCCTCAAGATCTGTG acctgtccagtctgtgaggtcagtgcccttttttctcctttggaaattagTGTTAACCCAGGGCTCTAGGCCTGGGAAAAATGTACAGCTAACAGAGAATGAGATTCGTGGTCTGTGTCTCAAATCCCGGGAGATTTTCCTAAGCCAGCCTATTCTTCTGGAACTTGAGGCACCGCTCAAGATCTGTGgtaagtcttgcatagaaccctcttcccagaacctggatgcccctgctagt #### Ppp1ca_ID409_3 --> 2 - 1 Original Alignment gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAt tgtacttacttagtgtacttccttacttttgaattgtcttttctgtctaggc---ATCCATGGACAGTACTACGACCTTCTACACCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCCTGGGGGATTATGTAGACCGGGGCAAGCAATCCTTGGAGACCATCTGCCTGTTGCTGACCTATAAGATCAGATACCTGGAGAATTTCTATGTACTTCGCGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCGtgtgatagctttgaattctgccatctgcccagaggtacattcctggctctt Alignment from CESAR gtGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAt tcttgtacttacttagtgtacttcccttttgaattgtcttttctgtctaggc---ATCCATGGACAGTACTACGACCTTCTACACCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCCTGGGGGATTATGTAGACCGGGGCAAGCAATCCTTGGAGACCATCTGCCTGTTGCTGACCTATAAGATCAGATACCTGGAGAATTTCTATGTACTTCGCGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCGtgtgatagctttgaattctgccatctgcccagaggtacattcctggctctt Alignment from Spaln_aa2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT tgtacttacttagtgtacttccttacttttgaattgtcttttctgtctagGC---ATCCATGGACAGTACTACGACCTTCTACACCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCCTGGGGGATTATGTAGACCGGGGCAAGCAATCCTTGGAGACCATCTGCCTGTTGCTGACCTATAAGATCAGATACCTGGAGAATTTCTATGTACTTCGCGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCGTgtgatagctttgaattctgccatctgcccagaggtacattcctggctctt Alignment from Spaln_nt2Genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT tgtacttacttagtgtacttccttacttttgaattgtcttttctgtctagG---CATCCATGGACAGTACTACGACCTTCTACACCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCCTGGGGGATTATGTAGACCGGGGCAAGCAATCCTTGGAGACCATCTGCCTGTTGCTGACCTATAAGATCAGATACCTGGAGAATTTCTATGTACTTCGCGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCGTgtgatagctttgaattctgccatctgcccagaggtacattcctggctctt Alignment from Pairagon GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT tgtacttacttagtgtacttccttacttttgaattgtcttttctgtctagG---CATCCATGGACAGTACTACGACCTTCTACACCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCCTGGGGGATTATGTAGACCGGGGCAAGCAATCCTTGGAGACCATCTGCCTGTTGCTGACCTATAAGATCAGATACCTGGAGAATTTCTATGTACTTCGCGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCGTgtgatagctttgaattctgccatctgcccagaggtacattcctggctctt Alignment from Exonerate_protein2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT tgtacttacttagtgtacttccttacttttgaattgtcttttctgtctagGC---ATCCATGGACAGTACTACGACCTTCTACACCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCCTGGGGGATTATGTAGACCGGGGCAAGCAATCCTTGGAGACCATCTGCCTGTTGCTGACCTATAAGATCAGATACCTGGAGAATTTCTATGTACTTCGCGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCGTgtgatagctttgaattctgccatctgcccagaggtacattcctggctctt Alignment from Exonerate_coding2genome GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT tgtacttacttagtgtacttccttacttttgaattgtcttttctgtctagGC---ATCCATGGACAGTACTACGACCTTCTACACCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCCTGGGGGATTATGTAGACCGGGGCAAGCAATCCTTGGAGACCATCTGCCTGTTGCTGACCTATAAGATCAGATACCTGGAGAATTTCTATGTACTTCGCGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCGTgtgatagctttgaattctgccatctgcccagaggtacattcctggctctt Alignment from GeneWise GTGACATCCATGGCCAGTACTATGACCTTCTACGGCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCTTGGGGGATTATGTAGATCGGGGCAAGCAGTCTTTGGAGACCATCTGCCTGTTGCTGGCCTATAAGATCAGATACCCGGAGAATTTCTTTCTACTTCGTGGGAACCATGAGTGTGCCAGCATCAACCGCATTTATGGCTTCTATGATGAAT tgtacttacttagtgtacttccttacttttgaattgtcttttctgtctagGC---ATCCATGGACAGTACTACGACCTTCTACACCTGTTTGAGTATGGTGGCTTCCCTCCAGAGAGCAACTACCTCTTCCTGGGGGATTATGTAGACCGGGGCAAGCAATCCTTGGAGACCATCTGCCTGTTGCTGACCTATAAGATCAGATACCTGGAGAATTTCTATGTACTTCGCGGAAACCATGAGTGTGCCAGCATTAACCGCATTTATGGCTTTTATGATGCGTgtgatagctttgaattctgccatctgcccagaggtacattcctggctctt #### Ppp1ca_ID411_5 --> 2 - 0 Original Alignment gcCTGTCTCCAGACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG caaaaaatgattacagacgtcacaccctcctgtcgcccccccccccctaggc------------------------GAGCAGATCAGGCGTATTATGCGGCCCACAGACGTCCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGACAAGGATGTTCAAGGCTGGGGTGAGAATGACCGTGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATTTGCAGAGCGCATCAGgtgagttgatgggtgagggatgggctgggagtgggggtggcatgcctaac Alignment from CESAR gcCTGTCTCCAGACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG caggatagcacttggtttaaggaaccctcctgtcgcccccccccccctaggc------------------------GAGCAGATCAGGCGTATTATGCGGCCCACAGACGTCCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGACAAGGATGTTCAAGGCTGGGGTGAGAATGACCGTGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATTTGCAGAGCGCATCAGgtgagttgatgggtgagggatgggctgggagtgggggtggcatgcctaac Alignment from Spaln_aa2Genome CAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG caaaaaatgattacagacgtcacaccctcctgtcgcccccccccccctaggcgagCAGATCAGGCGTATTATGCGGCCCACAGACGTCCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGACAAGGATGTTCAAGGCTGGGGTGAGAATGACCGTGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATTTGCAGAGCGCATCAGgtgagttgatgggtgagggatgggctgggagtgggggtggcatgcctaac Alignment from Spaln_nt2Genome TGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG caaaaaatgattacagacgtcacaccctcctgtcgcccccccccccctagGCGAGCAGATCAGGCGTATTATGCGGCCCACAGACGTCCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGACAAGGATGTTCAAGGCTGGGGTGAGAATGACCGTGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATTTGCAGAGCGCATCAGgtgagttgatgggtgagggatgggctgggagtgggggtggcatgcctaac Alignment from Pairagon GCCTGTCTCCAGACTTGCAATCCATGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG caaaaaatgattacagacgtcacaccctcctgtcgcccccccccccctagGC------------------------GAGCAGATCAGGCGTATTATGCGGCCCACAGACGTCCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGACAAGGATGTTCAAGGCTGGGGTGAGAATGACCGTGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATTTGCAGAGCGCATCAGgtgagttgatgggtgagggatgggctgggagtgggggtggcatgcctaac Alignment from Exonerate_protein2genome TGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG caaaaaatgattacagacgtcacaccctcctgtcgcccccccccccctagGCGAGCAGATCAGGCGTATTATGCGGCCCACAGACGTCCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGACAAGGATGTTCAAGGCTGGGGTGAGAATGACCGTGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATTTGCAGAGCGCATCAGgtgagttgatgggtgagggatgggctgggagtgggggtggcatgcctaac Alignment from Exonerate_coding2genome TGGAGCAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG caaaaaatgattacagacgtcacaccctcctgtcgcccccccccccctagGCGAGCAGATCAGGCGTATTATGCGGCCCACAGACGTCCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGACAAGGATGTTCAAGGCTGGGGTGAGAATGACCGTGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATTTGCAGAGCGCATCAGgtgagttgatgggtgagggatgggctgggagtgggggtggcatgcctaac Alignment from GeneWise CAGATTAGGCGTATTATGCGGCCCACAGACGTGCCTGACCAGGGCCTACTGTGTGATCTCCTGTGGTCTGACCCTGACAAGGATGTTCAAGGCTGGGGCGAGAATGACCGTGGTGTCTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATCTGCAGAGCACATCAG caaaaaatgattacagacgtcacaccctcctgtcgcccccccccccctaggcgagCAGATCAGGCGTATTATGCGGCCCACAGACGTCCCAGACCAAGGCCTACTGTGTGATCTCCTGTGGTCTGATCCTGACAAGGATGTTCAAGGCTGGGGTGAGAATGACCGTGGTGTTTCCTTTACCTTTGGGGCTGAGGTGGTAGCCAAGTTCCTGCACAAGCATGATTTGGACCTCATTTGCAGAGCGCATCAGgtgagttgatgggtgagggatgggctgggagtgggggtggcatgcctaac #### Ppp1r14b_ID1940_3 --> 0 - 0 Original Alignment GAGCTGTTAGTTGACTGTTACAAACCCACTGAG gaaaaccctgtgctcaagaagccactatctgccttcatcttcacctacagGAACTATTAGTTGACTGTTACAAACCTACT---gtaagcggatactctccttcccctcagtcctagggtgagtgtgcacacat Alignment from CESAR GAGCTGTTAGTTGACTGTTACAAACCCACTGAG gaaaaccctgtgctcaagaagccactatctgccttcatcttcacctacagGAACTATTAGTTGACTGTTACAAACCTACT---gtaagcggatactctccttcccctcagtcctagggtgagtgtgcaca Alignment from Spaln_aa2Genome GAGCTGTTAGTTGACTGTTACAAACCCACT gaaaaccctgtgctcaagaagccactatctgccttcatcttcacctacagGAACTATTAGTTGACTGTTACAAACCTACTgtaagcggatactctccttcccctcagtcctagggtgagtgtgcacacat Alignment from Spaln_nt2Genome GAGCTGTTAGTTGACTGTTACAAACCCACT gaaaaccctgtgctcaagaagccactatctgccttcatcttcacctacagGAACTATTAGTTGACTGTTACAAACCTACTgtaagcggatactctccttcccctcagtcctagggtgagtgtgcacacat Alignment from Pairagon GAGCTGTTAGTTGACTGTTACAAACCCACTG------------------------------------------------- gaaaaccctgtgctcaagaagccactatctgccttcatcttcacctacagGAACTATTAGTTGACTGTTACAAACCTACTGTAAGCGGATACTCTCCTTCCCCTCAGTCCTAGGGTGAGTGTGCACACAT Alignment from Exonerate_protein2genome GAGCTGTTAGTTGACTGTTACAAACCCACTGAG gaaaaccctgtgctcaagaagccactatctgccttcatcttcacctacagGAACTATTAGTTGACTGTTACAAACCTACT---gtaagcggatactctccttcccctcagtcctagggtgagtgtgcaca Alignment from Exonerate_coding2genome GAGCTGTTAGTTGACTGTTACAAACCCACTGAG gaaaaccctgtgctcaagaagccactatctgccttcatcttcacctacagGAACTATTAGTTGACTGTTACAAACCTACT---gtaagcggatactctccttcccctcagtcctagggtgagtgtgcaca Alignment from GeneWise GAGCTGTTAGTTGACTGTTACAAACCCACT gaaaaccctgtgctcaagaagccactatctgccttcatcttcacctacagGAACTATTAGTTGACTGTTACAAACCTACTgtaagcggatactctccttcccctcagtcctagggtgagtgtgcacacat #### Ppp1r32_ID2843_8 --> 0 - 0 Original Alignment ---GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acatggtttctgtgaaggggtgatacccagagaaccctttaacttcctagTTAGGAAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACTTTAAACCCCAGAgtaattggcactgggagaagggaaagagacagtggtagatcaggggtgtt Alignment from CESAR ---GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acatggtttctgtgaaggggtgatacccagagaaccctttaacttcctagTTAGGAAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACTTTAAACCCCAGAgtaattggcactgggagaagggaaagagacagtggtagatcaggggtgtt Alignment from Spaln_aa2Genome GGAAGTGATTTC---CTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acatggtttctgtgaaggggtgatacccagagaaccctttaacttcctagTTAGGAAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACTTTAAACCCCAGAgtaattggcactgggagaagggaaagagacagtggtagatcaggggtgtt Alignment from Spaln_nt2Genome GGAAGTGATTTCCT---CCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acatggtttctgtgaaggggtgatacccagagaaccctttaacttcctagTTAGGAAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACTTTAAACCCCAGAgtaattggcactgggagaagggaaagagacagtggtagatcaggggtgtt Alignment from Pairagon ---GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acatggtttctgtgaaggggtgatacccagagaaccctttaacttcctagTTAGGAAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACTTTAAACCCCAGAgtaattggcactgggagaagggaaagagacagtggtagatcaggggtgtt Alignment from Exonerate_protein2genome ---GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acatggtttctgtgaaggggtgatacccagagaaccctttaacttcctagTTAGGAAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACTTTAAACCCCAGAgtaattggcactgggagaagggaaagagacagtggtagatcaggggtgtt Alignment from Exonerate_coding2genome ---GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acatggtttctgtgaaggggtgatacccagagaaccctttaacttcctagTTAGGAAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACTTTAAACCCCAGAgtaattggcactgggagaagggaaagagacagtggtagatcaggggtgtt Alignment from GeneWise ---GGAAGTGATTTCCTCCCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACCTTGAACCCCAGA acatggtttctgtgaaggggtgatacccagagaaccctttaacttcctagTTAGGAAGTGATTTCCTACCTGTGCTGTCCAGAGGCTCTGATCGGGACACTGGATTCAGCCGAGTGAATGAAAGGACTTTAAACCCCAGAgtaattggcactgggagaagggaaagagacagtggtagatcaggggtgtt #### Pprc1_ID9715_3 --> 0 - 0 Original Alignment AGCAGATTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT agtaggttattagagatcatgtttagggaactactgctgtccttttacagAGCAGATTGTCTCTGGAGGACCAGAATGAAATGTCTCTGCTCACACCTCTGATGGAGATCTTGGACAATGCAGATTCTGAGAATCTGTCCCCATTTGACACCATCTCTGATTCAGAGCTACTTGTGTCCCCTCGGGAGAGCTCA---gtttgtggtattgcatcaggaagggaggcggctgaaaatcccaaccatat Alignment from CESAR AGCAGATTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT agtaggttattagagatcatgtttagggaactactgctgtccttttacagAGCAGATTGTCTCTGGAGGACCAGAATGAAATGTCTCTGCTCACACCTCTGATGGAGATCTTGGACAATGCAGATTCTGAGAATCTGTCCCCATTTGACACCATCTCTGATTCAGAGCTACTTGTGTCCCCTCGGGAGAGC---TCAgtttgtggtattgcatcaggaagggaggcggctgaaaatcccaaccatat Alignment from Spaln_aa2Genome AGCAGATTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCC agtaggttattagagatcatgtttagggaactactgctgtccttttacagAGCAGATTGTCTCTGGAGGACCAGAATGAAATGTCTCTGCTCACACCTCTGATGGAGATCTTGGACAATGCAGATTCTGAGAATCTGTCCCCATTTGACACCATCTCTGATTCAGAGCTACTTGTGTCCCCTCGGGAGAGCTCAgtttgtggtattgcatcaggaagggaggcggctgaaaatcccaaccatat Alignment from Spaln_nt2Genome AGCAGATTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCC agtaggttattagagatcatgtttagggaactactgctgtccttttacagAGCAGATTGTCTCTGGAGGACCAGAATGAAATGTCTCTGCTCACACCTCTGATGGAGATCTTGGACAATGCAGATTCTGAGAATCTGTCCCCATTTGACACCATCTCTGATTCAGAGCTACTTGTGTCCCCTCGGGAGAGCTCAgtttgtggtattgcatcaggaagggaggcggctgaaaatcccaaccatat Alignment from Pairagon AGCAGATTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCC agtaggttattagagatcatgtttagggaactactgctgtccttttacagAGCAGATTGTCTCTGGAGGACCAGAATGAAATGTCTCTGCTCACACCTCTGATGGAGATCTTGGACAATGCAGATTCTGAGAATCTGTCCCCATTTGACACCATCTCTGATTCAGAGCTACTTGTGTCCCCTCGGGAGAGCTCAgtttgtggtattgcatcaggaagggaggcggctgaaaatcccaaccatat Alignment from Exonerate_protein2genome AGCAGATTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT agtaggttattagagatcatgtttagggaactactgctgtccttttacagAGCAGATTGTCTCTGGAGGACCAGAATGAAATGTCTCTGCTCACACCTCTGATGGAGATCTTGGACAATGCAGATTCTGAGAATCTGTCCCCATTTGACACCATCTCTGATTCAGAGCTACTTGTGTCCCCTCGGGAG---AGCTCAgtttgtggtattgcatcaggaagggaggcggctgaaaatcccaaccatat Alignment from Exonerate_coding2genome AGCAGATTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT agtaggttattagagatcatgtttagggaactactgctgtccttttacagAGCAGATTGTCTCTGGAGGACCAGAATGAAATGTCTCTGCTCACACCTCTGATGGAGATCTTGGACAATGCAGATTCTGAGAATCTGTCCCCATTTGACACCATCTCTGATTCAGAGCTACTTGTGTCCCCTCGGGAG---AGCTCAgtttgtggtattgcatcaggaagggaggcggctgaaaatcccaaccatat Alignment from GeneWise AGCAGATTATCTCTGGAGGACCAGAATGAAATGTCGCTGCTCACAGCTCTGACGGAGATCTTGGACAATGCAGATTCTGAGAACCTGTCCCCTTTTGACACCATTCCTGATTCAGAGCTGCTCGTGTCCCCTCGGGAGAGCTCCTCT agtaggttattagagatcatgtttagggaactactgctgtccttttacagAGCAGATTGTCTCTGGAGGACCAGAATGAAATGTCTCTGCTCACACCTCTGATGGAGATCTTGGACAATGCAGATTCTGAGAATCTGTCCCCATTTGACACCATCTCTGATTCAGAGCTACTTGTGTCCCCTCGGGAGAGC---TCAgtttgtggtattgcatcaggaagggaggcggctgaaaatcccaaccatat #### Pprc1_ID9716_4 --> 0 - 0 Original Alignment ---CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG cctctatatatagctgtgcgaaaactgattgtccctttctgcttctgtagGGGTTGCACAAGCTCCTGAATCTCTCTCGCACACCCCCAGAACGTGATCTTATCACCCCAATTGACCCCTTGGGGCCTAGCACAGGAAGTAGTCGAGTGAGTGGAgtaccagatctaggacccttctggactcacagatggggagggcatggaga Alignment from CESAR ---CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG cctctatatatagctgtgcgaaaactgattgtccctttctgcttctgtagGGGTTGCACAAGCTCCTGAATCTCTCTCGCACACCCCCAGAACGTGATCTTATCACCCCAATTGACCCCTTGGGGCCTAGCACAGGAAGTAGTCGAGTGAGTGGAgtaccagatctaggacccttctggactcacagatggggagggcatggaga Alignment from Spaln_aa2Genome CTGCACAAG---CTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG cctctatatatagctgtgcgaaaactgattgtccctttctgcttctgtagGGGTTGCACAAGCTCCTGAATCTCTCTCGCACACCCCCAGAACGTGATCTTATCACCCCAATTGACCCCTTGGGGCCTAGCACAGGAAGTAGTCGAGTGAGTGGAgtaccagatctaggacccttctggactcacagatggggagggcatggaga Alignment from Spaln_nt2Genome CTGCACAAGC---TGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG cctctatatatagctgtgcgaaaactgattgtccctttctgcttctgtagGGGTTGCACAAGCTCCTGAATCTCTCTCGCACACCCCCAGAACGTGATCTTATCACCCCAATTGACCCCTTGGGGCCTAGCACAGGAAGTAGTCGAGTGAGTGGAgtaccagatctaggacccttctggactcacagatggggagggcatggaga Alignment from Pairagon ---CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG cctctatatatagctgtgcgaaaactgattgtccctttctgcttctgtagGGGTTGCACAAGCTCCTGAATCTCTCTCGCACACCCCCAGAACGTGATCTTATCACCCCAATTGACCCCTTGGGGCCTAGCACAGGAAGTAGTCGAGTGAGTGGAgtaccagatctaggacccttctggactcacagatggggagggcatggaga Alignment from Exonerate_protein2genome ---CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG cctctatatatagctgtgcgaaaactgattgtccctttctgcttctgtagGGGTTGCACAAGCTCCTGAATCTCTCTCGCACACCCCCAGAACGTGATCTTATCACCCCAATTGACCCCTTGGGGCCTAGCACAGGAAGTAGTCGAGTGAGTGGAgtaccagatctaggacccttctggactcacagatggggagggcatggaga Alignment from Exonerate_coding2genome ---CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG cctctatatatagctgtgcgaaaactgattgtccctttctgcttctgtagGGGTTGCACAAGCTCCTGAATCTCTCTCGCACACCCCCAGAACGTGATCTTATCACCCCAATTGACCCCTTGGGGCCTAGCACAGGAAGTAGTCGAGTGAGTGGAgtaccagatctaggacccttctggactcacagatggggagggcatggaga Alignment from GeneWise ---CTGCACAAGCTGCTCAATCTCTCTCGGACACCCCCAGAACGTGACCTTATCACCCCAATTGACCCTTTGGGGCCCAGCACAGGAAGTAGTCGGGTGAGTGGG cctctatatatagctgtgcgaaaactgattgtccctttctgcttctgtagGGGTTGCACAAGCTCCTGAATCTCTCTCGCACACCCCCAGAACGTGATCTTATCACCCCAATTGACCCCTTGGGGCCTAGCACAGGAAGTAGTCGAGTGAGTGGAgtaccagatctaggacccttctggactcacagatggggagggcatggaga #### Pprc1_ID9723_11 --> 1 - 0 Original Alignment gTACAGCTCTTACCGTGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAGCGTGCAATA ctctgaatcttgacttgtctggggcatgacttctcgtgtttggccaccagg---AGCTCTTATCATGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAATGTGCCATAgtgagtcgggtagtaggtcagggggggagggtgatgtgtgctgtgtgcca Alignment from CESAR gTACAGCTCTTACCGTGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAGCGTGCAATA gagctctgaatcttgacttgtctggatgacttctcgtgtttggccaccagg---AGCTCTTATCATGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAATGTGCCATAgtgagtcgggtagtaggtcagggggggagggtgatgtgtgctgtgtgcca Alignment from Spaln_aa2Genome CTCTTACCGTGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAGCGTGCAATA ctctgaatcttgacttgtctggggcatgacttctcgtgtttggccaccaggagCTCTTATCATGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAATGTGCCATAgtgagtcgggtagtaggtcagggggggagggtgatgtgtgctgtgtgcca Alignment from Spaln_nt2Genome GTACAGCTCTTACCGTGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAGCGTGCAATA ctctgaatcttgacttgtctggggcatgacttctcgtgtttggccaccagG---AGCTCTTATCATGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAATGTGCCATAgtgagtcgggtagtaggtcagggggggagggtgatgtgtgctgtgtgcca Alignment from Pairagon GTACAGCTCTTACCGTGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAGCGTGCAATA ctctgaatcttgacttgtctggggcatgacttctcgtgtttggccaccagG---AGCTCTTATCATGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAATGTGCCATAgtgagtcgggtagtaggtcagggggggagggtgatgtgtgctgtgtgcca Alignment from Exonerate_protein2genome CAGCTCTTACCGTGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAGCGTGCAATA ctctgaatcttgacttgtctggggcatgacttctcgtgtttggccaccagGAGCTCTTATCATGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAATGTGCCATAgtgagtcgggtagtaggtcagggggggagggtgatgtgtgctgtgtgcca Alignment from Exonerate_coding2genome CAGCTCTTACCGTGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAGCGTGCAATA ctctgaatcttgacttgtctggggcatgacttctcgtgtttggccaccagGAGCTCTTATCATGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAATGTGCCATAgtgagtcgggtagtaggtcagggggggagggtgatgtgtgctgtgtgcca Alignment from GeneWise CAGCTCTTACCGTGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAGCGTGCAATA ctctgaatcttgacttgtctggggcatgacttctcgtgtttggccaccagGAGCTCTTATCATGCAAATGACCATTACCAAAGGCAGAGAGTGCTACAGAAGGAATGTGCCATAgtgagtcgggtagtaggtcagggggggagggtgatgtgtgctgtgtgcca #### Prdx5_ID1852_5 --> 0 - 2 Original Alignment GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---ag tcctgggcctgtgcaggggcttctggccgcttctcttcaacttgacccagGTGACAGACCTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCATTGGCTGAAATCTaggtgagtgagaccccttcaccccaacctcacccccatgccggttggcacta Alignment from CESAR GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---ag tcctgggcctgtgcaggggcttctggccgcttctcttcaacttgacccagGTGACAGACCTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCATTGGCTGAAATCTaggtgagtgagaccccttcaccccaacctcacccccatgccggttggcacta Alignment from Spaln_aa2Genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAGG-- tcctgggcctgtgcaggggcttctggccgcttctcttcaacttgacccagGTGACAGACCTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCATTGGCTGAAATCTAGgtgagtgagaccccttcaccccaacctcacccccatgccggttggcacta Alignment from Spaln_nt2Genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---AG tcctgggcctgtgcaggggcttctggccgcttctcttcaacttgacccagGTGACAGACCTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCATTGGCTGAAATCTAGgtgagtgagaccccttcaccccaacctcacccccatgccggttggcacta Alignment from Pairagon GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---AG tcctgggcctgtgcaggggcttctggccgcttctcttcaacttgacccagGTGACAGACCTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCATTGGCTGAAATCTAGgtgagtgagaccccttcaccccaacctcacccccatgccggttggcacta Alignment from Exonerate_protein2genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---AG tcctgggcctgtgcaggggcttctggccgcttctcttcaacttgacccagGTGACAGACCTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCATTGGCTGAAATCTAGgtgagtgagaccccttcaccccaacctcacccccatgccggttggcacta Alignment from Exonerate_coding2genome GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAA---AG tcctgggcctgtgcaggggcttctggccgcttctcttcaacttgacccagGTGACAGACCTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCATTGGCTGAAATCTAGgtgagtgagaccccttcaccccaacctcacccccatgccggttggcacta Alignment from GeneWise GCGACAGACTTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCGTCGGCTGAAAAGG-- tcctgggcctgtgcaggggcttctggccgcttctcttcaacttgacccagGTGACAGACCTATTATTGGATGATTCTTTGGTGTCTCTCTTTGGGAATCATTGGCTGAAATCTAGgtgagtgagaccccttcaccccaacctcacccccatgccggttggcacta #### Prdx5_ID1853_4 --> 0 - 0 Original Alignment GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG--- gccagcacctccactcaccaagccctcttgaaaactcttttctcttttagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGATgtaagggtaccttgcttccctcagcatgcgatcggtcttggagggacaca Alignment from CESAR GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG--- gccagcacctccactcaccaagccctcttgaaaactcttttctcttttagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGATgtaagggtaccttgcttccctcagcatgcgatcggtcttggagggacaca Alignment from Spaln_aa2Genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG--- gccagcacctccactcaccaagccctcttgaaaactcttttctcttttagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGATgtaagggtaccttgcttccctcagcatgcgatcggtcttggagggacaca Alignment from Spaln_nt2Genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG--- gccagcacctccactcaccaagccctcttgaaaactcttttctcttttagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGATgtaagggtaccttgcttccctcagcatgcgatcggtcttggagggacaca Alignment from Pairagon GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAG--- gccagcacctccactcaccaagccctcttgaaaactcttttctcttttagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGATgtaagggtaccttgcttccctcagcatgcgatcggtcttggagggacaca Alignment from Exonerate_protein2genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGCG gccagcacctccactcaccaagccctcttgaaaactcttttctcttttagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGATgtaagggtaccttgcttccctcagcatgcgatcggtcttggagggacaca Alignment from Exonerate_coding2genome GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGCG gccagcacctccactcaccaagccctcttgaaaactcttttctcttttagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGATgtaagggtaccttgcttccctcagcatgcgatcggtcttggagggacaca Alignment from GeneWise GTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGCG gccagcacctccactcaccaagccctcttgaaaactcttttctcttttagGTTCGGCTCCTGGCTGACCCCACTGGAGCCTTTGGGAAGGATgtaagggtaccttgcttccctcagcatgcgatcggtcttggagggacaca #### Prpf19_ID3044_3 --> 2 - 0 Original Alignment tt------GCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG agctccttgcatcctagttctttatacttctcttatgtccgtttttttagttAACTGTGCTCACCCAATCCGACCCAAGCCTCCCTCTGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGgtactgcctatgaaaggaatgcacctttgggcagggacctgaggaaaata Alignment from CESAR tt------GCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG agctccttgcatcctagttctttatacttctcttatgtccgtttttttagttAACTGTGCTCACCCAATCCGACCCAAGCCTCCCTCTGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGgtactgcctatgaaaggaatgcacctttgggcagggacctgaggaaaata Alignment from Spaln_aa2Genome TT------GCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG agctccttgcatcctagttctttatacttctcttatgtccgtttttttagTTAACTGTGCTCACCCAATCCGACCCAAGCCTCCCTCTGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGgtactgcctatgaaaggaatgcacctttgggcagggacctgaggaaaata Alignment from Spaln_nt2Genome TTGCTCACCC------AATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG agctccttgcatcctagttctttatacttctcttatgtccgtttttttagTTAACTGTGCTCACCCAATCCGACCCAAGCCTCCCTCTGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGgtactgcctatgaaaggaatgcacctttgggcagggacctgaggaaaata Alignment from Pairagon T------TGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG agctccttgcatcctagttctttatacttctcttatgtccgtttttttagTTAACTGTGCTCACCCAATCCGACCCAAGCCTCCCTCTGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGgtactgcctatgaaaggaatgcacctttgggcagggacctgaggaaaata Alignment from Exonerate_protein2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG agctccttgcatcctagttctttatacttctcttatgtccgtttttttagttaactGTGCTCACCCAATCCGACCCAAGCCTCCCTCTGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGgtactgcctatgaaaggaatgcacctttgggcagggacctgaggaaaata Alignment from Exonerate_coding2genome TTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG agctccttgcatcctagttctttatacttctcttatgtccgtttttttagttaactGTGCTCACCCAATCCGACCCAAGCCTCCCTCTGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGgtactgcctatgaaaggaatgcacctttgggcagggacctgaggaaaata Alignment from GeneWise -----GTTGCTCACCCAATCCGACCCAAGCCTCCCTCCGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGG agctccttgcatcctagttctttatacttctcttatgtccgtttttttagTTAACTGTGCTCACCCAATCCGACCCAAGCCTCCCTCTGCCACCAGCATCCCAGCCATTCTGAAAGCCTTGCAGGATGAGTGGgtactgcctatgaaaggaatgcacctttgggcagggacctgaggaaaata #### Prpf19_ID3045_4 --> 0 - 1 Original Alignment GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg catattctctggctctccctcagtcctccacactgttttgtgacccttagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCT------ggtaagaagggtgcatattgcatcgtaatgtccctgactcttgtctcctgg Alignment from CESAR GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAg catattctctggctctccctcagtcctccacactgttttgtgacccttagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCT------ggtaagaagggtgcatattgcatcgtaatttcaattttccttttaaccgtt Alignment from Spaln_aa2Genome GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCT---CGAGAAG catattctctggctctccctcagtcctccacactgttttgtgacccttagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTGGTAAGAAGGgtgcatattgcatcgtaatgtccctgactcttgtctcctgg Alignment from Spaln_nt2Genome GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAG catattctctggctctccctcagtcctccacactgttttgtgacccttagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCT------Ggtaagaagggtgcatattgcatcgtaatgtccctgactcttgtctcctgg Alignment from Pairagon GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCG-----------------------------------------------AG catattctctggctctccctcagtcctccacactgttttgtgacccttagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTGGTAAGAAGGGTGCATATTGCATCGTAATGTCCCTGACTCTTGTCTCCTGG Alignment from Exonerate_protein2genome GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCT---CGAGAAG catattctctggctctccctcagtcctccacactgttttgtgacccttagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTGGTAAGAAGGgtgcatattgcatcgtaatgtccctgactcttgtctcctgg Alignment from Exonerate_coding2genome GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCT---CGAGAAG catattctctggctctccctcagtcctccacactgttttgtgacccttagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTGGTAAGAAGGgtgcatattgcatcgtaatgtccctgactcttgtctcctgg Alignment from GeneWise GATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAGCTGTCCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCCCGGCTCACCAAAGAGGTCACTGCTGCTCGAGAAGCT- catattctctggctctccctcagtcctccacactgttttgtgacccttagGATGCAGTCATGCTGCACAGCTTCACTCTTCGCCAGCAACTGCAGACAACCCGCCAGGAACTGTGCCATGCTCTGTACCAACACGATGCTGCCTGCCGAGTCATTGCTCGGCTCACCAAAGAGGTCACTGCTGCTGGTAAGAAGGgtgcatattgcatcgtaatgtccctgactcttgtctcctgg #### Prpf19_ID3046_5 --> 2 - 0 Original Alignment ct---CTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG atacatattgcatcgtaatgtccctttcggactctgttcccttggcctagccAATCTGGCCACTCTGAAACCACAGGCTGGCCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTAGTGgtaagggttccaccttcagggccccaccagtaactgacacttcacaagag Alignment from CESAR ct---CTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG agtcatattgcatcgtaatgtccctttcggactctgttcccttggcctagccAATCTGGCCACTCTGAAACCACAGGCTGGCCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTAGTGgtaagggttccaccttcagggccccaccagtaactgacacttcacaagag Alignment from Spaln_aa2Genome CT---CTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG atacatattgcatcgtaatgtccctttcggactctgttcccttggcctagCCAATCTGGCCACTCTGAAACCACAGGCTGGCCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTAGTGgtaagggttccaccttcagggccccaccagtaactgacacttcacaagag Alignment from Spaln_nt2Genome CTCTGGCTACTC---TGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG atacatattgcatcgtaatgtccctttcggactctgttcccttggcctagCCAATCTGGCCACTCTGAAACCACAGGCTGGCCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTAGTGgtaagggttccaccttcagggccccaccagtaactgacacttcacaagag Alignment from Pairagon ------------------------------------------------------TCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG ATACATATTGCATCGTAATGTCCCTTTCGGACTCTGTTCCCTTGGCCTAGCCAATCTGGCCACTCTGAAACCACAGGCTGGCCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTAGTGgtaagggttccaccttcagggccccaccagtaactgacacttcacaagag Alignment from Exonerate_protein2genome CT---CTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG atacatattgcatcgtaatgtccctttcggactctgttcccttggcctagCCAATCTGGCCACTCTGAAACCACAGGCTGGCCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTAGTGgtaagggttccaccttcagggccccaccagtaactgacacttcacaagag Alignment from Exonerate_coding2genome CT---CTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG atacatattgcatcgtaatgtccctttcggactctgttcccttggcctagCCAATCTGGCCACTCTGAAACCACAGGCTGGCCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTAGTGgtaagggttccaccttcagggccccaccagtaactgacacttcacaagag Alignment from GeneWise --GCTCTGGCTACTCTGAAACCACAGGCTGGGCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTTGTG atacatattgcatcgtaatgtccctttcggactctgttcccttggcctagCCAATCTGGCCACTCTGAAACCACAGGCTGGCCTTATTGTACCTCAGGCTGTGCCAAGCTCACAGCCCAGTGTAGTGgtaagggttccaccttcagggccccaccagtaactgacacttcacaagag #### Prpf19_ID3049_8 --> 0 - 0 Original Alignment ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cgctttagttgctgttccttggggtttttgcctccttttgccttcctcagCAAAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaacagctggaggggtcctactgttccccagacaagatggatgggggag Alignment from CESAR ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cgctttagttgctgttccttggggtttttgcctccttttgccttcctcagCAAAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaacagctggaggggtcctactgttccccagacaagatggatgggggag Alignment from Spaln_aa2Genome AGAGGAAAGACT---GTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cgctttagttgctgttccttggggtttttgcctccttttgccttcctcagCAAAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaacagctggaggggtcctactgttccccagacaagatggatgggggag Alignment from Spaln_nt2Genome AGAGGAAAG---ACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cgctttagttgctgttccttggggtttttgcctccttttgccttcctcagCAAAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaacagctggaggggtcctactgttccccagacaagatggatgggggag Alignment from Pairagon ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cgctttagttgctgttccttggggtttttgcctccttttgccttcctcagCAAAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaacagctggaggggtcctactgttccccagacaagatggatgggggag Alignment from Exonerate_protein2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cgctttagttgctgttccttggggtttttgcctccttttgccttcctcagcaaAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaacagctggaggggtcctactgttccccagacaagatggatgggggag Alignment from Exonerate_coding2genome AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cgctttagttgctgttccttggggtttttgcctccttttgccttcctcagcaaAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaacagctggaggggtcctactgttccccagacaagatggatgggggag Alignment from GeneWise ---AGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTG cgctttagttgctgttccttggggtttttgcctccttttgccttcctcagCAAAGAGGAAAGACTGTCCCCGAGGAGCTGGTGAAACCTGAAGAGCTCAGCAAGTACCGGCAGGTGGCATCCCATGTGgtaacagctggaggggtcctactgttccccagacaagatggatgggggag #### Pygm_ID1683_7 --> 2 - 0 Original Alignment tcAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT tgttccatgcccaaccctagcctcactctatgttttctttttgttcacagtc---GTTGGTGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCTGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATgtaaggtgcccttcaaatgaagaccagaagcctaaaaccttggggaccat Alignment from CESAR tcAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT gcttgttccatgcccaaccctagccctctatgttttctttttgttcacagtc---GTTGGTGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCTGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATgtaaggtgcccttcaaatgaagaccagaagcctaaaaccttggggaccat Alignment from Spaln_aa2Genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT tgttccatgcccaaccctagcctcactctatgttttctttttgttcacagTC---GTTGGTGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCTGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATgtaaggtgcccttcaaatgaagaccagaagcctaaaaccttggggaccat Alignment from Spaln_nt2Genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT tgttccatgcccaaccctagcctcactctatgttttctttttgttcacagTC---GTTGGTGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCTGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATgtaaggtgcccttcaaatgaagaccagaagcctaaaaccttggggaccat Alignment from Pairagon TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT tgttccatgcccaaccctagcctcactctatgttttctttttgttcacagTC---GTTGGTGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCTGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATgtaaggtgcccttcaaatgaagaccagaagcctaaaaccttggggaccat Alignment from Exonerate_protein2genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT tgttccatgcccaaccctagcctcactctatgttttctttttgttcacagTC---GTTGGTGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCTGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATgtaaggtgcccttcaaatgaagaccagaagcctaaaaccttggggaccat Alignment from Exonerate_coding2genome TCAATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT tgttccatgcccaaccctagcctcactctatgttttctttttgttcacagTC---GTTGGTGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCTGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATgtaaggtgcccttcaaatgaagaccagaagcctaaaaccttggggaccat Alignment from GeneWise ATGTTGGCGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCCGAGAACATCTCGCGTGTTTTGTACCCCAATGATAAT tgttccatgcccaaccctagcctcactctatgttttctttttgttcacagTCGTTGGTGGCTACATCCAGGCTGTGCTGGACCGAAACCTGGCTGAGAACATCTCGCGTGTTTTGTACCCCAATGATAATgtaaggtgcccttcaaatgaagaccagaagcctaaaaccttggggaccat #### Pygm_ID1685_9 --> 0 - 0 Original Alignment GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG--------- caatagtaccctttgcctagaagtcatctgggggtggttgtattctgcagGTGGTCATCCAACTCAATGACACACATCCCTCTTTGGCCATCCCGGAGCTGATGAGGATTCCGGTAGACCTTGAACGACTAGACTGGGACAAGGCTTTTCCAgtgagtattggcaacatcacccctgtaaggacccgatctgtgacagggtg Alignment from CESAR GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG--------- caatagtaccctttgcctagaagtcatctgggggtggttgtattctgcagGTGGTCATCCAACTCAATGACACACATCCCTCTTTGGCCATCCCGGAGCTGATGAGGATTCCGGTAGACCTTGAACGACTAGACTGGGACAAGGCTTTTCCAgtgagtattggcaacatcacccctgtaaggacccgatctgtgacagggtg Alignment from Spaln_aa2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG caatagtaccctttgcctagaagtcatctgggggtggttgtattctgcagGTGGTCATCCAACTCAATGACACACATCCCTCTTTGGCCATCCCGGAGCTGATGAGGATTCCGGTAGACCTTGAACGACTAGACTGGGACAAGgcttttccagtgagtattggcaacatcacccctgtaaggacccgatctgtgacagggtg Alignment from Spaln_nt2Genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG caatagtaccctttgcctagaagtcatctgggggtggttgtattctgcagGTGGTCATCCAACTCAATGACACACATCCCTCTTTGGCCATCCCGGAGCTGATGAGGATTCCGGTAGACCTTGAACGACTAGACTGGGACAAGgcttttccagtgagtattggcaacatcacccctgtaaggacccgatctgtgacagggtg Alignment from Pairagon GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG--------- caatagtaccctttgcctagaagtcatctgggggtggttgtattctgcagGTGGTCATCCAACTCAATGACACACATCCCTCTTTGGCCATCCCGGAGCTGATGAGGATTCCGGTAGACCTTGAACGACTAGACTGGGACAAGGCTTTTCCAgtgagtattggcaacatcacccctgtaaggacccgatctgtgacagggtg Alignment from Exonerate_protein2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG caatagtaccctttgcctagaagtcatctgggggtggttgtattctgcagGTGGTCATCCAACTCAATGACACACATCCCTCTTTGGCCATCCCGGAGCTGATGAGGATTCCGGTAGACCTTGAACGACTAGACTGGGACAAGgcttttccagtgagtattggcaacatcacccctgtaaggacccgatctgtgacagggtg Alignment from Exonerate_coding2genome GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAG caatagtaccctttgcctagaagtcatctgggggtggttgtattctgcagGTGGTCATCCAACTCAATGACACACATCCCTCTTTGGCCATCCCGGAGCTGATGAGGATTCCGGTAGACCTTGAACGACTAGACTGGGACAAGgcttttccagtgagtattggcaacatcacccctgtaaggacccgatctgtgacagggtg Alignment from GeneWise GTGGCCATCCAGCTCAATGACACCCACCCCTCTTTGGCCATCCCAGAGCTGATGAGGATTCTGGTGGACCTGGAACGACTGGACTGGGACAAGGCC------ caatagtaccctttgcctagaagtcatctgggggtggttgtattctgcagGTGGTCATCCAACTCAATGACACACATCCCTCTTTGGCCATCCCGGAGCTGATGAGGATTCCGGTAGACCTTGAACGACTAGACTGGGACAAGGCTTTTCCAgtgagtattggcaacatcacccctgtaaggacccgatctgtgacagggtg #### Pygm_ID1687_11 --> 0 - 2 Original Alignment ------CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat aaaagagggagaccactaatgctgggtcccctcccccacttctgctttagCTTGGACGGGTGGCAGCTGCATTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTAGCTCGCATCCATTCGGAGATCCTCAAGAAAACCatgtgcagtctccacaagcaccgaaatacctctcttctgagatggggccagc Alignment from CESAR ------CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCat aaaagagggagaccactaatgctgggtcccctcccccacttctgctttagCTTGGACGGGTGGCAGCTGCATTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTAGCTCGCATCCATTCGGAGATCCTCAAGAAAACCatgtgcagtctccacaagcaccgaaatacctctcttctgagatggggccagc Alignment from Spaln_aa2Genome CGGGTGGCGGCTGCA------TTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT aaaagagggagaccactaatgctgggtcccctcccccacttctgctttagCTTGGACGGGTGGCAGCTGCATTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTAGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtgcagtctccacaagcaccgaaatacctctcttctgagatggggccagc Alignment from Spaln_nt2Genome CGGGTGGCGGC------TGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT aaaagagggagaccactaatgctgggtcccctcccccacttctgctttagCTTGGACGGGTGGCAGCTGCATTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTAGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtgcagtctccacaagcaccgaaatacctctcttctgagatggggccagc Alignment from Pairagon ------CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT aaaagagggagaccactaatgctgggtcccctcccccacttctgctttagCTTGGACGGGTGGCAGCTGCATTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTAGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtgcagtctccacaagcaccgaaatacctctcttctgagatggggccagc Alignment from Exonerate_protein2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT aaaagagggagaccactaatgctgggtcccctcccccacttctgctttagcttggaCGGGTGGCAGCTGCATTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTAGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtgcagtctccacaagcaccgaaatacctctcttctgagatggggccagc Alignment from Exonerate_coding2genome CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT aaaagagggagaccactaatgctgggtcccctcccccacttctgctttagcttggaCGGGTGGCAGCTGCATTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTAGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtgcagtctccacaagcaccgaaatacctctcttctgagatggggccagc Alignment from GeneWise ------CGGGTGGCGGCTGCATTCCCTGGGGACGTAGATAGGCTGCGGCGCATGTCACTCGTGGAGGAAGGAGCAGTGAAACGCATCAACATGGCACACCTGTGCATTGCTGGCTCGCACGCTGTCAACGGCGTGGCTCGCATCCATTCGGAGATCCTCAAGAAAACCAT aaaagagggagaccactaatgctgggtcccctcccccacttctgctttagCTTGGACGGGTGGCAGCTGCATTCCCAGGGGATGTAGATAGGCTGTGGCGCATGTCACTTGTGGAGGAAGGAGCAGTGAGACGCATCAATATGTCTCACCTGTGCATTGCTGGCTCACACGCTGTCAATGGTGTAGCTCGCATCCATTCGGAGATCCTCAAGAAAACCATgtgcagtctccacaagcaccgaaatacctctcttctgagatggggccagc #### Pygm_ID1688_12 --> 1 - 0 Original Alignment cTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAGACCAATGGCATCACTCCTCGGCGCTGGCTGGTTCTGTGTAACCCTGGGCTGGCAGAGGTCATTGCTGAG gagcgcacttcagaggataatggtgaccgccctgcgcccttccctgctagcTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAAACAAATGGCATCACCCCTCGGCGCTGGCTCGTACTGTGTAACCCTGCGCTGGCAGAGGTCATTGCT---gtgagtagagttcatggtatgattgatagcactttcgacaagtggatccc Alignment from CESAR cTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAGACCAATGGCATCACTCCTCGGCGCTGGCTGGTTCTGTGTAACCCTGGGCTGGCAGAGGTCATTGCTGAG gagcgcacttcagaggataatggtgaccgccctgcgcccttccctgctagcTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAAACAAATGGCATCACCCCTCGGCGCTGGCTCGTACTGTGTAACCCTGCGCTGGCAGAGGTCATTGCT---gtgagtagagttcatggtatgattgatagcactttcgacaagtggat Alignment from Spaln_aa2Genome CTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAGACCAATGGCATCACTCCTCGGCGCTGGCTGGTTCTGTGTAACCCTGGGCTGGCAGAGGTCATTGCT gagcgcacttcagaggataatggtgaccgccctgcgcccttccctgctagCTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAAACAAATGGCATCACCCCTCGGCGCTGGCTCGTACTGTGTAACCCTGCGCTGGCAGAGGTCATTGCTgtgagtagagttcatggtatgattgatagcactttcgacaagtggatccc Alignment from Spaln_nt2Genome CTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAGACCAATGGCATCACTCCTCGGCGCTGGCTGGTTCTGTGTAACCCTGGGCTGGCAGAGGTCATTGCTGAG- gagcgcacttcagaggataatggtgaccgccctgcgcccttccctgctagCTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAAACAAATGGCATCACCCCTCGGCGCTGGCTCGTACTGTGTAACCCTGCGCTGGCAGAGGTCATTGCTGTGAgtagagttcatggtatgattgatagcactttcgacaagtggatccc Alignment from Pairagon CTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAGACCAATGGCATCACTCCTCGGCGCTGGCTGGTTCTGTGTAACCCTGGGCTGGCAGAGGTCATTGCT gagcgcacttcagaggataatggtgaccgccctgcgcccttccctgctagCTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAAACAAATGGCATCACCCCTCGGCGCTGGCTCGTACTGTGTAACCCTGCGCTGGCAGAGGTCATTGCTgtgagtagagttcatggtatgattgatagcactttcgacaagtggatccc Alignment from Exonerate_protein2genome CTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAGACCAATGGCATCACTCCTCGGCGCTGGCTGGTTCTGTGTAACCCTGGGCTGGCAGAGGTCATTGCTGAG gagcgcacttcagaggataatggtgaccgccctgcgcccttccctgctagCTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAAACAAATGGCATCACCCCTCGGCGCTGGCTCGTACTGTGTAACCCTGCGCTGGCAGAGGTCATTGCT---gtgagtagagttcatggtatgattgatagcactttcgacaagtggat Alignment from Exonerate_coding2genome CTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAGACCAATGGCATCACTCCTCGGCGCTGGCTGGTTCTGTGTAACCCTGGGCTGGCAGAGGTCATTGCTGAG gagcgcacttcagaggataatggtgaccgccctgcgcccttccctgctagCTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAAACAAATGGCATCACCCCTCGGCGCTGGCTCGTACTGTGTAACCCTGCGCTGGCAGAGGTCATTGCT---gtgagtagagttcatggtatgattgatagcactttcgacaagtggat Alignment from GeneWise CTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAGACCAATGGCATCACTCCTCGGCGCTGGCTGGTTCTGTGTAACCCTGGGCTGGCAGAGGTCATTGCT---GAGCGC gagcgcacttcagaggataatggtgaccgccctgcgcccttccctgctagCTTCAAGGACTTTTATGAGCTGGAGCCTCACAAGTTCCAGAACAAAACAAATGGCATCACCCCTCGGCGCTGGCTCGTACTGTGTAACCCTGCGCTGGCAGAGGTCATTGCTGTGAGTAGAgttcatggtatgattgatagcactttcgacaagtggatccc #### Pygm_ID1689_13 --> 0 - 0 Original Alignment ------CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ggatgtaggccaggttagggttgtcctgggccttccatatgtatttgcagTACTGGCGCATTGGTGAGGACTATGTCTCAGACCTAGACCAGCCACGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgttggtggccctgcaacctggcttcctaccccaagtcaaacatttggaga Alignment from CESAR ------CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ggatgtaggccaggttagggttgtcctgggccttccatatgtatttgcagTACTGGCGCATTGGTGAGGACTATGTCTCAGACCTAGACCAGCCACGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgttggtggccctgcaacctggcttcctaccccaagtcaaacatttggaga Alignment from Spaln_aa2Genome CGCATTGGTGAG------GACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ggatgtaggccaggttagggttgtcctgggccttccatatgtatttgcagTACTGGCGCATTGGTGAGGACTATGTCTCAGACCTAGACCAGCCACGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgttggtggccctgcaacctggcttcctaccccaagtcaaacatttggaga Alignment from Spaln_nt2Genome GCGCATTGGT-----GAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ggatgtaggccaggttagggttgtcctgggccttccatatgtatttgcagTACTGGCGCATTGGTGAGGACTATGTCTCAGACCTAGACCAGCCACGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgttggtggccctgcaacctggcttcctaccccaagtcaaacatttggaga Alignment from Pairagon ------CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ggatgtaggccaggttagggttgtcctgggccttccatatgtatttgcagTACTGGCGCATTGGTGAGGACTATGTCTCAGACCTAGACCAGCCACGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgttggtggccctgcaacctggcttcctaccccaagtcaaacatttggaga Alignment from Exonerate_protein2genome CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ggatgtaggccaggttagggttgtcctgggccttccatatgtatttgcagtactggCGCATTGGTGAGGACTATGTCTCAGACCTAGACCAGCCACGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgttggtggccctgcaacctggcttcctaccccaagtcaaacatttggaga Alignment from Exonerate_coding2genome CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ggatgtaggccaggttagggttgtcctgggccttccatatgtatttgcagtactggCGCATTGGTGAGGACTATGTCTCAGACCTAGACCAGCCACGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgttggtggccctgcaacctggcttcctaccccaagtcaaacatttggaga Alignment from GeneWise ------CGCATTGGTGAGGACTACATCTCAGACCTGGACCAGCTGCGCAAGCTGCTCTCCTATGTGGATGATGAAGCCTTTATCCGTGATGTGGCCAAAGTGAAACAG ggatgtaggccaggttagggttgtcctgggccttccatatgtatttgcagTACTGGCGCATTGGTGAGGACTATGTCTCAGACCTAGACCAGCCACGCAAGCTGCTCTCCTATGTGGATGATGAAGCTTTTATCCATGATGTGGCCAAAGTGAAACAGgttggtggccctgcaacctggcttcctaccccaagtcaaacatttggaga #### Rab3il1_ID2648_4 --> 0 - 0 Original Alignment GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccaggctctagtgagtactcacgccttctgtcccctcctctccctgcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCAACATCAGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaaaatctacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from CESAR GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tttttgtccaggctctagtgagtaccttctgtcccctcctctccctgcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCAACATCAGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaaaatctacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Spaln_aa2Genome GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccaggctctagtgagtactcacgccttctgtcccctcctctccctgcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCAACATCAGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaaaatctacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Spaln_nt2Genome GAAGCT CACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccagGCTCTAgtgagtactcacgccttctgtcccctcctctccctgcagCACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCAACATCAGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaaaatctacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Pairagon GAAGCTCACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccaggctctagtgagtactcacgccttctgtcccctcctctccctgcag------CACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCAACATCAGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaaaatctacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Exonerate_protein2genome CACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccaggctctagtgagtactcacgccttctgtcccctcctctccctgcagCACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCAACATCAGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaaaatctacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from Exonerate_coding2genome CACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccaggctctagtgagtactcacgccttctgtcccctcctctccctgcagCACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCAACATCAGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaaaatctacccctgtgtgcctaagccagcccatggctcctggcattgc Alignment from GeneWise CACAAGATGGTTCGGGAAGCCAACATGAAGCAGGCGACATCGGAAAAGCAGTTGAAGGAGGCTTGGGGCAAG tccaggctctagtgagtactcacgccttctgtcccctcctctccctgcagCACAAGATGGTTCGGGAAGCAAACATGAAGCAGGCAACATCAGAAAAGCAGTTGAAGGAGGCTTGGGGCAAGgtaaaatctacccctgtgtgcctaagccagcccatggctcctggcattgc #### Rasgrp2_ID1704_3 --> 1 - 2 Original Alignment cTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTC------ag tactgcctctaatcaaaaatgcccatctcagtctcctcactgtgtgacagcTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCGGCCACaggtaagttgggtcctgactcgtcctcttgctacctttttgaagtgtagctt Alignment from CESAR cTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTC------ag tactgcctctaatcaaaaatgcccatctcagtctcctcactgtgtgacagcTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCGGCCACaggtaagttgggtcctgactcgtcctcttgctacctttttgaagtgtagctt Alignment from Spaln_aa2Genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCAGG----- tactgcctctaatcaaaaatgcccatctcagtctcctcactgtgtgacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCGGCCACAGgtaagttgggtcctgactcgtcctcttgctacctttttgaagtgtagctt Alignment from Spaln_nt2Genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTC------AG tactgcctctaatcaaaaatgcccatctcagtctcctcactgtgtgacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCGGCCACAGgtaagttgggtcctgactcgtcctcttgctacctttttgaagtgtagctt Alignment from Pairagon CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGT------CAG tactgcctctaatcaaaaatgcccatctcagtctcctcactgtgtgacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCGGCCACAGgtaagttgggtcctgactcgtcctcttgctacctttttgaagtgtagctt Alignment from Exonerate_protein2genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTC------AG tactgcctctaatcaaaaatgcccatctcagtctcctcactgtgtgacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCGGCCACAGgtaagttgggtcctgactcgtcctcttgctacctttttgaagtgtagctt Alignment from Exonerate_coding2genome CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTC------AG tactgcctctaatcaaaaatgcccatctcagtctcctcactgtgtgacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCGGCCACAGgtaagttgggtcctgactcgtcctcttgctacctttttgaagtgtagctt Alignment from GeneWise CTATCAGCAATCCCGGAAGGACAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTC------AG tactgcctctaatcaaaaatgcccatctcagtctcctcactgtgtgacagCTATCAGCAATCCCGGAAGGATAACTCCAATTCTCTACAGATGAAAACGTGTCACTTGGTCGGCCACAGgtaagttgggtcctgactcgtcctcttgctacctttttgaagtgtagctt #### Rasgrp2_ID1707_6 --> 0 - 0 Original Alignment TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG caaggatgggagtggctaacaggatgctgactttctttcattttacaaagTTCCAAGACTACCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTCATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGCTAATGATCCTCAGCAAGCCCACAGCCACACAGCAGGCACTGGTCATTACCCACTTCGTGCATGTGGCA---gtaagcagtacctttccagtgtgtccagaccagattctatgtgcacatca Alignment from CESAR TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG caaggatgggagtggctaacaggatgctgactttctttcattttacaaagTTCCAAGACTACCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTCATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGCTAATGATCCTCAGCAAGCCCACAGCCACACAGCAGGCACTGGTCATTACCCACTTCGTGCATGTGGCA---gtaagcagtacctttccagtgtgtccagaccagattctatgtgcaca Alignment from Spaln_aa2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCA caaggatgggagtggctaacaggatgctgactttctttcattttacaaagTTCCAAGACTACCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTCATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGCTAATGATCCTCAGCAAGCCCACAGCCACACAGCAGGCACTGGTCATTACCCACTTCGTGCATGTGGCAgtaagcagtacctttccagtgtgtccagaccagattctatgtgcacatca Alignment from Spaln_nt2Genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAG--AG-- caaggatgggagtggctaacaggatgctgactttctttcattttacaaagTTCCAAGACTACCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTCATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGCTAATGATCCTCAGCAAGCCCACAGCCACACAGCAGGCACTGGTCATTACCCACTTCGTGCATGTGGCAGTAAGCAgtacctttccagtgtgtccagaccagattctatgtgcacatca Alignment from Pairagon TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCA caaggatgggagtggctaacaggatgctgactttctttcattttacaaagTTCCAAGACTACCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTCATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGCTAATGATCCTCAGCAAGCCCACAGCCACACAGCAGGCACTGGTCATTACCCACTTCGTGCATGTGGCAgtaagcagtacctttccagtgtgtccagaccagattctatgtgcacatca Alignment from Exonerate_protein2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG caaggatgggagtggctaacaggatgctgactttctttcattttacaaagTTCCAAGACTACCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTCATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGCTAATGATCCTCAGCAAGCCCACAGCCACACAGCAGGCACTGGTCATTACCCACTTCGTGCATGTGGCA---gtaagcagtacctttccagtgtgtccagaccagattctatgtgcaca Alignment from Exonerate_coding2genome TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG caaggatgggagtggctaacaggatgctgactttctttcattttacaaagTTCCAAGACTACCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTCATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGCTAATGATCCTCAGCAAGCCCACAGCCACACAGCAGGCACTGGTCATTACCCACTTCGTGCATGTGGCA---gtaagcagtacctttccagtgtgtccagaccagattctatgtgcaca Alignment from GeneWise TTCCAAGACTACCACAGCTTTGTGACTCATGGCTGCACCGTAGACAACCCGGTCCTGGAGCGATTCATCTCCCTCTTCAACAGTGTCTCTCAGTGGGTCCAACTCATGATCCTCAGCAAGCCCACAGCCACGCAGCGGGCGCTGGTCATCACGCACTTCGTGCATGTGGCAGAG caaggatgggagtggctaacaggatgctgactttctttcattttacaaagTTCCAAGACTACCACAGTTTTGTGACGCATGGCTGCACTGTAGACAACCCAGTCCTGGAGCGATTCATCTCTCTCTTCAACAGTGTGCCTCAGTGGGTCCAGCTAATGATCCTCAGCAAGCCCACAGCCACACAGCAGGCACTGGTCATTACCCACTTCGTGCATGTG---GCAgtaagcagtacctttccagtgtgtccagaccagattctatgtgcacatca #### Rbp4_ID7525_2 --> 0 - 0 Original Alignment ---------GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccctggtcctttacccctgggttccttcacatctctctttccagTCAATTATTGGCAGTCTCCGAGGTGAGATGGCGTGGGTGTGGGCGCTCGTGCTGCTGGCAGCTCTGGGAGGTGGCAGTGCTGAGCGTGACTGCAGGGTGAGCAGCTTCCGAGTTAAAGAAAACTTTGACAAGGCTCATgtaagaatcagcccagttttcctaattactgtgggtgggaggtggaaccc Alignment from CESAR ---------GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccctggtcctttacccctgggttccttcacatctctctttccagTCAATTATTGGCAGTCTCCGAGGTGAGATGGCGTGGGTGTGGGCGCTCGTGCTGCTGGCAGCTCTGGGAGGTGGCAGTGCTGAGCGTGACTGCAGGGTGAGCAGCTTCCGAGTTAAAGAAAACTTTGACAAGGCTCATgtaagaatcagcccagttttcctaattactgtgggtgggaggtggaaccc Alignment from Spaln_aa2Genome ---------GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCG aggtggccctggtcctttacccctgggttccttcacatctctctttccagTCAATTATTGGCAGTCTCCGAGGTGAGATGGCGTGGGTGTGGGCGCTCGTGCTGCTGGCAGCTCTGGGAGGTGGCAGTGCTGAGCGTGACTGCAGGGTGAGCAGCTTCCGAGTTAAAGAAAACTTTGACAAGGCTCATgtaagaatcagcccagttttcctaattactgtgggtgggaggtggaaccc Alignment from Spaln_nt2Genome GGCAGACTCCGGGG---------TGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccctggtcctttacccctgggttccttcacatctctctttccagTCAATTATTGGCAGTCTCCGAGGTGAGATGGCGTGGGTGTGGGCGCTCGTGCTGCTGGCAGCTCTGGGAGGTGGCAGTGCTGAGCGTGACTGCAGGGTGAGCAGCTTCCGAGTTAAAGAAAACTTTGACAAGGCTCATgtaagaatcagcccagttttcctaattactgtgggtgggaggtggaaccc Alignment from Pairagon ---------GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccctggtcctttacccctgggttccttcacatctctctttccagTCAATTATTGGCAGTCTCCGAGGTGAGATGGCGTGGGTGTGGGCGCTCGTGCTGCTGGCAGCTCTGGGAGGTGGCAGTGCTGAGCGTGACTGCAGGGTGAGCAGCTTCCGAGTTAAAGAAAACTTTGACAAGGCTCATgtaagaatcagcccagttttcctaattactgtgggtgggaggtggaaccc Alignment from Exonerate_protein2genome GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccctggtcctttacccctgggttccttcacatctctctttccagtcaattattGGCAGTCTCCGAGGTGAGATGGCGTGGGTGTGGGCGCTCGTGCTGCTGGCAGCTCTGGGAGGTGGCAGTGCTGAGCGTGACTGCAGGGTGAGCAGCTTCCGAGTTAAAGAAAACTTTGACAAGGCTCATgtaagaatcagcccagttttcctaattactgtgggtgggaggtggaaccc Alignment from Exonerate_coding2genome GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccctggtcctttacccctgggttccttcacatctctctttccagtcaattattGGCAGTCTCCGAGGTGAGATGGCGTGGGTGTGGGCGCTCGTGCTGCTGGCAGCTCTGGGAGGTGGCAGTGCTGAGCGTGACTGCAGGGTGAGCAGCTTCCGAGTTAAAGAAAACTTTGACAAGGCTCATgtaagaatcagcccagttttcctaattactgtgggtgggaggtggaaccc Alignment from GeneWise ---------GGCAGACTCCGGGGTGAGATGGAGTGGGTGTGGGCGCTCGTGCTGCTGGCGGCTCTGGGAGGCGGCAGCGCCGAGCGCGACTGCAGGGTGAGCAGCTTCCGAGTCAAGGAGAACTTCGACAAGGCTCGT aggtggccctggtcctttacccctgggttccttcacatctctctttccagTCAATTATTGGCAGTCTCCGAGGTGAGATGGCGTGGGTGTGGGCGCTCGTGCTGCTGGCAGCTCTGGGAGGTGGCAGTGCTGAGCGTGACTGCAGGGTGAGCAGCTTCCGAGTTAAAGAAAACTTTGACAAGGCTCATgtaagaatcagcccagttttcctaattactgtgggtgggaggtggaaccc #### Rce1_ID577_5 --> 2 - 1 Original Alignment ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC---------------------------g ccCATTTTCACCACA cgagggaccagatgtttctagtaacctacctctcccccaccccactgcagccCCTTGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCACTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTTGTGCACTTACAGACCCAAGTTACGTACggtaagtctcacctattgtgggttttcctccaatagccCATTTTCACCACA Alignment from CESAR ccCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC---------------------------g ccCATTTTCACCACA cgagggaccagatgtttctagtaacctacctctcccccaccccactgcagccCCTTGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCACTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTTGTGCACTTACAGACCCAAGTTACGTACggtaagtctcaccttgtaaggccgtctttatttcagccCATTTTCACCACA Alignment from Spaln_aa2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC GCCCATTTTCACCAC cgagggaccagatgtttctagtaacctacctctcccccaccccactgcagCCCCTTGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCACTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTTgtgcacttacagacccaagttacgtacggtaagtctcacctattgtgggttttcctccaatagCC-CATTTTCACCAC Alignment from Spaln_nt2Genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC GCCCATTTTCACCAC cgagggaccagatgtttctagtaacctacctctcccccaccccactgcagCCCCTTGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCACTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTTgtgcacttacagacccaagttacgtacggtaagtctcacctattgtgggttttcctccaatagCCCATTTT-CACCAC Alignment from Pairagon CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC--------------------------------------------------------------GCCCATTTTCACCACA cgagggaccagatgtttctagtaacctacctctcccccaccccactgcagCCCCTTGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCACTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTTGTGCACTTACAGACCCAAGTTACGTACGGTAAGTCTCACCTATTGTGGGTTTTCCTCCAATAGCCCATTTTCACCACA Alignment from Exonerate_protein2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAG TCGCCCATTTTCACCACA cgagggaccagatgtttctagtaacctacctctcccccaccccactgcagCCCCTTGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCACTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGttgtgcacttacagacccaagttacgtacggtaagtctcacctattgtgggttttcctccaaTAGCCCATTTTCACCACA Alignment from Exonerate_coding2genome CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAG TCGCCCATTTTCACCACA cgagggaccagatgtttctagtaacctacctctcccccaccccactgcagCCCCTTGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCACTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGttgtgcacttacagacccaagttacgtacggtaagtctcacctattgtgggttttcctccaaTAGCCCATTTTCACCACA Alignment from GeneWise CCCCTCGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCGCTGACAGAGGAGCTGGTGTTCCGGGCTTGCATGCTGCCCATGCTAGCGCCGTGCACGGGTCTGGGCCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTC---------------------------------------------------------------GCCCATTTTCACCAC cgagggaccagatgtttctagtaacctacctctcccccaccccactgcagCCCCTTGTTCTTGGGCCCGCTGCCTCACAGACATGCGCTGGCTACGAAACCAAGTTATTGCACCACTGACAGAGGAACTGGTGTTCCGGGCATGCATGCTGCCCATGCTAGCACCATGTACAGGTCTCAGTCCTGCTGTGTTCACCTGCCCACTCTTTTTTGGAGTTGTGCACTTACAGACCCAAGTTACGTACGGTAAGTCTCACCTATTGTGGGTTTTCCTCCAATA-GCCCATTTTCACCAC #### Rela_ID1127_4 --> 0 - 2 Original Alignment ------------ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATag gagccagattaggaaatgctggccactatccttctttgtttctcctttagGTTTCCACAGAAATTAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCTGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATaggtcaggtacctatggactggaggtggtgtcaggggggtgtaagagtatac Alignment from CESAR ------------ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATag gagccagattaggaaatgctggccactatccttctttgtttctcctttagGTTTCCACAGAAATTAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCTGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATaggtcaggtacctatggactggaggtggtgtcaggggggtgtaagagtatac Alignment from Spaln_aa2Genome ATCAATGGCTAC------------ACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattaggaaatgctggccactatccttctttgtttctcctttagGTTTCCACAGAAATTAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCTGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAGgtcaggtacctatggactggaggtggtgtcaggggggtgtaagagtatac Alignment from Spaln_nt2Genome ATCAATGGCTACA--CAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattaggaaatgctggccactatccttctttgtttctcctttaggtttccacagAAATTAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCTGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAGgtcaggtacctatggactggaggtggtgtcaggggggtgtaagagtatac Alignment from Pairagon --ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattaggaaatgctggccactatccttctttgtttctcctttaggtttccacagAAATTAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCTGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAGgtcaggtacctatggactggaggtggtgtcaggggggtgtaagagtatac Alignment from Exonerate_protein2genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattaggaaatgctggccactatccttctttgtttctcctttaggtttccacagaaATTAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCTGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAGgtcaggtacctatggactggaggtggtgtcaggggggtgtaagagtatac Alignment from Exonerate_coding2genome ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattaggaaatgctggccactatccttctttgtttctcctttaggtttccacagaaATTAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCTGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAGgtcaggtacctatggactggaggtggtgtcaggggggtgtaagagtatac Alignment from GeneWise ------------ATCAATGGCTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGGCCTCATCCACATGAACTTGTGGGGAAGGACTGCCGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAG gagccagattaggaaatgctggccactatccttctttgtttctcctttagGTTTCCACAGAAATTAATGGTTACACAGGACCAGGAACAGTTCGAATCTCCCTGGTCACCAAGGATCCACCTCACCGCCCTCATCCACATGAACTTGTAGGGAAGGACTGCTGGGATGGCTACTATGAGGCTGACCTCTGCCCAGACCGCAGTATCCATAGgtcaggtacctatggactggaggtggtgtcaggggggtgtaagagtatac #### Rela_ID1128_5 --> 1 - 1 Original Alignment cTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACg tgcaagaaggggttttgctggtgacacactgttccctgcccccatcccagcTTCCAGAACCTGGGAATACAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATTCAGACCAACAATAAC---------ggtgagcgcagtgctacgtaggggggaaagtcatttgatcttcatatgaaa Alignment from CESAR cTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACg tgcaagaaggggttttgctggtgacacactgttccctgcccccatcccagcTTCCAGAACCTGGGAATACAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATTCAGACCAACAATAAC---------ggtgagcgcagtgctacgtaggggggaaagtcatttgatcttcatatgaaa Alignment from Spaln_aa2Genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG tgcaagaaggggttttgctggtgacacactgttccctgcccccatcccagCTTCCAGAACCTGGGAATACAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATTCAGACCAACAATAACGGTGAGCGCAgtgctacgtaggggggaaagtcatttgatcttcatatgaaa Alignment from Spaln_nt2Genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACC tgcaagaaggggttttgctggtgacacactgttccctgcccccatcccagCTTCCAGAACCTGGGAATACAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATTCAGACCAACAATAACGgtgagcgcagtgctacgtaggggggaaagtcatttgatcttcatatgaaa Alignment from Pairagon CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG tgcaagaaggggttttgctggtgacacactgttccctgcccccatcccagCTTCCAGAACCTGGGAATACAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATTCAGACCAACAATA---------ACGgtgagcgcagtgctacgtaggggggaaagtcatttgatcttcatatgaaa Alignment from Exonerate_protein2genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACC tgcaagaaggggttttgctggtgacacactgttccctgcccccatcccagCTTCCAGAACCTGGGAATACAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATTCAGACCAACAATAACGgtgagcgcagtgctacgtaggggggaaagtcatttgatcttcatatgaaa Alignment from Exonerate_coding2genome CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACC tgcaagaaggggttttgctggtgacacactgttccctgcccccatcccagCTTCCAGAACCTGGGAATACAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATTCAGACCAACAATAACGgtgagcgcagtgctacgtaggggggaaagtcatttgatcttcatatgaaa Alignment from GeneWise CTTCCAGAACCTGGGGATCCAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATCCAGACCAACAATAACCCCTTTCACG tgcaagaaggggttttgctggtgacacactgttccctgcccccatcccagCTTCCAGAACCTGGGAATACAGTGTGTGAAGAAGCGAGACCTGGAGCAAGCCATTAGCCAGCGAATTCAGACCAACAATAACGGTGAGCGCAgtgctacgtaggggggaaagtcatttgatcttcatatgaaa #### Rela_ID1130_7 --> 2 - 1 Original Alignment ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAg ggtgggtgccagagctcctacagggtacaatgtctcttctggttgttcagggGCCCCCAACACTGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATCTTCCTACTGTGTGACAGG---------ggtaagcagtagctacctcgaactctgcatggagaggggaggggtaaatct Alignment from CESAR ggGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAg ggtgggtgccagagctcctacagggtacaatgtctcttctggttgttcagggGCCCCCAACACTGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATCTTCCTACTGTGTGACAGG---------ggtaagcagtagctacctcgaactctgcatggagaggggaggggtaaatct Alignment from Spaln_aa2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAG- ggtgggtgccagagctcctacagggtacaatgtctcttctggttgttcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATCTTCCTACTGTGTGACAGGGgtaagcagtagctacctcgaactctgcatggagaggggaggggtaaatct Alignment from Spaln_nt2Genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGG ggtgggtgccagagctcctacagggtacaatgtctcttctggttgttcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATCTTCCTACTGTGTGACAGGGgtaagcagtagctacctcgaactctgcatggagaggggaggggtaaatct Alignment from Pairagon GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGG ggtgggtgccagagctcctacagggtacaatgtctcttctggttgttcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATCTTCCTACTGTGTGACAGGGgtaagcagtagctacctcgaactctgcatggagaggggaggggtaaatct Alignment from Exonerate_protein2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGG ggtgggtgccagagctcctacagggtacaatgtctcttctggttgttcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATCTTCCTACTGTGTGACAGGGgtaagcagtagctacctcgaactctgcatggagaggggaggggtaaatct Alignment from Exonerate_coding2genome GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGG ggtgggtgccagagctcctacagggtacaatgtctcttctggttgttcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATCTTCCTACTGTGTGACAGGGgtaagcagtagctacctcgaactctgcatggagaggggaggggtaaatct Alignment from GeneWise GGGCCCCCAACACTGCCGAGCTCAAGATCTGCCGAGTAAACCGGAACTCTGGGAGCTGCCTCGGTGGGGATGAGATCTTCTTGCTGTGCGACAAGGTGCAGAAAG ggtgggtgccagagctcctacagggtacaatgtctcttctggttgttcagGGGCCCCCAACACTGCTGAGCTTAAAATCTGCCGAGTAAACCGGAACTCTGGGAGCTGTCTTGGTGGGGATGAGATCTTCCTACTGTGTGAC---------AGGGgtaagcagtagctacctcgaactctgcatggagaggggaggggtaaatct #### Rin1_ID807_2 --> 1 - 0 Original Alignment gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG caggatgggaagatgtgttcactcctccccaaaaatcttctttattatagg---TCCACAGACCCGCTGTATGACACACCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTCCATGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCACTGCACGTGCTAAGGACAGAGCCTCCAGGGgtgagtctttctttccagtttgtcgaatcctagcctgacaaggatggagg Alignment from CESAR gCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG gcccaggatgggaagatgtgttcactccccaaaaatcttctttattatagg---TCCACAGACCCGCTGTATGACACACCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTCCATGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCACTGCACGTGCTAAGGACAGAGCCTCCAGGGgtgagtctttctttccagtttgtcgaatcctagcctgacaaggatggagg Alignment from Spaln_aa2Genome -TCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG caggatgggaagatgtgttcactcctccccaaaaatcttctttattatagGTCCACAGACCCGCTGTATGACACACCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTCCATGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCACTGCACGTGCTAAGGACAGAGCCTCCAGGGgtgagtctttctttccagtttgtcgaatcctagcctgacaaggatggagg Alignment from Spaln_nt2Genome GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG caggatgggaagatgtgttcactcctccccaaaaatcttctttattatagG---TCCACAGACCCGCTGTATGACACACCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTCCATGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCACTGCACGTGCTAAGGACAGAGCCTCCAGGGgtgagtctttctttccagtttgtcgaatcctagcctgacaaggatggagg Alignment from Pairagon GCCATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG caggatgggaagatgtgttcactcctccccaaaaatcttctttattatagG---TCCACAGACCCGCTGTATGACACACCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTCCATGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCACTGCACGTGCTAAGGACAGAGCCTCCAGGGgtgagtctttctttccagtttgtcgaatcctagcctgacaaggatggagg Alignment from Exonerate_protein2genome ATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG caggatgggaagatgtgttcactcctccccaaaaatcttctttattatagGTCCACAGACCCGCTGTATGACACACCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTCCATGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCACTGCACGTGCTAAGGACAGAGCCTCCAGGGgtgagtctttctttccagtttgtcgaatcctagcctgacaaggatggagg Alignment from Exonerate_coding2genome ATCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG caggatgggaagatgtgttcactcctccccaaaaatcttctttattatagGTCCACAGACCCGCTGTATGACACACCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTCCATGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCACTGCACGTGCTAAGGACAGAGCCTCCAGGGgtgagtctttctttccagtttgtcgaatcctagcctgacaaggatggagg Alignment from GeneWise -TCTACAGACCCACTGTATGACACACCTGATACCAGAGGGGTACAGGCAGGCGGGTCCCAACAGCCAGCACGTACTGTGAGCCTTCGGGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTGCGGGCCAACGCTGCAGCCGCGCTGCACGTGCTGAGGACAGAGCCTCCGGGG caggatgggaagatgtgttcactcctccccaaaaatcttctttattatagGTCCACAGACCCGCTGTATGACACACCTGATACAAGAGGTGTGCAGGCTGGTGGGTCACAACAGCCAGCACGTACTGTGAGCCTCCATGAGCGGCTGCTGATCACCCGGCCTGTGTGGTTACAGCTCCGGGCCAATGCGGCAGCCGCACTGCACGTGCTAAGGACAGAGCCTCCAGGGgtgagtctttctttccagtttgtcgaatcctagcctgacaaggatggagg #### Rin1_ID808_3 --> 0 - 1 Original Alignment ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg acatggctggacatggaggaccagagcatcacttcaccctgtgtgcctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTACCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACT---ggtgagaaggagggtagcctggaggataggtgcacaaagacaaacacatgc Alignment from CESAR ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCg acatggctggacatggaggaccagagcatcacttcaccctgtgtgcctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTACCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACT---ggtgagaaggagggtagcctggaggataggtgcacaaagacaaacacatgc Alignment from Spaln_aa2Genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTG acatggctggacatggaggaccagagcatcacttcaccctgtgtgcctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTACCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGgtgagaaggagggtagcctggaggataggtgcacaaagacaaacacatgc Alignment from Spaln_nt2Genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGCG--------- acatggctggacatggaggaccagagcatcacttcaccctgtgtgcctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTACCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTGAGAAGGAGGgtagcctggaggataggtgcacaaagacaaacacatgc Alignment from Pairagon ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTG acatggctggacatggaggaccagagcatcacttcaccctgtgtgcctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTACCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGgtgagaaggagggtagcctggaggataggtgcacaaagacaaacacatgc Alignment from Exonerate_protein2genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTG acatggctggacatggaggaccagagcatcacttcaccctgtgtgcctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTACCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGgtgagaaggagggtagcctggaggataggtgcacaaagacaaacacatgc Alignment from Exonerate_coding2genome ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTG acatggctggacatggaggaccagagcatcacttcaccctgtgtgcctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTACCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGgtgagaaggagggtagcctggaggataggtgcacaaagacaaacacatgc Alignment from GeneWise ACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCTCTGTGTGTGCGGCTGCCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATCGAAGAGAGTACTGGC------------------------------------------------ acatggctggacatggaggaccagagcatcacttcaccctgtgtgcctagACCTTCCTGGTGCGGAAATCTAACACTCGCCAGTGCCAGGCCCTGTGTGTGCGGCTACCAGAAGCTAGTGGCCCCTCTTTTGTCTCCAGCCACTATATTGAAGAAAGTACTGGTGAGAAGGAGGGTAGCCTGGAGGATAGGTGCACAAAGACAAACACATGC #### Rin1_ID809_4 --> 2 - 2 Original Alignment gtGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACC---ag cacatgcgggaggtcctcagtgaaacagtttggcctctcgttcctttcaggtGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCACCaggtaggtctacctgtgggcacctgctgagctttcaaccccactcactgctg Alignment from CESAR gtGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGT---ACCag cacatgcgggaggtcctcagtgaaacagtttggcctctcgttcctttcaggtGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCACCaggtaggtctacctgtgggcacctgctgagctttcaaccccactcactgctg Alignment from Spaln_aa2Genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGT---ACCAG cacatgcgggaggtcctcagtgaaacagtttggcctctcgttcctttcagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCACCAGgtaggtctacctgtgggcacctgctgagctttcaaccccactcactgctg Alignment from Spaln_nt2Genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAG cacatgcgggaggtcctcagtgaaacagtttggcctctcgttcctttcagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTCGTACAGCTCATCTATTG-TCGTACC--ACCAGgtaggtctacctgtgggcacctgctgagctttcaaccccactcactgctg Alignment from Pairagon GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGT---ACCAG cacatgcgggaggtcctcagtgaaacagtttggcctctcgttcctttcagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCACCAGgtaggtctacctgtgggcacctgctgagctttcaaccccactcactgctg Alignment from Exonerate_protein2genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGT---ACCAG cacatgcgggaggtcctcagtgaaacagtttggcctctcgttcctttcagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCACCAGgtaggtctacctgtgggcacctgctgagctttcaaccccactcactgctg Alignment from Exonerate_coding2genome GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGT---ACCAG cacatgcgggaggtcctcagtgaaacagtttggcctctcgttcctttcagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCACCAGgtaggtctacctgtgggcacctgctgagctttcaaccccactcactgctg Alignment from GeneWise GTGTCTCTTTGGAGGGCTCAGAGCTCATGTTCCAGGACCTGGTGCAGCTCATCTGTGGATACTGCCGTACCAGA-- cacatgcgggaggtcctcagtgaaacagtttggcctctcgttcctttcagGTGTCTCTTTGGAGGTCTCAGAGCTCATGTTCCAGGACCTCGTACAGCTCATC------TATTGTCGTACCACCAGgtaggtctacctgtgggcacctgctgagctttcaaccccactcactgctg #### Rin1_ID810_5 --> 1 - 1 Original Alignment a------GCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg tccttgctcatccttagggaagctcttcctcactattgttcttctcacagaGAAGAAGCCATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGggtgagtgtacccggcagcctgttacataagacacacggaggttaaatggt Alignment from CESAR a------GCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGg tccttgctcatccttagggaagctcttcctcactattgttcttctcacagaGAAGAAGCCATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGggtgagtgtacccggcagcctgttacataagacacacggaggttaaatggt Alignment from Spaln_aa2Genome TACCAGAGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggaagctcttcctcactattgttcttctcacagAGAAGAAGCCATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagtgtacccggcagcctgttacataagacacacggaggttaaatggt Alignment from Spaln_nt2Genome ACCAGA-GCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggaagctcttcctcactattgttcttctcacagAGAAGAAGCCATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagtgtacccggcagcctgttacataagacacacggaggttaaatggt Alignment from Pairagon ------AGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggaagctcttcctcactattgttcttctcacagAGAAGAAGCCATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagtgtacccggcagcctgttacataagacacacggaggttaaatggt Alignment from Exonerate_protein2genome TACCAGAGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggaagctcttcctcactattgttcttctcacagAGAAGAAGCCATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagtgtacccggcagcctgttacataagacacacggaggttaaatggt Alignment from Exonerate_coding2genome TACCAGAGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggaagctcttcctcactattgttcttctcacagAGAAGAAGCCATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagtgtacccggcagcctgttacataagacacacggaggttaaatggt Alignment from GeneWise ----AGAGCCATTCATCAGGCAGCCACCCACAAAGAGCTGGAGGCCATCTCCCATCTGGGCATGG tccttgctcatccttagggaagctcttcctcactattgttcttctcacagAGAAGAAGCCATTCATCAGGCAGCCACCCACAAAGAGCTAGAGGCTATCTCCCATCTGGGCATGGgtgagtgtacccggcagcctgttacataagacacacggaggttaaatggt #### Rin1_ID812_7 --> 2 - 1 Original Alignment aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gtatggattcgtagaaactcccctaactgtatgtttgtttctttttccagaaTTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCACCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGC------ggtaaggaatgcccccccaccaccttcccctgtaccactgttctggagtag Alignment from CESAR aaTTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAg gtatggattcgtagaaactcccctaactgtatgtttgtttctttttccagaaTTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCACCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGC------ggtaaggaatgcccccccaccaccttcccctgtaccactgttctggagtag Alignment from Spaln_aa2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGC- gtatggattcgtagaaactcccctaactgtatgtttgtttctttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCACCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCGgtaaggaatgcccccccaccaccttcccctgtaccactgttctggagtag Alignment from Spaln_nt2Genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCC gtatggattcgtagaaactcccctaactgtatgtttgtttctttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCACCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCGgtaaggaatgcccccccaccaccttcccctgtaccactgttctggagtag Alignment from Pairagon AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCCAGGCAG gtatggattcgtagaaactcccctaactgtatgtttgtttctttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCACCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGC------Ggtaaggaatgcccccccaccaccttcccctgtaccactgttctggagtag Alignment from Exonerate_protein2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCC gtatggattcgtagaaactcccctaactgtatgtttgtttctttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCACCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCGgtaaggaatgcccccccaccaccttcccctgtaccactgttctggagtag Alignment from Exonerate_coding2genome AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCC gtatggattcgtagaaactcccctaactgtatgtttgtttctttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCACCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCGgtaaggaatgcccccccaccaccttcccctgtaccactgttctggagtag Alignment from GeneWise AATTGGTCCTGGAGAAGTCCCTGCATCGCTCTGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTGCGGCGCCGGCTTTCCGCAGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTCCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGTCCCACCTGACTCTTTCTTCCCCAGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTATACACAGCCCTGAAGAGCC gtatggattcgtagaaactcccctaactgtatgtttgtttctttttccagAATTGGTCCTGGAGAAGTCCCTGCATCGCTCAGTTCTCAAGCCTCTTCGACCCATTCTGGCTGCCCGCCTTCGGCACCGGCTTTCTGCTGATGGTTCCCTCGGCCGCCTAGCTGAGGGCTTTCGCCTGGCCCGGACCCAGGGGCCTGGAGCCTTCGGGCCCCACCTGACTCTTTCTTCCCCGGTGGAGACAGAACAGGTGCGCCAGAAGCTGCTGCAGCTCCTTCGTGCCTACTCACCTAGTGCCCAGGTCAAGTGGCTCCTGCAGGCCTGCAAGCTGCTGTACACAGCCCTGAAGAGCGgtaaggaatgcccccccaccaccttcccctgtaccactgttctggagtag #### Rin1_ID813_8 --> 2 - 1 Original Alignment ga------GAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGg ccttcagacctctgaggaggctggactcgccccataaactctgcccctaggaCGAGCAGAAAATGCAGGAGCTGATGAGTTCCTACCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTCGAACCAACCCTGCTCACTGGGGAGggtaagtgtccctcatttcttttctgggtggagctggcgcttgtgggtaaa Alignment from CESAR ga------GAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGg ccttcagacctctgaggaggctggactcgccccataaactctgcccctaggaCGAGCAGAAAATGCAGGAGCTGATGAGTTCCTACCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTCGAACCAACCCTGCTCACTGGGGAGggtaagtgtccctcatttcttttctgggtggagctggcgcttgtgggtaaa Alignment from Spaln_aa2Genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG ccttcagacctctgaggaggctggactcgccccataaactctgcccctaggacgagCAGAAAATGCAGGAGCTGATGAGTTCCTACCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTCGAACCAACCCTGCTCACTGGGGAGGgtaagtgtccctcatttcttttctgggtggagctggcgcttgtgggtaaa Alignment from Spaln_nt2Genome GAGAGAATGCAG------GTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG ccttcagacctctgaggaggctggactcgccccataaactctgcccctagGACGAGCAGAAAATGCAGGAGCTGATGAGTTCCTACCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTCGAACCAACCCTGCTCACTGGGGAGGgtaagtgtccctcatttcttttctgggtggagctggcgcttgtgggtaaa Alignment from Pairagon G------AGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG ccttcagacctctgaggaggctggactcgccccataaactctgcccctagGACGAGCAGAAAATGCAGGAGCTGATGAGTTCCTACCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTCGAACCAACCCTGCTCACTGGGGAGGgtaagtgtccctcatttcttttctgggtggagctggcgcttgtgggtaaa Alignment from Exonerate_protein2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG ccttcagacctctgaggaggctggactcgccccataaactctgcccctaggacgagCAGAAAATGCAGGAGCTGATGAGTTCCTACCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTCGAACCAACCCTGCTCACTGGGGAGGgtaagtgtccctcatttcttttctgggtggagctggcgcttgtgggtaaa Alignment from Exonerate_coding2genome GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG ccttcagacctctgaggaggctggactcgccccataaactctgcccctaggacgagCAGAAAATGCAGGAGCTGATGAGTTCCTACCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTCGAACCAACCCTGCTCACTGGGGAGGgtaagtgtccctcatttcttttctgggtggagctggcgcttgtgggtaaa Alignment from GeneWise GAGAGAATGCAGGTGCTGATGAGTTCCTGCCTCTGCTGAGCCTTGTTTTGGCCCAGTGCGACCTTCCTGACCTCCTGTTAGAAGCTGAGTATATGTCAGAGCTCCTGGAACCCACCCTGCTCACTGGAGAGG ccttcagacctctgaggaggctggactcgccccataaactctgcccctaggacgagCAGAAAATGCAGGAGCTGATGAGTTCCTACCCCTGCTAAGCCTCGTTTTGGCGCAGTGTGACCTGCCTGACCTCCTGTTGGAAGCTGAGTATATGTCAGAGCTCCTCGAACCAACCCTGCTCACTGGGGAGGgtaagtgtccctcatttcttttctgggtggagctggcgcttgtgggtaaa #### Rnaseh2c_ID1103_2 --> 2 - 0 Original Alignment ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC atcaaggttttgtggcctgcagcaccacaccctgtctgtgctgttcccaggg------------------------------------------GTAGCCGTGCCGCCGGGGTTTGCAGGATTTGTGATGGTGACAGAG------------------------------------------------------------GATGAGGCCCAGGAGCCATTGGAGCGAGACTTTgtgcggatggggagatggtatgttttgggtgagggcagtgactgctgtac Alignment from CESAR ggCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC tcttgggctttgtggcctgcagcaccacaccctgtctgtgctgttcccaggg------------------------------------------GTAGCCGTGCCGCCGGGGTTTGCAGGATTTGTGATGGTGACAGAG------------------------------------------------------------GATGAGGCCCAGGAGCCATTGGAGCGAGACTTTgtgcggatggggagatggtatgttttgggtgagggcagtgactgctgtac Alignment from Spaln_aa2Genome TTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC atcaaggttttgtggcctgcagCACCACACCCTGTCTGTGCTGTTCCCAGGGGTAGCCGTGCCGCCGGGGTTTGCAGGATTTGTGATGGTGACAGAGGAT------------------------------------------------------------GAGGCCCAGGAGCCATTGGAGCGAGACTTTgtgcggatggggagatggtatgttttgggtgagggcagtgactgctgtac Alignment from Spaln_nt2Genome GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGC--GGACGAGGCGCAGGAGCCGCTGGA gcctgcagCACCACA----------CCCTGTC----TGTGCTGTTCCCAGGGGTAGCCGTGCCGCCGGGGTTTGCAGGATTTGTGATGGTGACAGAGGATGAGGCCCAGGAGCCATT--GGAGCGAGACTTTGTGCGGATGGGGAGATGGTATGTTTTGGGTGAGG-GCAGTGACTGCTGTA Alignment from Pairagon GGCTACAGGCGTCGTTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATAGGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGACGAGGCGCAGGAGCCGCTGGAGCGGGACTTC atcaaggttttgtggcctgcagcaccacaccctgtctgtgctgttcccagG------------------------------------------GGTAGCCGTGCCGCCGGGGTTTGCAGGATTTGTGATGGTGACAGA------------------------------------------------------------GGATGAGGCCCAGGAGCCATTGGAGCGAGACTTTgtgcggatggggagatggtatgttttgggtgagggcagtgactgctgtac Alignment from Exonerate_protein2genome TTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAG atcaaggttttgtggcctgcagCACCACACCCTGTCTGTGCTGTTCCCAGGGGTAGCCGTGCCGCCGGGGTTTGCAGGATTTGTGATGGTGACAGAGGATGAGGCCCAGgagccattggagcgagactttgtgcggatggggagatggtatgttttgggtgagggcagtgactgctgtac Alignment from Exonerate_coding2genome TTTCGCGGTCGCGGCCTGCGGGGCGAGGAGGTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAG atcaaggttttgtggcctgcagCACCACACCCTGTCTGTGCTGTTCCCAGGGGTAGCCGTGCCGCCGGGGTTTGCAGGATTTGTGATGGTGACAGAGGATGAGGCCCAGgagccattggagcgagactttgtgcggatggggagatggtatgttttgggtgagggcagtgactgctgtac Alignment from GeneWise TTCGCGGT--CGCGGCCTGCGGGGCGAGGAG---------------------GTAGCTGTGCCGCCAGGGTTTGCGGGATTCGTGATGGTGACGGAGGAGAAGGGAGAGGGGTTGATA---------------------GGGAAACTGAACTTCTCCGGGGACGCGGAGGACAAAGCGGA ATCAAGGTTTTGTGGCCTGCAGCACCACACCCTGTCTGTGCTGTTCCCAGGGGTAGCCGTGCCGCCGGGGTTTGCAGGATTTGTGATGGTGACAGAGGATGAGGCCCAGGAGCCATTGGAGCGAGACTTTGTGCGGATGGGGAGATGGTATGTTTTGGGTGAGGGCAGTGACTGCTGTAC #### Rnaseh2c_ID1104_3 --> 0 - 0 Original Alignment GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtgagggcagtgactgctgtaccaatacctttgttttctgattcttccag---CGCCTTATCGGGGCCACCGGAAGCTTCAGCCATTTCACATTGTGGGGTCTGGAAACAGTCCCAGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGATGGCCCAGCCTAGCAGCAGCAgtaagtatacttaggagccctttttttcctctggcagctggacaatccct Alignment from CESAR GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG tgggtgagggcagtgactgctgtactacctttgttttctgattcttccag---CGCCTTATCGGGGCCACCGGAAGCTTCAGCCATTTCACATTGTGGGGTCTGGAAACAGTCCCAGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGATGGCCCAGCCTAGCAGCAGCAgtaagtatacttaggagccctttttttcctctggcagctggacaatccct Alignment from Spaln_aa2Genome GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtgagggcagtgactgctgtaccaatacctttgttttctgattcttccag---CGCCTTATCGGGGCCACCGGAAGCTTCAGCCATTTCACATTGTGGGGTCTGGAAACAGTCCCAGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGATGGCCCAGCCTAGCAGCAGCAgtaagtatacttaggagccctttttttcctctggcagctggacaatccct Alignment from Spaln_nt2Genome CGAGGCGCAGGAGCCGCTGGAGCGGGAC----------------TTCGACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG TGAGG-GCAGTGACTGCTGTACCAATACCTTTGTTTTCTGATTCTTCCAGCGCCTTATCGGGGCCACCGGAAGCTTCAGCCATTTCACATTGTGGGGTCTGGAAACAGTCCCAGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGATGGCCCAGCCTAGCAGCAGCAgtaagtatacttaggagccctttttttcctctggcagctggacaatccct Alignment from Pairagon GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCG gtgagggcagtgactgctgtaccaatacctttgttttctgattcttccag---CGCCTTATCGGGGCCACCGGAAGCTTCAGCCATTTCACATTGTGGGGTCTGGAAACAGTCCCAGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGATGGCCCAGCCTAGCAGCAGCAgtaagtatacttaggagccctttttttcctctggcagctggacaatccct Alignment from Exonerate_protein2genome gtgagggcagtgactgctgtaccaatacctttgttttctgattcttccagcgccttatcggggccaccggaagcttcagccatttcacattgtggggtctggaaacagtcccaggtccagatgccaaagtgcatagggccctaggatggcccagcctagcagcagcagtaagtatacttaggagccctttttttcctctggcagctggacaatccct Alignment from Exonerate_coding2genome No alignment No alignment Alignment from GeneWise GACCGCCTTATCGGGGCCACCGGCAGCTTCAGCCATTTCACCTTGTGGGGTCTGGAAACGGTCCCGGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGTTGGCCCAGCCTCGCAGCAGCGATTCACGCCCAGGTCCCTGAGGAC gtgagggcagtgactgctgtaccaatacctttgttttctgattcttccagCGC---CTTATCGGGGCCACCGGAAGCTTCAGCCATTTCACATTGTGGGGTCTGGAAACAGTCCCAGGTCCAGATGCCAAAGTGCATAGGGCCCTAGGATGGCCCAGCCTAGCAGCAGCAGTAAGTATACTTAGGAGCCCTTTTtttcctctggcagctggacaatccct #### Rpp30_ID7089_9 --> 0 - 2 Original Alignment ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACtt taaacaacccttacaatggtttattacacttacttatttctgcttttcagTTACGGAATCCCTTGGAAATAAGAGGACCATACGATGTGGCAAACttgtaatgtctcagtatactgattggggtagctctctccttccaccttgcag Alignment from CESAR ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACtt taaacaacccttacaatggtttattacacttacttatttctgcttttcagTTACGGAATCCCTTGGAAATAAGAGGACCATACGATGTGGCAAACttgtaatgtctcagtatactgattggggtagctctctccttccaccttgcag Alignment from Spaln_aa2Genome GCAGAAAGGCCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT taaacaacccttacaatggtttattacacttacttatttctgcttttcagTTACGGAATCCCTTGGAAATAAGAGGACCATACGATGTGGCAAACTTgtaatgtctcagtatactgattggggtagctctctccttccaccttgcag Alignment from Spaln_nt2Genome ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT taaacaacccttacaatggtttattacacttacttatttctgcttttcagTTACGGAATCCCTTGGAAATAAGAGGACCATACGATGTGGCAAACTTgtaatgtctcagtatactgattggggtagctctctccttccaccttgcag Alignment from Pairagon ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT taaacaacccttacaatggtttattacacttacttatttctgcttttcagTTACGGAATCCCTTGGAAATAAGAGGACCATACGATGTGGCAAACTTgtaatgtctcagtatactgattggggtagctctctccttccaccttgcag Alignment from Exonerate_protein2genome CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT taaacaacccttacaatggtttattacacttacttatttctgcttttcagttacggaatCCCTTGGAAATAAGAGGACCATACGATGTGGCAAACTTgtaatgtctcagtatactgattggggtagctctctccttccaccttgcag Alignment from Exonerate_coding2genome GCAGAAAGGCCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT taaacaacccttacaatggtttattacacttacttatttctgcttttcagTTACGGAATCCCTTGGAAATAAGAGGACCATACGATGTGGCAAACTTgtaatgtctcagtatactgattggggtagctctctccttccaccttgcag Alignment from GeneWise ---------CCTTTGGAAATAAGAGGACCATATGACGTGGCAAACTT taaacaacccttacaatggtttattacacttacttatttctgcttttcagTTACGGAATCCCTTGGAAATAAGAGGACCATACGATGTGGCAAACTTgtaatgtctcagtatactgattggggtagctctctccttccaccttgcag #### Rps6ka4_ID1806_14 --> 0 - 0 Original Alignment AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG ctgggtctgggccctgacttgggttgtacctaaaccacacatcactccag---------TACGCGGATGACACTCCCGGGGCCCCGCTGAAAATCATCGACTTTGGGTTCACACAACTGCGGCCCCAGAGCCCGGCAGGACCTATGCAGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtatggttctcagaggagcaggggttattgttccagatagttagcattgg Alignment from CESAR AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG gcacgtatgctgggtctgggccctggtacctaaaccacacatcactccag---------TACGCGGATGACACTCCCGGGGCCCCGCTGAAAATCATCGACTTTGGGTTCACACAACTGCGGCCCCAGAGCCCGGCAGGACCTATGCAGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtatggttctcagaggagcaggggttattgttccagatagttagcattgg Alignment from Spaln_aa2Genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG ctgggtctgggccctgacttgggttgtacctaaaccacacatcactccag---------TACGCGGATGACACTCCCGGGGCCCCGCTGAAAATCATCGACTTTGGGTTCACACAACTGCGGCCCCAGAGCCCGGCAGGACCTATGCAGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtatggttctcagaggagcaggggttattgttccagatagttagcattgg Alignment from Spaln_nt2Genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG ctgggtctgggccctgacttgggttgtacctaaaccacacatcactccag---------TACGCGGATGACACTCCCGGGGCCCCGCTGAAAATCATCGACTTTGGGTTCACACAACTGCGGCCCCAGAGCCCGGCAGGACCTATGCAGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtatggttctcagaggagcaggggttattgttccagatagttagcattgg Alignment from Pairagon AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG ctgggtctgggccctgacttgggttgtacctaaaccacacatcactccag---------TACGCGGATGACACTCCCGGGGCCCCGCTGAAAATCATCGACTTTGGGTTCACACAACTGCGGCCCCAGAGCCCGGCAGGACCTATGCAGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtatggttctcagaggagcaggggttattgttccagatagttagcattgg Alignment from Exonerate_protein2genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG ctgggtctgggccctgacttgggttgtacctaaaccacacaTCACTCCAGTACGCGGATGACACTCCCGGGGCCCCGCTGAAAATCATCGACTTTGGGTTCACACAACTGCGGCCCCAGAGCCCGGCAGGACCTATGCAGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtatggttctcagaggagcaggggttattgttccagatagttagcattgg Alignment from Exonerate_coding2genome AACATCTTGTACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG ctgggtctgggccctgacttgggttgtacctaaaccacacaTCACTCCAGTACGCGGATGACACTCCCGGGGCCCCGCTGAAAATCATCGACTTTGGGTTCACACAACTGCGGCCCCAGAGCCCGGCAGGACCTATGCAGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtatggttctcagaggagcaggggttattgttccagatagttagcattgg Alignment from GeneWise TACGCGGACGACACTCCCGGGGCCCCGGTGAAGATCATCGACTTCGGGTTCGCGCGACTGCGGCCCCAGAGCCCGGCAGAGCCCATGCAGACTCCTTGCTTCACACTGCAGTACGCTGCACCCGAGCTGCTGGCACAGCAGGGCTACGATGAGTCCTGCGATCTATGGAGCCTGGGTGTCATTCTG ctgggtctgggccctgacttgggttgtacctaaaccacacatcactccagTACGCGGATGACACTCCCGGGGCCCCGCTGAAAATCATCGACTTTGGGTTCACACAACTGCGGCCCCAGAGCCCGGCAGGACCTATGCAGACTCCTTGCTTTACACTGCAGTACACTGCACCTGAGCTACTGGCACAGCAGGGCTATGATGAGTCCTGTGATCTATGGAGTCTGGGTGTTGTTCTGgtatggttctcagaggagcaggggttattgttccagatagttagcattgg #### Rps6ka4_ID1807_13 --> 0 - 0 Original Alignment CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG--------------- caaccaccatgatacctgagcagacagtaccccccactccccacccccagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAAAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGCACGAGGAGGCGGGTGTGGTGCACCGCGACCTGAAACCTGAGATGACCCCAATTGTAgtgagggcaggacttaggaagtggagcagaactgcttggcacgtatgctg Alignment from CESAR CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG--------------- caaccaccatgatacctgagcagacagtaccccccactccccacccccagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAAAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGCACGAGGAGGCGGGTGTGGTGCACCGCGACCTGAAACCTGAGATGACCCCAATTGTAgtgagggcaggacttaggaagtggagcagaactgcttggcacgtatgctg Alignment from Spaln_aa2Genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccaccatgatacctgagcagacagtaccccccactccccacccccagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAAAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGCACGAGGAGGCGGGTGTGGTGCACCGCGACCTGAAACCTGAGatgaccccaattgtagtgagggcaggacttaggaagtggagcagaactgcttggcacgtatgctg Alignment from Spaln_nt2Genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG------------ caaccaccatgatacctgagcagacagtaccccccactccccacccccagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAAAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGCACGAGGAGGCGGGTGTGGTGCACCGCGACCTGAAACCTGAGATGACCCCAATTgtagtgagggcaggacttaggaagtggagcagaactgcttggcacgtatgctg Alignment from Pairagon CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG--------------- caaccaccatgatacctgagcagacagtaccccccactccccacccccagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAAAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGCACGAGGAGGCGGGTGTGGTGCACCGCGACCTGAAACCTGAGATGACCCCAATTGTAgtgagggcaggacttaggaagtggagcagaactgcttggcacgtatgctg Alignment from Exonerate_protein2genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccaccatgatacctgagcagacagtaccccccactccccacccccagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAAAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGCACGAGGAGGCGGGTGTGGTGCACCGCGACCTGAAACCTGAGatgaccccaattgtagtgagggcaggacttaggaagtggagcagaactgcttggcacgtatgctg Alignment from Exonerate_coding2genome CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG caaccaccatgatacctgagcagacagtaccccccactccccacccccagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAAAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGCACGAGGAGGCGGGTGTGGTGCACCGCGACCTGAAACCTGAGatgaccccaattgtagtgagggcaggacttaggaagtggagcagaactgcttggcacgtatgctg Alignment from GeneWise CTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAGCTATTGGAACACATCCGCAAGAAGCGGCTCTTCAGCGAGTCGGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCGGCCGTGAGCTTCATGCACGAGGAGGCAGGCGTGGTGCACCGCGACCTGAAACCCGAG------------ caaccaccatgatacctgagcagacagtaccccccactccccacccccagCTACACACTTACCTGGTCCTGGAGTTGCTGCGAGGCGGAGAACTATTGGAACACATCCACAAAAAACGGCTCTTCAGTGAGTCAGAGGCCAGCCAGATCCTTCGGAGCCTGGTTTCAGCCGTGAGCTTCATGCACGAGGAGGCGGGTGTGGTGCACCGCGACCTGAAACCTGAGATGACCCCAATTgtagtgagggcaggacttaggaagtggagcagaactgcttggcacgtatgctg #### Rps6ka4_ID1817_3 --> 2 - 1 Original Alignment cc---TATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGg tttcaacccacccagctcactttccaactaataacccttttcttccctagccATCTATGGAAAGGTGTTCCTGGTGTGGAAGACGGGCGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGCCAGGCACCGTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATACCAAGCTGCACCTCATCCTGggcaagtgagttggattaagctgccttataggaatcagtgctctcttctca Alignment from CESAR cc---TATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGg tttcaacccacccagctcactttccaactaataacccttttcttccctagccATCTATGGAAAGGTGTTCCTGGTGTGGAAGACGGGCGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGCCAGGCACCGTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATACCAAGCTGCACCTCATCCTGggcaagtgagttggattaagctgccttataggaatcagataattttctttt Alignment from Spaln_aa2Genome CC---TATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGG tttcaacccacccagctcactttccaactaataacccttttcttccctagCCATCTATGGAAAGGTGTTCCTGGTGTGGAAGACGGGCGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGCCAGGCACCGTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATACCAAGCTGCACCTCATCCTGGgcaagtgagttggattaagctgccttataggaatcagtgctctcttctca Alignment from Spaln_nt2Genome CCTATGGGAAGG---TGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGG tttcaacccacccagctcactttccaactaataacccttttcttccctagCCATCTATGGAAAGGTGTTCCTGGTGTGGAAGACGGGCGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGCCAGGCACCGTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATACCAAGCTGCACCTCATCCTGGgcaagtgagttggattaagctgccttataggaatcagtgctctcttctca Alignment from Pairagon C---CTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGG tttcaacccacccagctcactttccaactaataacccttttcttccctagCCATCTATGGAAAGGTGTTCCTGGTGTGGAAGACGGGCGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGCCAGGCACCGTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATACCAAGCTGCACCTCATCCTGGgcaagtgagttggattaagctgccttataggaatcagtgctctcttctca Alignment from Exonerate_protein2genome CC---TATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGG tttcaacccacccagctcactttccaactaataacccttttcttccctagCCATCTATGGAAAGGTGTTCCTGGTGTGGAAGACGGGCGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGCCAGGCACCGTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATACCAAGCTGCACCTCATCCTGGgcaagtgagttggattaagctgccttataggaatcagtgctctcttctca Alignment from Exonerate_coding2genome CC---TATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATCCTGG tttcaacccacccagctcactttccaactaataacccttttcttccctagCCATCTATGGAAAGGTGTTCCTGGTGTGGAAGACGGGCGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGCCAGGCACCGTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATACCAAGCTGCACCTCATCCTGGgcaagtgagttggattaagctgccttataggaatcagtgctctcttctca Alignment from GeneWise --GCCTATGGGAAGGTGTTCCTGGTGCGGAAGACGGGTGGGCACGACGCGGGCAAGCTCTATGCCATGAAGGTGCTACGCAAGGCGGCGTTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACCGAACGCTCGGTGCTGGAGCTGGTTCGCCAAGCACCCTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATGCCAAGCTGCACCTCATC------------------------------------------------------ tttcaacccacccagctcactttccaactaataacccttttcttccctagCCATCTATGGAAAGGTGTTCCTGGTGTGGAAGACGGGCGGGCACGATGCAGGCAAGCTCTACGCCATGAAGGTGCTACGGAAGGCAGCATTGGTGCAGCGCGCGAAGACACAGGAGCATACCCGCACTGAACACTCTGTGCTGGAGCTGGTTCGCCAGGCACCGTTCCTGGTCACACTGCACTACGCCTTCCAGACGGATACCAAGCTGCACCTCATCCTGGGCAAGTG-AGTTGGATTAAGCTGCCTTATAGGAATCAGTGCTCTCTTCTC #### Rps6ka4_ID1818_2 --> 2 - 1 Original Alignment ccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGA---g gttggggggcaaaacaaccctcaggaccttcggcgcttttgttttaacagccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAAATggtgagaaactactttcactggcaggatgttttgggcgtcctcatggaaga Alignment from CESAR ccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGA---g gttggggggcaaaacaaccctcaggaccttcggcgcttttgttttaacagccAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAAATggtgagaaactactttcactggcaggatgttttgggcgtcctcatggaaga Alignment from Spaln_aa2Genome CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGA---G gttggggggcaaaacaaccctcaggaccttcggcgcttttgttttaacagCCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAAATGgtgagaaactactttcactggcaggatgttttgggcgtcctcatggaaga Alignment from Spaln_nt2Genome CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGA---G gttggggggcaaaacaaccctcaggaccttcggcgcttttgttttaacagCCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAAATGgtgagaaactactttcactggcaggatgttttgggcgtcctcatggaaga Alignment from Pairagon CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGA---G gttggggggcaaaacaaccctcaggaccttcggcgcttttgttttaacagCCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAAATGgtgagaaactactttcactggcaggatgttttgggcgtcctcatggaaga Alignment from Exonerate_protein2genome CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGA---G gttggggggcaaaacaaccctcaggaccttcggcgcttttgttttaacagCCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAAATGgtgagaaactactttcactggcaggatgttttgggcgtcctcatggaaga Alignment from Exonerate_coding2genome ATCACCGAAGCCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGA---G gttggggggcaaaacaaccctcaggaccttcggcgcttttGTTTTAACAGCCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAAATGgtgagaaactactttcactggcaggatgttttgggcgtcctcatggaaga Alignment from GeneWise CCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACGGGAGCC- gttggggggcaaaacaaccctcaggaccttcggcgcttttgttttaacagCCAACCTCACCGGGCATGAGGAGAAGGTGAGCGTGGAGAACTTCGCGCTGCTCAAGGTGCTGGGCACAGGAAATGgtgagaaactactttcactggcaggatgttttgggcgtcctcatggaaga #### Rps6kb2_ID371_11 --> 0 - 0 Original Alignment TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccactcttattctttcaaacccatttctgtcctgctgcagTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTCTGGGAGATGCTGCTGAT------gtgagcaaaataatggatatgtgataatgtacttaagctggaggaggaca Alignment from CESAR TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccactcttattctttcaaacccatttctgtcctgctgcagTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTCTGGGAGATGCTGCTGAT------gtgagcaaaataatggatatgtgataatgtacttaagctggagg Alignment from Spaln_aa2Genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGAT tgcctggcccccactcttattctttcaaacccatttctgtcctgctgcagTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTCTGGGAGATGCTGCTGATgtgagcaaaataatggatatgtgataatgtacttaagctggaggaggaca Alignment from Spaln_nt2Genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCA tgcctggcccccactcttattctttcaaacccatttctgtcctgctgcagTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTCTGGGAGATGCTGCTGATGTGA-gcaaaataatggatatgtgataatgtacttaagctggaggaggac Alignment from Pairagon TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATG------------------------------------------------- tgcctggcccccactcttattctttcaaacccatttctgtcctgctgcagTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTCTGGGAGATGCTGCTGATGTGAGCAAAATAATGGATATGTGATAATGTACTTAAGCTGGAGGAGGACA Alignment from Exonerate_protein2genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccactcttattctttcaaacccatttctgtcctgctgcagTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTCTGGGAGATGCTGCTGATGTGAGCaaaataatggatatgtgataatgtacttaagctggaggaggaca Alignment from Exonerate_coding2genome TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAG tgcctggcccccactcttattctttcaaacccatttctgtcctgctgcagTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTCTGGGAGATGCTGCTGATGTGAGCaaaataatggatatgtgataatgtacttaagctggaggaggaca Alignment from GeneWise TTTCTGAAGCGGAACCCCACTCAGCGAATTGGGGGTGGCCTGGGAGATGCTGCTGATGTCCAGAGG----------- tgcctggcccccactcttattctttcaaacccatttctgtcctgctgcagTTACTGAAGCGAAACCCCACTCAGCGAATTGGGGGTGGTCTGGGAGATGCTGCTGATGTGAGCAAAATAATGGATATgtgataatgtacttaagctggaggaggaca #### Rps6kb2_ID372_10 --> 0 - 0 Original Alignment CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gagatgttgcggggagctcttccaggtctgggcgttatttttctctacagCCGCCCTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATACCTCATGCCAGATGCCCGGGACCTTGCCAAA---gtgagtagtctccctctcatccagaggcttattgctgcctcctcaagaat Alignment from CESAR CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gagatgttgcggggagctcttccaggtctgggcgttatttttctctacagCCGCCCTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATACCTCATGCCAGATGCCCGGGACCTTGCCAAA---gtgagtagtctccctctcatccagaggcttattgctgcctcctcaag Alignment from Spaln_aa2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAA gagatgttgcggggagctcttccaggtctgggcgttatttttctctacagCCGCCCTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATACCTCATGCCAGATGCCCGGGACCTTGCCAAAgtgagtagtctccctctcatccagaggcttattgctgcctcctcaagaat Alignment from Spaln_nt2Genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG- gagatgttgcggggagctcttccaggtctgggcgttatttttctctacagCCGCCCTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATACCTCATGCCAGATGCCCGGGACCTTGCCAAAGTGAgtagtctccctctcatccagaggcttattgctgcctcctcaagaat Alignment from Pairagon CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAA gagatgttgcggggagctcttccaggtctgggcgttatttttctctacagCCGCCCTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATACCTCATGCCAGATGCCCGGGACCTTGCCAAAgtgagtagtctccctctcatccagaggcttattgctgcctcctcaagaat Alignment from Exonerate_protein2genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAA gagatgttgcggggagctcttccaggtctgggcgttatttttctctacagCCGCCCTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATACCTCATGCCAGATGCCCGGGACCTTGCCAAAgtgagtagtctccctctcatccagaggcttattgctgcctcctcaagaat Alignment from Exonerate_coding2genome CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAA gagatgttgcggggagctcttccaggtctgggcgttatttttctctacagCCGCCCTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATACCTCATGCCAGATGCCCGGGACCTTGCCAAAgtgagtagtctccctctcatccagaggcttattgctgcctcctcaagaat Alignment from GeneWise CCGCCCTTCACTGCAGAGAACCGGAAGAAAACTATGGATAAAATCATTAAAGGGAAGCTGGTGCTGCCCCCCTACCTCACCCCGGATGCCCGGGACCTTGCCAAAAAG gagatgttgcggggagctcttccaggtctgggcgttatttttctctacagCCGCCCTTCACTGCTGAGAACCGGAAGAAAACTACAGATAACATCATTAAAGGGAAGCTGGTACTTCCCCCATACCTCATGCCAGATGCCCGGGACCTTGCC---AAAgtgagtagtctccctctcatccagaggcttattgctgcctcctcaagaat #### Rps6kb2_ID373_9 --> 1 - 0 Original Alignment g---GCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG gagtaccacagagggcctgcacttaccccgcttcttcttgtcccttccaggATGGCACCAGAGATTCTATTGCGCACTGGTCACAATCGGGCAGTGGACTGGTGGAGCCTGGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaagccaacttcactggtgggtgttaaggagatgttgcggggagctctt Alignment from CESAR g---GCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG gagtaccacagagggcctgcacttaccccgcttcttcttgtcccttccaggATGGCACCAGAGATTCTATTGCGCACTGGTCACAATCGGGCAGTGGACTGGTGGAGCCTGGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaagccaacttcactggtgggtgttaaggagatgttgcggggagctctt Alignment from Spaln_aa2Genome GGCCCCAGAGATT---CTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG gagtaccacagagggcctgcacttaccccgcttcttcttgtcccttccagGATGGCACCAGAGATTCTATTGCGCACTGGTCACAATCGGGCAGTGGACTGGTGGAGCCTGGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaagccaacttcactggtgggtgttaaggagatgttgcggggagctctt Alignment from Spaln_nt2Genome ATGGCCCCAGAGAT-TCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG gagtaccacagagggcctgcacttaccccgcttcttcttgtcccttccagGATGGCACCAGAGATTCTATTGCGCACTGGTCACAATCGGGCAGTGGACTGGTGGAGCCTGGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaagccaacttcactggtgggtgttaaggagatgttgcggggagctctt Alignment from Pairagon ---------------------------------------------------ATGGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG GAGTACCACAGAGGGCCTGCACTTACCCCGCTTCTTCTTGTCCCTTCCAGGATGGCACCAGAGATTCTATTGCGCACTGGTCACAATCGGGCAGTGGACTGGTGGAGCCTGGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaagccaacttcactggtgggtgttaaggagatgttgcggggagctctt Alignment from Exonerate_protein2genome G---GCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG gagtaccacagagggcctgcacttaccccgcttcttcttgtcccttccagGATGGCACCAGAGATTCTATTGCGCACTGGTCACAATCGGGCAGTGGACTGGTGGAGCCTGGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaagccaacttcactggtgggtgttaaggagatgttgcggggagctctt Alignment from Exonerate_coding2genome G---GCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG gagtaccacagagggcctgcacttaccccgcttcttcttgtcccttccagGATGGCACCAGAGATTCTATTGCGCACTGGTCACAATCGGGCAGTGGACTGGTGGAGCCTGGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaagccaacttcactggtgggtgttaaggagatgttgcggggagctctt Alignment from GeneWise -ATGGCCCCAGAGATTCTAGTGCGCACTGGTCACAACCGGGCAGTGGACTGGTGGAGCCTGGGAGCCCTGATGTACGACATGCTCACTGGATCG gagtaccacagagggcctgcacttaccccgcttcttcttgtcccttccagGATGGCACCAGAGATTCTATTGCGCACTGGTCACAATCGGGCAGTGGACTGGTGGAGCCTGGGGGCCCTAATGTATGACATGCTCACTGAATCAgtaagccaacttcactggtgggtgttaaggagatgttgcggggagctctt #### Rps6kb2_ID374_8 --> 2 - 2 Original Alignment gcCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACat ccacatgatttgaggacttagggatgttccgtcttttgtctcctctgcaggc---------CTGACATACTTTGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACatgtgagtaacgcctgggcaaccagggtctggaaggagtaccacagagggcc Alignment from CESAR gcCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACat taggcccggccacatgatttgaggagttccgtcttttgtctcctctgcaggc---------CTGACATACTTTGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACatgtgagtaacgcctgggcaaccagggtctggaaggagtaccacagagggcc Alignment from Spaln_aa2Genome ATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT catgatttgaggacttagggatgttccgtcttttgtctcctctgca gGCCTGACATACTTTGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgtgagtaacgcctgggcaaccagggtctggaaggagtaccacagagggcc Alignment from Spaln_nt2Genome AC-TGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT ccacatgatttgaggacttagggatgttccgtcttttgtctcctctgcagGCCTGACATACTTTGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgtgagtaacgcctgggcaaccagggtctggaaggagtaccacagagggcc Alignment from Pairagon GCCACATCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT ccacatgatttgaggacttagggatgttccgtcttttgtctcctctgcagGC---------CTGACATACTTTGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgtgagtaacgcctgggcaaccagggtctggaaggagtaccacagagggcc Alignment from Exonerate_protein2genome TCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT ccacatgatttgaggacttagggatgttccgtcttttgtctcctctgCAGGCCTGACATACTTTGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgtgagtaacgcctgggcaaccagggtctggaaggagtaccacagagggcc Alignment from Exonerate_coding2genome TCAAACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT ccacatgatttgaggacttagggatgttccgtcttttgtctcctctgCAGGCCTGACATACTTTGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgtgagtaacgcctgggcaaccagggtctggaaggagtaccacagagggcc Alignment from GeneWise AACTGACAGACTTTGGACTTTGCAAGGAGTCCATTCATGAGGGTGCTATCACTCACACCTTCTGTGGCACCATTGAGTACAT ccacatgatttgaggacttagggatgttccgtcttttgtctcctctgcagGCCTGACATACTTTGGACTTTGCAAGGAGTCTATTCATGAGGGTGCTATCACCCACACCTTCTGTGGCACCATTGAGTACATgtgagtaacgcctgggcaaccagggtctggaaggagtaccacagagggcc #### Rps6kb2_ID375_7 --> 1 - 1 Original Alignment cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---g ggtactgggccttgcctacaccccaacccctgaaccttgtggacctacagcTTCTACCTGGCGGAGATCACACTGGCGCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCGCAAGCCTGAAAACATCATGCTCACCAGCCAGAAAggtgagtataatgtgtgcatgtatgggtgttgagcccctggccttgccggt Alignment from CESAR cTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---g ggtactgggccttgcctacaccccaacccctgaaccttgtggacctacagcTTCTACCTGGCGGAGATCACACTGGCGCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCGCAAGCCTGAAAACATCATGCTCACCAGCCAGAAAggtgagtataatgtgtgcatgtatgggtgttgagcccctggccttgccggt Alignment from Spaln_aa2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G ggtactgggccttgcctacaccccaacccctgaaccttgtggacctacagCTTCTACCTGGCGGAGATCACACTGGCGCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCGCAAGCCTGAAAACATCATGCTCACCAGCCAGAAAGgtgagtataatgtgtgcatgtatgggtgttgagcccctggccttgccggt Alignment from Spaln_nt2Genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G ggtactgggccttgcctacaccccaacccctgaaccttgtggacctacagCTTCTACCTGGCGGAGATCACACTGGCGCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCGCAAGCCTGAAAACATCATGCTCACCAGCCAGAAAGgtgagtataatgtgtgcatgtatgggtgttgagcccctggccttgccggt Alignment from Pairagon CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G ggtactgggccttgcctacaccccaacccctgaaccttgtggacctacagCTTCTACCTGGCGGAGATCACACTGGCGCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCGCAAGCCTGAAAACATCATGCTCACCAGCCAGAAAGgtgagtataatgtgtgcatgtatgggtgttgagcccctggccttgccggt Alignment from Exonerate_protein2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G ggtactgggccttgcctacaccccaacccctgaaccttgtggacctacagCTTCTACCTGGCGGAGATCACACTGGCGCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCGCAAGCCTGAAAACATCATGCTCACCAGCCAGAAAGgtgagtataatgtgtgcatgtatgggtgttgagcccctggccttgccggt Alignment from Exonerate_coding2genome CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAG---G ggtactgggccttgcctacaccccaacccctgaaccttgtggacctacagCTTCTACCTGGCGGAGATCACACTGGCGCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCGCAAGCCTGAAAACATCATGCTCACCAGCCAGAAAGgtgagtataatgtgtgcatgtatgggtgttgagcccctggccttgccggt Alignment from GeneWise CTTCTACCTGGCAGAGATCACACTAGCCCTGGGCCATCTCCATTCCCACGGCATCATCTACCGGGACCTCAAGCCTGAGAACATCATGCTCAGCAGCCAGGGC- ggtactgggccttgcctacaccccaacccctgaaccttgtggacctacagCTTCTACCTGGCGGAGATCACACTGGCGCTGGGCCATCTCCATTTCCATGGCATCATCTACCGGGACCGCAAGCCTGAAAACATCATGCTCACCAGCCAGAAAGgtgagtataatgtgtgcatgtatgggtgttgagcccctggccttgccggt #### Rrp12_ID8296_27 --> 1 - 2 Original Alignment aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC------ag gaggaggggttcttggcaacctcaagactatttgtattctttgactgcaggTTTGAGTTGGTGAAGGGCCTGCTACCCGCAGAGTACCACAAAGTCCTAATTAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTCGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACTACAAGaggtaaggcatgactcaatcccaagctcttagtccccccccacccaaaatct Alignment from CESAR aTTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC------ag gaggaggggttcttggcaacctcaagactatttgtattctttgactgcaggTTTGAGTTGGTGAAGGGCCTGCTACCCGCAGAGTACCACAAAGTCCTAATTAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTCGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACTACAAGaggtaaggcatgactcaatcccaagctcttagtccccccccacccaaaatct Alignment from Spaln_aa2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACAGC----- gaggaggggttcttggcaacctcaagactatttgtattctttgactgcagGTTTGAGTTGGTGAAGGGCCTGCTACCCGCAGAGTACCACAAAGTCCTAATTAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTCGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACTACAAGAGgtaaggcatgactcaatcccaagctcttagtccccccccacccaaaatct Alignment from Spaln_nt2Genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC------AG gaggaggggttcttggcaacctcaagactatttgtattctttgactgcagGTTTGAGTTGGTGAAGGGCCTGCTACCCGCAGAGTACCACAAAGTCCTAATTAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTCGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACTACAAGAGgtaaggcatgactcaatcccaagctcttagtccccccccacccaaaatct Alignment from Pairagon ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC------AG gaggaggggttcttggcaacctcaagactatttgtattctttgactgcagGTTTGAGTTGGTGAAGGGCCTGCTACCCGCAGAGTACCACAAAGTCCTAATTAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTCGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACTACAAGAGgtaaggcatgactcaatcccaagctcttagtccccccccacccaaaatct Alignment from Exonerate_protein2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC------AG gaggaggggttcttggcaacctcaagactatttgtattctttgactgcagGTTTGAGTTGGTGAAGGGCCTGCTACCCGCAGAGTACCACAAAGTCCTAATTAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTCGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACTACAAGAGgtaaggcatgactcaatcccaagctcttagtccccccccacccaaaatct Alignment from Exonerate_coding2genome ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC------AG gaggaggggttcttggcaacctcaagactatttgtattctttgactgcagGTTTGAGTTGGTGAAGGGCCTGCTACCCGCAGAGTACCACAAAGTCCTAATTAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTCGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACTACAAGAGgtaaggcatgactcaatcccaagctcttagtccccccccacccaaaatct Alignment from GeneWise ATTCGAGTTGGTGAAGGGTCTGCTACCCGCAGAATACCACAAAGTCCTGATAAACATCAGGAAAGCTGAGACCCGAGCCAAGAAGCATCGTGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGAGGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGAC------AG gaggaggggttcttggcaacctcaagactatttgtattctttgactgcagGTTTGAGTTGGTGAAGGGCCTGCTACCCGCAGAGTACCACAAAGTCCTAATTAACATCAGGAAAGCTGAGACCCGAGCAAAGAAGCATCGGGCCCTGAGCCAGGCTGCTGTAGAGGAGGAGGAAGTCGAGGAAGAGGAAGAGGAGCCTGTCCAGAGCAAAGGTGACTACAAGAGgtaaggcatgactcaatcccaagctcttagtccccccccacccaaaatct #### Rrp12_ID8300_23 --> 0 - 1 Original Alignment GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAA---g cacccagcctgtacttcagttccatgccactaattatttgactcttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGAGTGCTAGGAAGAGTGCGTTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGCGCTTTGGCTCCAACCAGGAACCAggtgagtaggtggagaactgccttggcccagagaggacttttttttttttt Alignment from CESAR GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAA---g cacccagcctgtacttcagttccatgccactaattatttgactcttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGAGTGCTAGGAAGAGTGCGTTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGCGCTTTGGCTCCAACCAGGAACCAggtgagtaggtggagaactgccttggcccagagaggacttttttttttttt Alignment from Spaln_aa2Genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAA---G cacccagcctgtacttcagttccatgccactaattatttgactcttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGAGTGCTAGGAAGAGTGCGTTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGCGCTTTGGCTCCAACCAGGAACCAGgtgagtaggtggagaactgccttggcccagagaggacttttttttttttt Alignment from Spaln_nt2Genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAA---G cacccagcctgtacttcagttccatgccactaattatttgactcttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGAGTGCTAGGAAGAGTGCGTTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGCGCTTTGGCTCCAACCAGGAACCAGgtgagtaggtggagaactgccttggcccagagaggacttttttttttttt Alignment from Pairagon GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGA---AG cacccagcctgtacttcagttccatgccactaattatttgactcttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGAGTGCTAGGAAGAGTGCGTTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGCGCTTTGGCTCCAACCAGGAACCAGgtgagtaggtggagaactgccttggcccagagaggacttttttttttttt Alignment from Exonerate_protein2genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAA---G cacccagcctgtacttcagttccatgccactaattatttgactcttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGAGTGCTAGGAAGAGTGCGTTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGCGCTTTGGCTCCAACCAGGAACCAGgtgagtaggtggagaactgccttggcccagagaggacttttttttttttt Alignment from Exonerate_coding2genome GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAA---G cacccagcctgtacttcagttccatgccactaattatttgactcttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGAGTGCTAGGAAGAGTGCGTTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGCGCTTTGGCTCCAACCAGGAACCAGgtgagtaggtggagaactgccttggcccagagaggacttttttttttttt Alignment from GeneWise GTGATCCTGTGCACCAAGGAGGTGTCAGTGGGTGCAAGGAAGAGTGCGTTTACCTTGCTGGTGGAGATGGGCCATGCTTTCCTGCGATTTGGCTCCAACCAGGAAGAC- cacccagcctgtacttcagttccatgccactaattatttgactcttacagGTGATCCTATGCACCAAGGAGGTGTCAGTGAGTGCTAGGAAGAGTGCGTTTACCTTGCTTGTGAAGATGGGACATGCTTTCCTGCGCTTTGGCTCCAACCAGGAACCAGgtgagtaggtggagaactgccttggcccagagaggacttttttttttttt #### Rrp12_ID8301_22 --> 0 - 0 Original Alignment ---------CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggttagtgcaaagcgacaggggggcccctatgctttttattttctcccagGGGATCCCACCCCGTTTGAAGTGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgttagcggatgtggagggctgtgggttcccaagagacacctgaggaggga Alignment from CESAR ---------CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggttagtgcaaagcgacaggggggcccctatgctttttattttctcccagGGGATCCCACCCCGTTTGAAGTGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgttagcggatgtggagggctgtgggttcccaagagacacctgaggaggga Alignment from Spaln_aa2Genome CCCCGTTTGAAGTGC---------CTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggttagtgcaaagcgacaggggggcccctatgctttttattttctcccagGGGATCCCACCCCGTTTGAAGTGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgttagcggatgtggagggctgtgggttcccaagagacacctgaggaggga Alignment from Spaln_nt2Genome CCCCGTTTG---------AAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggttagtgcaaagcgacaggggggcccctatgctttttattttctcccagGGGATCCCACCCCGTTTGAAGTGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgttagcggatgtggagggctgtgggttcccaagagacacctgaggaggga Alignment from Pairagon ---------CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggttagtgcaaagcgacaggggggcccctatgctttttattttctcccagGGGATCCCACCCCGTTTGAAGTGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgttagcggatgtggagggctgtgggttcccaagagacacctgaggaggga Alignment from Exonerate_protein2genome ---------CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggttagtgcaaagcgacaggggggcccctatgctttttattttctcccagGGGATCCCACCCCGTTTGAAGTGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgttagcggatgtggagggctgtgggttcccaagagacacctgaggaggga Alignment from Exonerate_coding2genome ---------CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggttagtgcaaagcgacaggggggcccctatgctttttattttctcccagGGGATCCCACCCCGTTTGAAGTGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgttagcggatgtggagggctgtgggttcccaagagacacctgaggaggga Alignment from GeneWise ---------CCCCGTTTGAAGTGCCTCATACATATTGTGAAGACGCTGTCGGCTGAGCATGAGGAGTTCATAGCTGCCCTCATCCCAGAG ggttagtgcaaagcgacaggggggcccctatgctttttattttctcccagGGGATCCCACCCCGTTTGAAGTGCCTCATACATATTGTGAAGACACTATTGGCTGAGCATGAGGAGTTCATAGCTGCTCTGATCCCAGAGgttagcggatgtggagggctgtgggttcccaagagacacctgaggaggga #### Rrp12_ID8304_19 --> 0 - 2 Original Alignment TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCag gtcactctgtttaacctcctccaccatgtttgttctctcccgggtggcag---------------CTGGACAAAGCAACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCaggtaacatttctgagcttcctcatgtggcttgggagatgcagggtacctag Alignment from CESAR TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCag gtgcctgctgctatggtcactctgtatgtttgttctctcccgggtggcag---------------CTGGACAAAGCAACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCaggtaacatttctgagcttcctcatgtggcttgggagatgcagggtacctag Alignment from Spaln_aa2Genome CTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcactctgtttaacctcctccaccatgtttgttctctcccgggtggcagCTGGACAAAGCAACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGgtaacatttctgagcttcctcatgtggcttgggagatgcagggtacctag Alignment from Spaln_nt2Genome CTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcactctgtttaacctcctccaccatgtttgttctctcccgggtggcagCTGGACAAAGCAACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGgtaacatttctgagcttcctcatgtggcttgggagatgcagggtacctag Alignment from Pairagon TTGGTGAATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcactctgtttaacctcctccaccatgtttgttctctcccgggtggcag---------------CTGGACAAAGCAACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGgtaacatttctgagcttcctcatgtggcttgggagatgcagggtacctag Alignment from Exonerate_protein2genome ATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcactctgtttaacctcctccaccatgtttgttctctcccgGGTGGCAGCTGGACAAAGCAACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGgtaacatttctgagcttcctcatgtggcttgggagatgcagggtacctag Alignment from Exonerate_coding2genome ATAGCTTCCTGGAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcactctgtttaacctcctccaccatgtttgttctctcccgGGTGGCAGCTGGACAAAGCAACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGgtaacatttctgagcttcctcatgtggcttgggagatgcagggtacctag Alignment from GeneWise ---GAAAAAGCCACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAG gtcactctgtttaacctcctccaccatgtttgttctctcccgggtggcagCTGGACAAAGCAACCGAGAAGGTTCTCGATCCTGCCAGCTCTGATTTCACCAGgtaacatttctgagcttcctcatgtggcttgggagatgcagggtacctag #### Rrp12_ID8306_17 --> 0 - 1 Original Alignment ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAg aggcattttttaattgccgttatatttgggctattatttgattctgccag---------------CCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTACTTTGGGTACAGCTATCAATGAGTGCCCAGACCTGAGGGTCAGTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAggtgagtggggaaccttttgggaagatgacctgggatgctagcttgctcta Alignment from CESAR ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAg gcatgcagggctacaaggcatttttttgggctattatttgattctgccag---------------CCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTACTTTGGGTACAGCTATCAATGAGTGCCCAGACCTGAGGGTCAGTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAggtgagtggggaaccttttgggaagatgacctgggatgctagcttgctcta Alignment from Spaln_aa2Genome CCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG aggcattttttaattgccgttatatttgggctattatttgattctgccagCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTACTTTGGGTACAGCTATCAATGAGTGCCCAGACCTGAGGGTCAGTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgtgagtggggaaccttttgggaagatgacctgggatgctagcttgctcta Alignment from Spaln_nt2Genome ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG aggcattttttaattgccgttatatttgggctattatttgattctgccag---------------CCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTACTTTGGGTACAGCTATCAATGAGTGCCCAGACCTGAGGGTCAGTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgtgagtggggaaccttttgggaagatgacctgggatgctagcttgctcta Alignment from Pairagon ATCTGGACCCTCCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG aggcattttttaattgccgttatatttgggctattatttgattctgccag---------------CCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTACTTTGGGTACAGCTATCAATGAGTGCCCAGACCTGAGGGTCAGTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgtgagtggggaaccttttgggaagatgacctgggatgctagcttgctcta Alignment from Exonerate_protein2genome CCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG aggcattttttaattgccgttatatttgggctattatttgattctgCCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTACTTTGGGTACAGCTATCAATGAGTGCCCAGACCTGAGGGTCAGTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgtgagtggggaaccttttgggaagatgacctgggatgctagcttgctcta Alignment from Exonerate_coding2genome CCTGCCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG aggcattttttaattgccgttatatttgggctattatttgattctgCCAGCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTACTTTGGGTACAGCTATCAATGAGTGCCCAGACCTGAGGGTCAGTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgtgagtggggaaccttttgggaagatgacctgggatgctagcttgctcta Alignment from GeneWise CCTGGGTTCTGCACAAGGCCCACAGATGTGGCTGCCTCCTTCAAAGGCCTGGCACGGACTCTGGGCACAGCTATCAATGAACGCCCAGACCTGAGGGTCACTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAG aggcattttttaattgccgttatatttgggctattatttgattctgccagCCTGGGTTCTGCACAAGGTCCACAGAAGTGGCTGCCTCTTTCAAAGGCCTGGCACGTACTTTGGGTACAGCTATCAATGAGTGCCCAGACCTGAGGGTCAGTGTGTGCCAGGCCCTACGTACCCTCATCACTAAGGGCTGTGAGGCAGgtgagtggggaaccttttgggaagatgacctgggatgctagcttgctcta #### Rrp12_ID8314_9 --> 0 - 0 Original Alignment CTTGTGACAGCCTGTGCCATGCAGGCCTTCCATAACCTCTTCCATGCCAAGCCCAGCCCTAGCACCCTGTCAGCAGAACTCAACGCCCAGATCGTCACG ggactttgtttctccttgccattgtcaatactttaaatatctttaaacag---------GCCTGTGCCATGAAGGCCTTCCATAACCTGTTCCATGCCAAGCCCAGCCCTAGCACCTTGTCAGCAGAGCTCAATGCCCAGATTGTCGCAgtgagtccagatgttgcaggagggtaggcttcatcactagggtagagtgc Alignment from CESAR CTTGTGACAGCCTGTGCCATGCAGGCCTTCCATAACCTCTTCCATGCCAAGCCCAGCCCTAGCACCCTGTCAGCAGAACTCAACGCCCAGATCGTCACG ggcagctgtggactttgtttctcctcaatactttaaatatctttaaacag---------GCCTGTGCCATGAAGGCCTTCCATAACCTGTTCCATGCCAAGCCCAGCCCTAGCACCTTGTCAGCAGAGCTCAATGCCCAGATTGTCGCAgtgagtccagatgttgcaggagggtaggcttcatcactagggtagagtgc Alignment from Spaln_aa2Genome CTTGTGACAGCCTGTGCCATGCAGGCCTTCCATAACCTCTTCCATGCCAAGCCCAGCCCTAGCACCCTGTCAGCAGAACTCAACGCCCAGATCGTCACG ggactttgtttctccttgccattgtcaatactttaaatatctttaaacag---------GCCTGTGCCATGAAGGCCTTCCATAACCTGTTCCATGCCAAGCCCAGCCCTAGCACCTTGTCAGCAGAGCTCAATGCCCAGATTGTCGCAgtgagtccagatgttgcaggagggtaggcttcatcactagggtagagtgc Alignment from Spaln_nt2Genome GCCTGTGCCATGCAGGCCTTCCATAACCTCTTCCATGCCAAGCCCAGCCCTAGCACCCTGTCAGCAGAACTCAACGCCCAGATCGTCACG ggactttgtttctccttgccattgtcaatactttaaatatctttaaacagGCCTGTGCCATGAAGGCCTTCCATAACCTGTTCCATGCCAAGCCCAGCCCTAGCACCTTGTCAGCAGAGCTCAATGCCCAGATTGTCGCAgtgagtccagatgttgcaggagggtaggcttcatcactagggtagagtgc Alignment from Pairagon CTTGTGACAGCCTGTGCCATGCAGGCCTTCCATAACCTCTTCCATGCCAAGCCCAGCCCTAGCACCCTGTCAGCAGAACTCAACGCCCAGATCGTCACG ggactttgtttctccttgccattgtcaatactttaaatatctttaaacag---------GCCTGTGCCATGAAGGCCTTCCATAACCTGTTCCATGCCAAGCCCAGCCCTAGCACCTTGTCAGCAGAGCTCAATGCCCAGATTGTCGCAgtgagtccagatgttgcaggagggtaggcttcatcactagggtagagtgc Alignment from Exonerate_protein2genome ATGTGCTTGTGACAGCCTGTGCCATGCAGGCCTTCCATAACCTCTTCCATGCCAAGCCCAGCCCTAGCACCCTGTCAGCAGAACTCAACGCCCAGATCGTCACG ggactttgtttctccttgccattgtcaatactttaaATATCTTTAAACAGGCCTGTGCCATGAAGGCCTTCCATAACCTGTTCCATGCCAAGCCCAGCCCTAGCACCTTGTCAGCAGAGCTCAATGCCCAGATTGTCGCAgtgagtccagatgttgcaggagggtaggcttcatcactagggtagagtgc Alignment from Exonerate_coding2genome ATGTGCTTGTGACAGCCTGTGCCATGCAGGCCTTCCATAACCTCTTCCATGCCAAGCCCAGCCCTAGCACCCTGTCAGCAGAACTCAACGCCCAGATCGTCACG ggactttgtttctccttgccattgtcaatactttaaATATCTTTAAACAGGCCTGTGCCATGAAGGCCTTCCATAACCTGTTCCATGCCAAGCCCAGCCCTAGCACCTTGTCAGCAGAGCTCAATGCCCAGATTGTCGCAgtgagtccagatgttgcaggagggtaggcttcatcactagggtagagtgc Alignment from GeneWise GCCTGTGCCATGCAGGCCTTCCATAACCTCTTCCATGCCAAGCCCAGCCCTAGCACCCTGTCAGCAGAACTCAACGCCCAGATCGTCACG ggactttgtttctccttgccattgtcaatactttaaatatctttaaacagGCCTGTGCCATGAAGGCCTTCCATAACCTGTTCCATGCCAAGCCCAGCCCTAGCACCTTGTCAGCAGAGCTCAATGCCCAGATTGTCGCAgtgagtccagatgttgcaggagggtaggcttcatcactagggtagagtgc #### Rrp12_ID8315_8 --> 2 - 0 Original Alignment gtTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG tggggaagcaggagtagtctagaagaagcccatactctcctacctttcaggtTCCAAAGAGGCCACAACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGTTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCT---gtaaacagggctagacacaggaggaaggggaaattagtgagtgagggggg Alignment from CESAR gtTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG tggggaagcaggagtagtctagaagaagcccatactctcctacctttcaggtTCCAAAGAGGCCACAACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGTTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCT---gtaaacagggctagacacaggaggaaggggaaattagtgagtgaggg Alignment from Spaln_aa2Genome GTTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCAT tggggaagcaggagtagtctagaagaagcccatactctcctacctttcagGTTCCAAAGAGGCCACAACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGTTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTgtaaacagggctagacacaggaggaaggggaaattagtgagtgagggggg Alignment from Spaln_nt2Genome GTTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGT------G tggggaagcaggagtagtctagaagaagcccatactctcctacctttcagGTTCCAAAGAGGCCACAACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGTTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTAAACAGGgctagacacaggaggaaggggaaattagtgagtgagggggg Alignment from Pairagon GTTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG--------------------------------- tggggaagcaggagtagtctagaagaagcccatactctcctacctttcagGTTCCAAAGAGGCCACAACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGTTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTAAACAGGGCTAGACACAGGAGGAAGGGGAAATTAgtgagtgagggggg Alignment from Exonerate_protein2genome GTTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG tggggaagcaggagtagtctagaagaagcccatactctcctacctttcagGTTCCAAAGAGGCCACAACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGTTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTAaacagggctagacacaggaggaaggggaaattagtgagtgagggggg Alignment from Exonerate_coding2genome GTTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG tggggaagcaggagtagtctagaagaagcccatactctcctacctttcagGTTCCAAAGAGGCCACAACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGTTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAACCCTGTAaacagggctagacacaggaggaaggggaaattagtgagtgagggggg Alignment from GeneWise GTTCCAAAGAGGCCACCACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGCTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTCATGACCTTGAACCATGTG tggggaagcaggagtagtctagaagaagcccatactctcctacctttcagGTTCCAAAGAGGCCACAACCACGCTGCATATGCTAACACTGCTGAAGGACATGCTGCCCTGTTTCCCGGAAGGCCTGGTGAAGAGCTGCAGTGAGACTCTGCTTCGGGTAATGACCTTGAAC---CCTgtaaacagggctagacacaggaggaaggggaaattagtgagtgagggggg #### Sart1_ID956_19 --> 0 - 2 Original Alignment CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAAT------gc gtaatatgttgggcctgctaccactggtcttgcttttacttgggttacagCTCCTTAAGAAAATGAGCTCCAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCCTATATCGTGCTCAGTGGCAGTGGCAAGAGTATGAATCCCCGAgcgtgagtgtgggtaggagctggaagggtgggtagtaagctgaaggatgggt Alignment from CESAR CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAAT------gc gtaatatgttgggcctgctaccactggtcttgcttttacttgggttacagCTCCTTAAGAAAATGAGCTCCAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCCTATATCGTGCTCAGTGGCAGTGGCAAGAGTATGAATCCCCGAgcgtgagtgtgggtaggagctggaagggtgggtagtaagctgaaggatgggt Alignment from Spaln_aa2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAATGCG----- gtaatatgttgggcctgctaccactggtcttgcttttacttgggttacagCTCCTTAAGAAAATGAGCTCCAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCCTATATCGTGCTCAGTGGCAGTGGCAAGAGTATGAATCCCCGAGCgtgagtgtgggtaggagctggaagggtgggtagtaagctgaaggatgggt Alignment from Spaln_nt2Genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAAT------GC gtaatatgttgggcctgctaccactggtcttgcttttacttgggttacagCTCCTTAAGAAAATGAGCTCCAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCCTATATCGTGCTCAGTGGCAGTGGCAAGAGTATGAATCCCCGAGCgtgagtgtgggtaggagctggaagggtgggtagtaagctgaaggatgggt Alignment from Pairagon CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAAT------GC gtaatatgttgggcctgctaccactggtcttgcttttacttgggttacagCTCCTTAAGAAAATGAGCTCCAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCCTATATCGTGCTCAGTGGCAGTGGCAAGAGTATGAATCCCCGAGCgtgagtgtgggtaggagctggaagggtgggtagtaagctgaaggatgggt Alignment from Exonerate_protein2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAAT gtaatatgttgggcctgctaccactggtcttgcttttacttgggttacagCTCCTTAAGAAAATGAGCTCCAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCCTATATCGTGCTCAGTGGCAGTGGCAAGAGTATGAATccccgagcgtgagtgtgggtaggagctggaagggtgggtagtaagctgaaggatgggt Alignment from Exonerate_coding2genome CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAAT gtaatatgttgggcctgctaccactggtcttgcttttacttgggttacagCTCCTTAAGAAAATGAGCTCCAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCCTATATCGTGCTCAGTGGCAGTGGCAAGAGTATGAATccccgagcgtgagtgtgggtaggagctggaagggtgggtagtaagctgaaggatgggt Alignment from GeneWise CTCCTGAAGAAAATGAGCTCCAGTGACACGCCCCTGGGCACCGTGGCACTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCGTATATCGTGCTCAGTGGCAGTGGCAAGAGCATGAAT gtaatatgttgggcctgctaccactggtcttgcttttacttgggttacagCTCCTTAAGAAAATGAGCTCCAGCGATACACCCCTGGGCACTGTGGCATTGCTCCAGGAGAAGCAGAAGGCCCAGAAGACACCCTATATCGTGCTCAGTGGCAGTGGCAAGAGTATGAATccccgagcgtgagtgtgggtaggagctggaagggtgggtagtaagctgaaggatgggt #### Sart1_ID957_18 --> 0 - 0 Original Alignment GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG ggctgccaggccttttttgctgcctaggcaacatggcccttccctttcag---TTCCGGCAGCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaagtcttgggagggaggtggcagctctgcatttttatgaaatgtaata Alignment from CESAR GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG cccggctgccaggccttttttgctgaggcaacatggcccttccctttcag---TTCCGGCAGCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaagtcttgggagggaggtggcagctctgcatttttatgaaatgtaata Alignment from Spaln_aa2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG ggctgccaggccttttttgctgcctaggcaacatggcccttccctttcag---TTCCGGCAGCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaagtcttgggagggaggtggcagctctgcatttttatgaaatgtaata Alignment from Spaln_nt2Genome GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG ggctgccaggccttttttgctgcctaggcaacatggcccttccctttcag---TTCCGGCAGCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaagtcttgggagggaggtggcagctctgcatttttatgaaatgtaata Alignment from Pairagon GCATTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG ggctgccaggccttttttgctgcctaggcaacatggcccttccctttcag---TTCCGGCAGCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaagtcttgggagggaggtggcagctctgcatttttatgaaatgtaata Alignment from Exonerate_protein2genome TTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG ggctgccaggccttttttgctgcctaggcaacatggcccttccctttcagTTCCGGCAGCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaagtcttgggagggaggtggcagctctgcatttttatgaaatgtaata Alignment from Exonerate_coding2genome TTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG ggctgccaggccttttttgctgcctaggcaacatggcccttccctttcagTTCCGGCAGCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaagtcttgggagggaggtggcagctctgcatttttatgaaatgtaata Alignment from GeneWise TTCCGGCAGCTGTCCCACCGCTTCCACGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGCGGATGAAGAAGCTGGATGAGGAGGCG ggctgccaggccttttttgctgcctaggcaacatggcccttccctttcagTTCCGGCAGCTGTCCCACCGCTTCCATGGAAAGGGCTCAGGCAAGATGAAGACTGAGCGGTGGATGAAGAAGCTGGATGAGGAGGCAgtaagtcttgggagggaggtggcagctctgcatttttatgaaatgtaata #### Sart1_ID961_14 --> 0 - 0 Original Alignment GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tagcaggtagggttgagtctgtccatgagtttacttctttatacttctagGACTTTGAGAGGGATGAGGAGCGCTCAGCCAATGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG---------gtaattactcccaatcttgatgggcatgggtgtggggatccagggtagct Alignment from CESAR GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tagcaggtagggttgagtctgtccatgagtttacttctttatacttctagGACTTTGAGAGGGATGAGGAGCGCTCAGCCAATGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG---------gtaattactcccaatcttgatgggcatgggtgtggggatcc Alignment from Spaln_aa2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG tagcaggtagggttgagtctgtccatgagtttacttctttatacttctagGACTTTGAGAGGGATGAGGAGCGCTCAGCCAATGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGgtaattactcccaatcttgatgggcatgggtgtggggatccagggtagct Alignment from Spaln_nt2Genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG tagcaggtagggttgagtctgtccatgagtttacttctttatacttctagGACTTTGAGAGGGATGAGGAGCGCTCAGCCAATGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGgtaattactcccaatcttgatgggcatgggtgtggggatccagggtagct Alignment from Pairagon GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG tagcaggtagggttgagtctgtccatgagtttacttctttatacttctagGACTTTGAGAGGGATGAGGAGCGCTCAGCCAATGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGgtaattactcccaatcttgatgggcatgggtgtggggatccagggtagct Alignment from Exonerate_protein2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG tagcaggtagggttgagtctgtccatgagtttacttctttatacttctagGACTTTGAGAGGGATGAGGAGCGCTCAGCCAATGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGgtaattactcccaatcttgatgggcatgggtgtggggatccagggtagct Alignment from Exonerate_coding2genome GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAG tagcaggtagggttgagtctgtccatgagtttacttctttatacttctagGACTTTGAGAGGGATGAGGAGCGCTCAGCCAATGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGgtaattactcccaatcttgatgggcatgggtgtggggatccagggtagct Alignment from GeneWise GACTTTGAAAGGGATGAGGAGCGCTCGGCCAACGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAGCAGCATCAGGAT tagcaggtagggttgagtctgtccatgagtttacttctttatacttctagGACTTTGAGAGGGATGAGGAGCGCTCAGCCAATGGTGGCTCTGAATCAGATGGGGAAGAGAACATTGGCTGGAGCACCGTCAACCTGGATGAGGAGAAG---------CAGgtaattactcccaatcttgatgggcatgggtgtggggatccagggtagct #### Sart1_ID962_13 --> 0 - 0 Original Alignment GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ccataaacttggggtctgcccacagaatctctctgatccctctgggctag---CTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCAGAGAGGAAGGGGACCTTAGTGTTCAATGCCACTTCGGAATTCTGCCGTACACTGGGGGAGATCCCCACCTATGGGTTGGCCGGCAACCGTGAGGGGCAGGAAGAGCTCATGgttagtcaagtgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from CESAR GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG accccataaacttggggtctgcccaaatctctctgatccctctgggctag---CTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCAGAGAGGAAGGGGACCTTAGTGTTCAATGCCACTTCGGAATTCTGCCGTACACTGGGGGAGATCCCCACCTATGGGTTGGCCGGCAACCGTGAGGGGCAGGAAGAGCTCATGgttagtcaagtgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Spaln_aa2Genome GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ccataaacttggggtctgcccacagaatctctctgatccctctgggctag---CTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCAGAGAGGAAGGGGACCTTAGTGTTCAATGCCACTTCGGAATTCTGCCGTACACTGGGGGAGATCCCCACCTATGGGTTGGCCGGCAACCGTGAGGGGCAGGAAGAGCTCATGgttagtcaagtgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Spaln_nt2Genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ccataaacttggggtctgcccacagaatctctctgatccctctgggctagCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCAGAGAGGAAGGGGACCTTAGTGTTCAATGCCACTTCGGAATTCTGCCGTACACTGGGGGAGATCCCCACCTATGGGTTGGCCGGCAACCGTGAGGGGCAGGAAGAGCTCATGgttagtcaagtgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Pairagon GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ccataaacttggggtctgcccacagaatctctctgatccctctgggctag---CTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCAGAGAGGAAGGGGACCTTAGTGTTCAATGCCACTTCGGAATTCTGCCGTACACTGGGGGAGATCCCCACCTATGGGTTGGCCGGCAACCGTGAGGGGCAGGAAGAGCTCATGgttagtcaagtgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Exonerate_protein2genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ccataaacttggggtctgcccacagaatctctctgatccctctgggctagCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCAGAGAGGAAGGGGACCTTAGTGTTCAATGCCACTTCGGAATTCTGCCGTACACTGGGGGAGATCCCCACCTATGGGTTGGCCGGCAACCGTGAGGGGCAGGAAGAGCTCATGgttagtcaagtgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from Exonerate_coding2genome CTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ccataaacttggggtctgcccacagaatctctctgatccctctgggctagCTGGAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCAGAGAGGAAGGGGACCTTAGTGTTCAATGCCACTTCGGAATTCTGCCGTACACTGGGGGAGATCCCCACCTATGGGTTGGCCGGCAACCGTGAGGGGCAGGAAGAGCTCATGgttagtcaagtgtttcctggcttttgtccttaggctgctgatttctgctt Alignment from GeneWise GTGCTGGAGATTGTGAAGAAACTGGAGTCTCGCCAGCGCGGCTGGGAGGAGGAGGAGGACCCTGAGAGGAAGGGGACCATCGTGTTCAATGCCACTTCTGAATTCTGCCGCACGCTGGGGGAGATCCCCACCTACGGGTTGGCTGGCAACCGCGAGGAGCAGGAAGAGCTCATG ccataaacttggggtctgcccacagaatctctctgatccctctgggctagCTG---GAGATTGTGAAGAAACTGGAGTCCCGTCAGCGTGGCTGGGAGGAGGAGGAGGACCCAGAGAGGAAGGGGACCTTAGTGTTCAATGCCACTTCGGAATTCTGCCGTACACTGGGGGAGATCCCCACCTATGGGTTGGCCGGCAACCGTGAGGGGCAGGAAGAGCTCATGgttagtcaagtgtttcctggcttttgtccttaggctgctgatttctgctt #### Sart1_ID966_9 --> 0 - 0 Original Alignment CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG aaatctggatttccatagcttctggtctctggctgtccctgtgtttccagCAAAAACCTCGTTCTATTCTGGCCAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAGGGTGGAATGGCTGATGGCCTGAGGGAACAAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCCAGCTCAGTCTCTCAGTTCCATAGGGCCAAGGCTTGCCTCTGAGTACCTCAGTCCTGAA------gtgaggcaggtgcaccactttgtgatggtacaatcagtcaacagctaagc Alignment from CESAR CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATG aaatctggatttccatagcttctggtctctggctgtccctgtgtttccagCAAAAACCTCGTTCTATTCTGGCCAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAGGGTGGAATGGCTGATGGCCTGAGGGAACAAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCCAGCTCAGTCTCTCAGTTCCATAGGGCCAAGGCTTGCCTCTGAGTACCTCAGTCCTGAA------gtgaggcaggtgcaccactttgtgatggtacaatcagtcaacag Alignment from Spaln_aa2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAG aaatctggatttccatagcttctggtctctggctgtccctgtgtttccagCAAAAACCTCGTTCTATTCTGGCCAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAGGGTGGAATGGCTGATGGCCTGAGGGAACAAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCCAGCTCAGTCTCTCAGTTCCATAGGGCCAAGGCTTGCCTCTGAGTACCTCAGTCCTGAAgtgaggcaggtgcaccactttgtgatggtacaatcagtcaacagctaagc Alignment from Spaln_nt2Genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGAT aaatctggatttccatagcttctggtctctggctgtccctgtgtttccagCAAAAACCTCGTTCTATTCTGGCCAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAGGGTGGAATGGCTGATGGCCTGAGGGAACAAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCCAGCTCAGTCTCTCAGTTCCATAGGGCCAAGGCTTGCCTCTGAGTACCTCAGTCCTGAAGTGAGgcaggtgcaccactttgtgatggtacaatcagtcaacagctaagc Alignment from Pairagon CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAG aaatctggatttccatagcttctggtctctggctgtccctgtgtttccagCAAAAACCTCGTTCTATTCTGGCCAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAGGGTGGAATGGCTGATGGCCTGAGGGAACAAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCCAGCTCAGTCTCTCAGTTCCATAGGGCCAAGGCTTGCCTCTGAGTACCTCAGTCCTGAAgtgaggcaggtgcaccactttgtgatggtacaatcagtcaacagctaagc Alignment from Exonerate_protein2genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAG---GAGATG aaatctggatttccatagcttctggtctctggctgtccctgtgtttccagCAAAAACCTCGTTCTATTCTGGCCAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAGGGTGGAATGGCTGATGGCCTGAGGGAACAAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCCAGCTCAGTCTCTCAGTTCCATAGGGCCAAGGCTTGCCTCTGAGTACCTCAGTCCTGAAGTGAGGCAGgtgcaccactttgtgatggtacaatcagtcaacagctaagc Alignment from Exonerate_coding2genome CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAG---GAGATG aaatctggatttccatagcttctggtctctggctgtccctgtgtttccagCAAAAACCTCGTTCTATTCTGGCCAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAGGGTGGAATGGCTGATGGCCTGAGGGAACAAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCCAGCTCAGTCTCTCAGTTCCATAGGGCCAAGGCTTGCCTCTGAGTACCTCAGTCCTGAAGTGAGGCAGgtgcaccactttgtgatggtacaatcagtcaacagctaagc Alignment from GeneWise CAAAAACCTCGTTCTATCCTGGCCAAATATGATGAGGAACTGGAGGGCGAGCGACCACATTCCTTCCGTCTGGAGCAGGGTGGGATGGCCGATGGCCTGAGGGAACGAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCAGGCTCAGTCTCTGAGCTCCGTAGGGCCCCGGCTTGCCTCTGAGTACCTCAGTCCCGAGGAGATGGTG aaatctggatttccatagcttctggtctctggctgtccctgtgtttccagCAAAAACCTCGTTCTATTCTGGCCAAATATGATGAAGAATTAGAGGGTGAGCGACCACATTCCTTCCGTCTTGAGCAGGGTGGAATGGCTGATGGCCTGAGGGAACAAGAGTTAGAAGAAATCCGCACCAAGCTACGGCTGCCAGCTCAGTCTCTCAGTTCCATAGGGCCAAGGCTTGCCTCTGAGTACCTCAGTCCTGAAGTGAGGCAGgtgcaccactttgtgatggtacaatcagtcaacagctaagc #### Sart1_ID968_7 --> 0 - 1 Original Alignment GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAg gggtggcatctggcttttgcatctctactgacgtctgcctggtgtttcag---------AGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACACGCTATTGATTCTTTTCGAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAggtagctggtatctggtaactctgcttaggtctagaatgcaatggagatgt Alignment from CESAR GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAg cccagagttgggtggcatctggctttactgacgtctgcctggtgtttcag---------AGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACACGCTATTGATTCTTTTCGAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAggtagctggtatctggtaactctgcttaggtctagaatgcaatggagatgt Alignment from Spaln_aa2Genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG gggtggcatctggcttttgcatctctactgacgtctgcctggtgtttcag---------AGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACACGCTATTGATTCTTTTCGAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAGgtagctggtatctggtaactctgcttaggtctagaatgcaatggagatgt Alignment from Spaln_nt2Genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG gggtggcatctggcttttgcatctctactgacgtctgcctggtgtttcag---------AGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACACGCTATTGATTCTTTTCGAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAGgtagctggtatctggtaactctgcttaggtctagaatgcaatggagatgt Alignment from Pairagon GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG gggtggcatctggcttttgcatctctactgacgtctgcctggtgtttcag---------AGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACACGCTATTGATTCTTTTCGAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAGgtagctggtatctggtaactctgcttaggtctagaatgcaatggagatgt Alignment from Exonerate_protein2genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG gggtggcatctggcttttgcatctctactgacgtctgcctgGTGTTTCAGAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACACGCTATTGATTCTTTTCGAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAGgtagctggtatctggtaactctgcttaggtctagaatgcaatggagatgt Alignment from Exonerate_coding2genome GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG gggtggcatctggcttttgcatctctactgacgtctgcctgGTGTTTCAGAGTGCCCGAGACCTGCAAGGCCTCACTGTGGAACACGCTATTGATTCTTTTCGAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAGgtagctggtatctggtaactctgcttaggtctagaatgcaatggagatgt Alignment from GeneWise GACCTGTACAGTGCCCGGGACCTGCAAGGCCTCACTGTGGAACATGCCATCGATTCTTTTCGAGAAGGGGAGACTGTGGTCCTCACCCTCAAGGACAAAG gggtggcatctggcttttgcatctctactgacgtctgcctggtgtttcagAGT---------GCCCGAGACCTGCAAGGCCTCACTGTGGAACACGCTATTGATTCTTTTCGAGAAGGGGAGACTGTGGTTCTCACCCTCAAGGACAAAGgtagctggtatctggtaactctgcttaggtctagaatgcaatggagatgt #### Sart1_ID971_4 --> 2 - 2 Original Alignment agGCGGGCACCAAGGAGGAGCCCGTGGCAGCCGATGTTATCAACCCCATGGCCTTGCGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAACGCTTGCTGAACCAAAAATTGgg atgggaagcatagccttgtcctcttccttcttgggacttctctttggcagag------------GAGGAATCTGTTGCAGCCGATGTTATCAACCCCATGGCCTTACGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAATGCTTGCTGAACCAAAAGCTGgggtgagggtttcttagccaagggcagagctggctttcccattcttgtgtag Alignment from CESAR agGCGGGCACCAAGGAGGAGCCCGTGGCAGCCGATGTTATCAACCCCATGGCCTTGCGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAACGCTTGCTGAACCAAAAATTGgg tccccaccagccatgggaagcatagccttcttgggacttctctttggcagag------------GAGGAATCTGTTGCAGCCGATGTTATCAACCCCATGGCCTTACGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAATGCTTGCTGAACCAAAAGCTGgggtgagggtttcttagccaagggcagagctggctttcccattcttgtgtag Alignment from Spaln_aa2Genome AGGCGGGCACCAAGGAGGAGCCCGTGGCAGCCGATGTTATCAACCCCATGGCCTTGCGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAACGCTTGCTGAACCAAAAATTGGG atgggaagcatagccttgtcctcttccttcttgggacttctctttggcagAG------------GAGGAATCTGTTGCAGCCGATGTTATCAACCCCATGGCCTTACGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAATGCTTGCTGAACCAAAAGCTGGGgtgagggtttcttagccaagggcagagctggctttcccattcttgtgtag Alignment from Spaln_nt2Genome AGGAGGAGCCCGTGGCAGCCGATGTTATCAACCCCATGGCCTTGCGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAACGCTTGCTGAACCAAAAATTGGG atgggaagcatagccttgtcctcttccttcttgggacttctctttggcagAGGAGGAATCTGTTGCAGCCGATGTTATCAACCCCATGGCCTTACGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAATGCTTGCTGAACCAAAAGCTGGGgtgagggtttcttagccaagggcagagctggctttcccattcttgtgtag Alignment from Pairagon AGGCGGGCACCAAGGAGGAGCCCGTGGCAGCCGATGTTATCAACCCCATGGCCTTGCGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAACGCTTGCTGAACCAAAAATTGGG atgggaagcatagccttgtcctcttccttcttgggacttctctttggcag------------AGGAGGAATCTGTTGCAGCCGATGTTATCAACCCCATGGCCTTACGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAATGCTTGCTGAACCAAAAGCTGGGgtgagggtttcttagccaagggcagagctggctttcccattcttgtgtag Alignment from Exonerate_protein2genome AGGAGGAGCCCGTGGCAGCCGATGTTATCAACCCCATGGCCTTGCGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAACGCTTGCTGAACCAAAAATTGGG atgggaagcatagccttgtcctcttccttcttgggacttctctttggcagAGGAGGAATCTGTTGCAGCCGATGTTATCAACCCCATGGCCTTACGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAATGCTTGCTGAACCAAAAGCTGGGgtgagggtttcttagccaagggcagagctggctttcccattcttgtgtag Alignment from Exonerate_coding2genome AGGAGGAGCCCGTGGCAGCCGATGTTATCAACCCCATGGCCTTGCGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAACGCTTGCTGAACCAAAAATTGGG atgggaagcatagccttgtcctcttccttcttgggacttctctttggcagAGGAGGAATCTGTTGCAGCCGATGTTATCAACCCCATGGCCTTACGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAATGCTTGCTGAACCAAAAGCTGGGgtgagggtttcttagccaagggcagagctggctttcccattcttgtgtag Alignment from GeneWise AGGCGGGCACCAAGGAGGAGCCCGTGGCAGCCGATGTTATCAACCCCATGGCCTTGCGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAACGCTTGCTGAACCAAAAATTGGG atgggaagcatagccttgtcctcttccttcttgggacttctctttggcagAG------------GAGGAATCTGTTGCAGCCGATGTTATCAACCCCATGGCCTTACGACAGCGGGAAGAACTGCGGGAGAAGCTGGCAGCTGCCAAGGAAAAATGCTTGCTGAACCAAAAGCTGGGgtgagggtttcttagccaagggcagagctggctttcccattcttgtgtag #### Sec31b_ID9028_24 --> 0 - 0 Original Alignment ---------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagcgtcaggagccattattagggtcattctttccttctcgtctttcagAAATCAGATAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTCGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtaactcctctgcgcagggtacctacactcctgcccagtctcagagacat Alignment from CESAR ---------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagcgtcaggagccattattagggtcattctttccttctcgtctttcagAAATCAGATAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTCGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtaactcctctgcgcagggtacctacactcctgcccagtctcagagacat Alignment from Spaln_aa2Genome AAAACAAAAAGG---------AAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagcgtcaggagccattattagggtcattctttccttctcgtctttcagAAATCAGATAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTCGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtaactcctctgcgcagggtacctacactcctgcccagtctcagagacat Alignment from Spaln_nt2Genome A--AAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagcgtcaggagccattattagggtcattctttccttctcgtctttcagaaatcagATAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTCGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtaactcctctgcgcagggtacctacactcctgcccagtctcagagacat Alignment from Pairagon ---------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagcgtcaggagccattattagggtcattctttccttctcgtctttcagAAATCAGATAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTCGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtaactcctctgcgcagggtacctacactcctgcccagtctcagagacat Alignment from Exonerate_protein2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagcgtcaggagccattattagggtcattctttccttctcgtctttcagaaatcagatAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTCGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtaactcctctgcgcagggtacctacactcctgcccagtctcagagacat Alignment from Exonerate_coding2genome AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagcgtcaggagccattattagggtcattctttccttctcgtctttcagaaatcagatAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTCGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtaactcctctgcgcagggtacctacactcctgcccagtctcagagacat Alignment from GeneWise ---------AAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGCCGCCTAGAATGTCTGTATGAGAAGCTTTGCGAGGGGACA ctagcgtcaggagccattattagggtcattctttccttctcgtctttcagAAATCAGATAAAACAAAAAGGAAGCTGGAGGAGGCAGCCCGACACCTCGAATGTCTGTATGAGAAGCTTTGTGAAGGGACAgtaactcctctgcgcagggtacctacactcctgcccagtctcagagacat #### Sec31b_ID9029_23 --> 0 - 0 Original Alignment ---------------------------------------------CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT tagaccttagggaagtcacttccagttctttatatgtactctttactaagGACAACATTTTATCGGCGCTTAAACACCTGTTTCTGTTAGACTTCCAACTCCAGCCATTGCCTCCTGAGAGGACAGAGAAGGAGTTGCCCGCAGAGCATCAGTGTGTCAAGGACAGTTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACTGCAACTGGCCTTgtaagaatgagtcttcccaaacctgcttcctcaagctgcactgttcagag Alignment from CESAR aaagggggaggagactttgggctgagatgatggggttttctagatatacaa Alignment from Spaln_aa2Genome AACTCCAGCCA------CTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT tagaccttagggaagtcacttccagttctttatatgtactctttactaaggacaacattttatcggcgcttaaacacctgtttctgttagACTTCCAACTCCAGCCATTGCCTCCTGAGAGGACAGAGAAGGAGTTGCCCGCAGAGCATCAGTGTGTCAAGGACAGTTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACTGCAACTGGCCTTgtaagaatgagtcttcccaaacctgcttcctcaagctgcactgttcagag Alignment from Spaln_nt2Genome GCAACTCCAG----CCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT tagaccttagggaagtcacttccagttctttatatgtactctttactaaggacaacattttatcggcgcttaaacacctgtttctgttagACTTCCAACTCCAGCCATTGCCTCCTGAGAGGACAGAGAAGGAGTTGCCCGCAGAGCATCAGTGTGTCAAGGACAGTTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACTGCAACTGGCCTTgtaagaatgagtcttcccaaacctgcttcctcaagctgcactgttcagag Alignment from Pairagon -----CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT tagaccttagggaagtcacttccagttctttatatgtactctttactaaggacaacattttatcggcgcttaaacacctgtttctgttagACTTCCAACTCCAGCCATTGCCTCCTGAGAGGACAGAGAAGGAGTTGCCCGCAGAGCATCAGTGTGTCAAGGACAGTTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACTGCAACTGGCCTTgtaagaatgagtcttcccaaacctgcttcctcaagctgcactgttcagag Alignment from Exonerate_protein2genome CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT tagaccttagggaagtcacttccagttctttatatgtactctttactaaggacaacattttatcggcgcttaaacacctgtttctgttagacttcCAACTCCAGCCATTGCCTCCTGAGAGGACAGAGAAGGAGTTGCCCGCAGAGCATCAGTGTGTCAAGGACAGTTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACTGCAACTGGCCTTgtaagaatgagtcttcccaaacctgcttcctcaagctgcactgttcagag Alignment from Exonerate_coding2genome CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT tagaccttagggaagtcacttccagttctttatatgtactctttactaaggacaacattttatcggcgcttaaacacctgtttctgttagacttcCAACTCCAGCCATTGCCTCCTGAGAGGACAGAGAAGGAGTTGCCCGCAGAGCATCAGTGTGTCAAGGACAGTTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACTGCAACTGGCCTTgtaagaatgagtcttcccaaacctgcttcctcaagctgcactgttcagag Alignment from GeneWise -----CAACTCCAGCCACTGCCTCCTGAGAGGACAGAGAAGGAGCTGCCCCCAGAGCATCAGTGCGTGAAGGACAGCTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACCGCCACTGACCTT tagaccttagggaagtcacttccagttctttatatgtactctttactaaggacaacattttatcggcgcttaaacacctgtttctgttagACTTCCAACTCCAGCCATTGCCTCCTGAGAGGACAGAGAAGGAGTTGCCCGCAGAGCATCAGTGTGTCAAGGACAGTTTTGAGGCACTCCTTCAGCGCTGTTCCCTGACTGCAACTGGCCTTgtaagaatgagtcttcccaaacctgcttcctcaagctgcactgttcagag #### Sec31b_ID9030_22 --> 0 - 0 Original Alignment ---------------------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctgtcctgatgtctccttatacagATTCTGTTGACTGAAGGGTTTCTGCCTGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtaactgtgggcccctcccctgatgcgaccgcaccaggacttgggc Alignment from CESAR ---------------------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctgtcctgatgtctccttatacagATTCTGTTGACTGAAGGGTTTCTGCCTGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtaactgtgggcccctcccctgatgcgaccgcaccaggacttgggc Alignment from Spaln_aa2Genome ---------------------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctgtcctgatgtctccttatacagATTCTGTTGACTGAAGGGTTTCTGCCTGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtaactgtgggcccctcccctgatgcgaccgcaccaggacttgggc Alignment from Spaln_nt2Genome CTGCCTGAG-----ACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctgtcctgatgtctccttatacagattctgttgactgaagGGTTTCTGCCTGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtaactgtgggcccctcccctgatgcgaccgcaccaggacttgggc Alignment from Pairagon -----CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctgtcctgatgtctccttatacagattctgttgactgaagGGTTTCTGCCTGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtaactgtgggcccctcccctgatgcgaccgcaccaggacttgggc Alignment from Exonerate_protein2genome -----CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctgtcctgatgtctccttatacagattctgttgactgaagGGTTTCTGCCTGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtaactgtgggcccctcccctgatgcgaccgcaccaggacttgggc Alignment from Exonerate_coding2genome -----CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctgtcctgatgtctccttatacagattctgttgactgaagGGTTTCTGCCTGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtaactgtgggcccctcccctgatgcgaccgcaccaggacttgggc Alignment from GeneWise ---------------------CTGCCTGAGACATTCATGCCTCCAGCACCAATTACAGCTCCGCTTAGGAGCCTTGGCCCTGAGCCACAACAGGCCCTGCTACCTCAGCCCCTAGTCTCCAGTGCGACCCTGCCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAG acctgtggttgtctagatggttgcccctgtcctgatgtctccttatacagATTCTGTTGACTGAAGGGTTTCTGCCTGAGGCATTCATGACTCCAGCACCAATTACAGCTCCACTTAGGAGCCTTGGGCCTGACCCACAACAGGCCCTGCTATCTCAGCCCCTAGTCTCCAGTGCAACCTTACCTCCTCCTGGAGCCCCAAGAGAATGCAGCCTGCAAgtgagtaactgtgggcccctcccctgatgcgaccgcaccaggacttgggc #### Sema4g_ID9244_2 --> 2 - 0 Original Alignment ag------------------CTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG tgggcatagaaagtattccccagctggccatgtctctgtctcgatctcagagTTCTCTCGCTCCTCTACCGTGTCCCAGGTACGACACTTCAAGGGTCAAGCCCAAAACTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCACGTGACATCAGAGAGAGGACTCATAAAGAGgtatgtcactggtgtttggtctggcaggatctccagcttgatggggccat Alignment from CESAR agCTC------------------TCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG tgggcatagaaagtattccccagctggccatgtctctgtctcgatctcagagTTCTCTCGCTCCTCTACCGTGTCCCAGGTACGACACTTCAAGGGTCAAGCCCAAAACTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCACGTGACATCAGAGAGAGGACTCATAAAGAGgtatgtcactggtgtttggtctggcaggatctccagcttgatggggccat Alignment from Spaln_aa2Genome ATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG tgggcatagaaagtattccccagctggccatgtctctgtctcgatctcagagttctctcgctcctctaccgtgtcccagGTACGACACTTCAAGGGTCAAGCCCAAAACTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCACGTGACATCAGAGAGAGGACTCATAAAGAGgtatgtcactggtgtttggtctggcaggatctccagcttgatggggccat Alignment from Spaln_nt2Genome TCTCCC-AGA-- -TTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG TGGGCATAGAAAgtattccccagctggccatgtctctgtctcgatctcagagttctctcgctcctctaccgtgtcccagGTACGACACTTCAAGGGTCAAGCCCAAAACTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCACGTGACATCAGAGAGAGGACTCATAAAGAGgtatgtcactggtgtttggtctggcaggatctccagcttgatggggccat Alignment from Pairagon AGCTC------------------TCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG tgggcatagaaagtattccccagctggccatgtctctgtctcgatctcagAGTTCTCTCGCTCCTCTACCGTGTCCCAGGTACGACACTTCAAGGGTCAAGCCCAAAACTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCACGTGACATCAGAGAGAGGACTCATAAAGAGgtatgtcactggtgtttggtctggcaggatctccagcttgatggggccat Alignment from Exonerate_protein2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG tgggcatagaaagtattccccagctggccatgtctctgtctcgatctcagagttctctcgctcctctaCCGTGTCCCAGGTACGACACTTCAAGGGTCAAGCCCAAAACTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCACGTGACATCAGAGAGAGGACTCATAAAGAGgtatgtcactggtgtttggtctggcaggatctccagcttgatggggccat Alignment from Exonerate_coding2genome AGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG tgggcatagaaagtattccccagctggccatgtctctgtctcgatctcagagttctctcgctcctctaCCGTGTCCCAGGTACGACACTTCAAGGGTCAAGCCCAAAACTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCACGTGACATCAGAGAGAGGACTCATAAAGAGgtatgtcactggtgtttggtctggcaggatctccagcttgatggggccat Alignment from GeneWise -----------------GAGCTCTCCCAGATTCGGCACTTCAAGGGCCAAACCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCTGAGAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCTCTCAGTGCCCGTGACATAAGAGATAGGACTCACAAAGAG tgggcatagaaagtattccccagctggccatgtctctgtctcgatctcagAGTTCTCTCGCTCCTCTACCGTGTCCCAGGTACGACACTTCAAGGGTCAAGCCCAAAACTATTCAACCCTGCTGCTGGAGGAGGCTTCTGAAAGGCTGCTGGTGGGGGCTCGAGGCGCCCTGTTCTCCCTCAGTGCACGTGACATCAGAGAGAGGACTCATAAAGAGgtatgtcactggtgtttggtctggcaggatctccagcttgatggggccat #### Sema4g_ID9247_5 --> 0 - 1 Original Alignment GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg ccctcgccggtcctcagtaccatcgactcctcttttccctcctcctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGC---------ggtagaaacatggctgcacgccccgtctgcaaccaggcccccagtcccacg Alignment from CESAR GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTg ccctcgccggtcctcagtaccatcgactcctcttttccctcctcctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGC---------ggtagaaacatggctgcacgccccgtctgcaaccaggcccccagtcccacg Alignment from Spaln_aa2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGC- ccctcgccggtcctcagtaccatcgactcctcttttccctcctcctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCGgtagaaacatggctgcacgccccgtctgcaaccaggcccccagtcccacg Alignment from Spaln_nt2Genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGC- ccctcgccggtcctcagtaccatcgactcctcttttccctcctcctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCGgtagaaacatggctgcacgccccgtctgcaaccaggcccccagtcccacg Alignment from Pairagon GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCCTTATCATTG ccctcgccggtcctcagtaccatcgactcctcttttccctcctcctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGC---------Ggtagaaacatggctgcacgccccgtctgcaaccaggcccccagtcccacg Alignment from Exonerate_protein2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGC ccctcgccggtcctcagtaccatcgactcctcttttccctcctcctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCggtagaaacatggctgcacgccccgtctgcaaccaggcccccagtcccacg Alignment from Exonerate_coding2genome GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGC ccctcgccggtcctcagtaccatcgactcctcttttccctcctcctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCggtagaaacatggctgcacgccccgtctgcaaccaggcccccagtcccacg Alignment from GeneWise GATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAGGAGAAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCC ccctcgccggtcctcagtaccatcgactcctcttttccctcctcctccagGATGCTGAAACCTTCATCTTGCCTACTAGTTTCGAGGAGGGAAAAGAGGAATGTCCTTATGACCCGGCCCGGGGCTTCACAGGCGgtagaaacatggctgcacgccccgtctgcaaccaggcccccagtcccacg #### Sema4g_ID9250_8 --> 0 - 2 Original Alignment GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg ttcctgcgtatgtatgtccttgacctgattctcgtcctccctcacctcag------------------------------AAGAAGTGGACATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTAAATGCCGACACATCATCCCACACACATTTCTATGCCGTCTTTATGCTGACAACACAGtggtaagtacaggagacgtgagcacagatgttgggggaagggaaaggaacag Alignment from CESAR GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGtg aaaaggaaaggccagacctctgacctgattctcgtcctccctcacctcag------------------------------AAGAAGTGGACATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTAAATGCCGACACATCATCCCACACACATTTCTATGCCGTCTTTATGCTGACAACACAGtggtaagtacaggagacgtgagcacagatgttgggggaagggaaaggaacag Alignment from Spaln_aa2Genome AAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttcctgcgtatgtatgtccttgacctgattctcgtcctccctcacctcagAAGAAGTGGACATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTAAATGCCGACACATCATCCCACACACATTTCTATGCCGTCTTTATGCTGACAACACAGTGgtaagtacaggagacgtgagcacagatgttgggggaagggaaaggaacag Alignment from Spaln_nt2Genome ATCCTAC AGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG TTCCTGCgtatgtatgtccttgacctgattctcgtcctccctcacctcag--AAGAAGTGGACATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTAAATGCCGACACATCATCCCACACACATTTCTATGCCGTCTTTATGCTGACAACACAGTGgtaagtacaggagacgtgagcacagatgttgggggaagggaaaggaacag Alignment from Pairagon GGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttcctgcgtatgtatgtccttgacctgattctcgtcctccctcacctcag------------------------------AAGAAGTGGACATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTAAATGCCGACACATCATCCCACACACATTTCTATGCCGTCTTTATGCTGACAACACAGTGgtaagtacaggagacgtgagcacagatgttgggggaagggaaaggaacag Alignment from Exonerate_protein2genome GTGTGCAAGGGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttcctgcgtatGTATGTCCTTGACCTGATTCTCGTCCTCCCTCACCTCAGAAGAAGTGGACATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTAAATGCCGACACATCATCCCACACACATTTCTATGCCGTCTTTATGCTGACAACACAGTGgtaagtacaggagacgtgagcacagatgttgggggaagggaaaggaacag Alignment from Exonerate_coding2genome GTGTGCAAGGGAGATCTGGGAGGGAAGAAGATCCTACAGAAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG ttcctgcgtatGTATGTCCTTGACCTGATTCTCGTCCTCCCTCACCTCAGAAGAAGTGGACATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTAAATGCCGACACATCATCCCACACACATTTCTATGCCGTCTTTATGCTGACAACACAGTGgtaagtacaggagacgtgagcacagatgttgggggaagggaaaggaacag Alignment from GeneWise AGATCCTACAG AAGAAGTGGACATCCTTCCTGAAGGCTCGTCTCATCTGCCACATCCCACAGTATGAGACACTACGTGGGGTCTGCAGCCTGAATGCTGATACATCATCCCACACACATTTCTATGCCGTCTTCACACTGACAACACAGTG TTCCTGCGTATgtatgtccttgacctgattctcgtcctccctcacctcagAAGAAGTGGACATCCTTCCTGAAGGCTCGACTCATCTGCCATGTCCCACAGTATGAGACACTACGTGGAGTCTGCAGTCTAAATGCCGACACATCATCCCACACACATTTCTATGCCGTCTTTATGCTGACAACACAGTGgtaagtacaggagacgtgagcacagatgttgggggaagggaaaggaacag #### Sema4g_ID9254_12 --> 0 - 2 Original Alignment ---CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag ggaggctgggggtgagatagggcttgcttgtgctttttttgtttttgaagAGCCACAGCCTCTACGTGGGGGCTGCAAGTGGAATTCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACCGTAGCCAACaggtatgagggtgctggatgagggacagggtagagaggtgcctcaagtggag Alignment from CESAR ---CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACag ggaggctgggggtgagatagggcttgcttgtgctttttttgtttttgaagAGCCACAGCCTCTACGTGGGGGCTGCAAGTGGAATTCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACCGTAGCCAACaggtatgagggtgctggatgagggacagggtagagaggtgcctcaagtggag Alignment from Spaln_aa2Genome CACAGCCTCTACGTGGGG---GCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG ggaggctgggggtgagatagggcttgcttgtgctttttttgtttttgaagAGCCACAGCCTCTACGTGGGGGCTGCAAGTGGAATTCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACCGTAGCCAACAGgtatgagggtgctggatgagggacagggtagagaggtgcctcaagtggag Alignment from Spaln_nt2Genome CACAGCCTC---TACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG ggaggctgggggtgagatagggcttgcttgtgctttttttgtttttgaagAGCCACAGCCTCTACGTGGGGGCTGCAAGTGGAATTCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACCGTAGCCAACAGgtatgagggtgctggatgagggacagggtagagaggtgcctcaagtggag Alignment from Pairagon ---CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG ggaggctgggggtgagatagggcttgcttgtgctttttttgtttttgaagAGCCACAGCCTCTACGTGGGGGCTGCAAGTGGAATTCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACCGTAGCCAACAGgtatgagggtgctggatgagggacagggtagagaggtgcctcaagtggag Alignment from Exonerate_protein2genome ---CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG ggaggctgggggtgagatagggcttgcttgtgctttttttgtttttgaagAGCCACAGCCTCTACGTGGGGGCTGCAAGTGGAATTCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACCGTAGCCAACAGgtatgagggtgctggatgagggacagggtagagaggtgcctcaagtggag Alignment from Exonerate_coding2genome ---CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG ggaggctgggggtgagatagggcttgcttgtgctttttttgtttttgaagAGCCACAGCCTCTACGTGGGGGCTGCAAGTGGAATTCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACCGTAGCCAACAGgtatgagggtgctggatgagggacagggtagagaggtgcctcaagtggag Alignment from GeneWise ---CACAGCCTCTACGTGGGGGCTGCAAGTGGAGTCCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTGGCACGGGACCCCTACTGTGGCTGGGACTCCAGCATCCATGCCTGCATGGTGGCCACCACCGTAGCCAACAG ggaggctgggggtgagatagggcttgcttgtgctttttttgtttttgaagAGCCACAGCCTCTACGTGGGGGCTGCAAGTGGAATTCTCCAGTTTCCTCTGTCCAGCTGCTCACGCTACCAGTCCTGCTATGACTGCATCCTAGCACGAGACCCCTACTGTGGCTGGGACTCCAGCATCCATGTGTGCATGGTGGCCACCACCGTAGCCAACAGgtatgagggtgctggatgagggacagggtagagaggtgcctcaagtggag #### Sf1_ID1664_5 --> 1 - 2 Original Alignment g---CCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCag tatgcatgtaaccttccaaaaatagatgatgacctaaatgtgctttatagaCCACCTCCAGCAACACGTGTGAGTGATAAAGTGATGATACCACAATATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCaggtaagaaattagtagtctatggcacccaggttttaattgtagttgaagct Alignment from CESAR g---CCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCag tatgcatgtaaccttccaaaaatagatgatgacctaaatgtgctttatagaCCACCTCCAGCAACACGTGTGAGTGATAAAGTGATGATACCACAATATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCaggtaagaaattagtagtctatggcacccaggttttaattgtagttgaagct Alignment from Spaln_aa2Genome GCCTCCAGCAACA---CGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG tatgcatgtaaccttccaaaaatagatgatgacctaaatgtgctttatagACCACCTCCAGCAACACGTGTGAGTGATAAAGTGATGATACCACAATATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCAGgtaagaaattagtagtctatggcacccaggttttaattgtagttgaagct Alignment from Spaln_nt2Genome GCCTCCAGCA---ACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG tatgcatgtaaccttccaaaaatagatgatgacctaaatgtgctttatagACCACCTCCAGCAACACGTGTGAGTGATAAAGTGATGATACCACAATATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCAGgtaagaaattagtagtctatggcacccaggttttaattgtagttgaagct Alignment from Pairagon ---GCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG tatgcatgtaaccttccaaaaatagatgatgacctaaatgtgctttatagACCACCTCCAGCAACACGTGTGAGTGATAAAGTGATGATACCACAATATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCAGgtaagaaattagtagtctatggcacccaggttttaattgtagttgaagct Alignment from Exonerate_protein2genome G---CCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG tatgcatgtaaccttccaaaaatagatgatgacctaaatgtgctttatagACCACCTCCAGCAACACGTGTGAGTGATAAAGTGATGATACCACAATATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCAGgtaagaaattagtagtctatggcacccaggttttaattgtagttgaagct Alignment from Exonerate_coding2genome G---CCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG tatgcatgtaaccttccaaaaatagatgatgacctaaatgtgctttatagACCACCTCCAGCAACACGTGTGAGTGATAAAGTGATGATACCACAATATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCAGgtaagaaattagtagtctatggcacccaggttttaattgtagttgaagct Alignment from GeneWise -AAGCCTCCAGCAACACGTGTGAGCGATAAAGTAATGATCCCCCAAGACGAATATCCAGAAATCAATTTTGTGGGGCTCCTAATTGGACCCAG tatgcatgtaaccttccaaaaatagatgatgacctaaatgtgctttatagACCACCTCCAGCAACACGTGTGAGTGATAAAGTGATGATACCACAATATGAATATCCAGAAATCAATTTTGTGGGCCTCCTAATTGGACCCAGgtaagaaattagtagtctatggcacccaggttttaattgtagttgaagct #### Sf1_ID1666_7 --> 0 - 2 Original Alignment ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag caaactggcctgaagttctttgacaagtctgttgtcacttttctctttagATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCGGAAGACCAGAATGATCTACAGAAAATGCAGCTTCGAGAGTTGGCTCGCCTGAATGGCACTCTACGGGAAGAT------cggtgagcttctcaggaatgttgagaaaaatgcatagaaaatttgaattttg Alignment from CESAR ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATag caaactggcctgaagttctttgacaagtctgttgtcacttttctctttagATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCGGAAGACCAGAATGATCTACAGAAAATGCAGCTTCGAGAGTTGGCTCGCCTGAATGGCACTCTACGGGAAGAT------cggtgagcttctcaggaatgttgagaaaaatgcatagaaaatttgaattttg Alignment from Spaln_aa2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGA caaactggcctgaagttctttgacaagtctgttgtcacttttctctttagATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCGGAAGACCAGAATGATCTACAGAAAATGCAGCTTCGAGAGTTGGCTCGCCTGAATGGCACTCTACGGGAAGATCGgtgagcttctcaggaatgttgagaaaaatgcatagaaaatttgaattttg Alignment from Spaln_nt2Genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG caaactggcctgaagttctttgacaagtctgttgtcacttttctctttagATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCGGAAGACCAGAATGATCTACAGAAAATGCAGCTTCGAGAGTTGGCTCGCCTGAATGGCACTCTACGGGAAG------ATCGgtgagcttctcaggaatgttgagaaaaatgcatagaaaatttgaattttg Alignment from Pairagon ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG caaactggcctgaagttctttgacaagtctgttgtcacttttctctttagATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCGGAAGACCAGAATGATCTACAGAAAATGCAGCTTCGAGAGTTGGCTCGCCTGAATGGCACTCTACGGGAAG------ATCGgtgagcttctcaggaatgttgagaaaaatgcatagaaaatttgaattttg Alignment from Exonerate_protein2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG caaactggcctgaagttctttgacaagtctgttgtcacttttctctttagATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCGGAAGACCAGAATGATCTACAGAAAATGCAGCTTCGAGAGTTGGCTCGCCTGAATGGCACTCTACGGGAAGAT------CGgtgagcttctcaggaatgttgagaaaaatgcatagaaaatttgaattttg Alignment from Exonerate_coding2genome ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGATAATAG caaactggcctgaagttctttgacaagtctgttgtcacttttctctttagATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCGGAAGACCAGAATGATCTACAGAAAATGCAGCTTCGAGAGTTGGCTCGCCTGAATGGCACTCTACGGGAAGAT------CGgtgagcttctcaggaatgttgagaaaaatgcatagaaaatttgaattttg Alignment from GeneWise ATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCAGAGGACCAGAACGATCTACGGAAAATGCAGCTTCGAGAGTTGGCTCGCTTGAATGGCACTCTACGGGAAGATGA caaactggcctgaagttctttgacaagtctgttgtcacttttctctttagATCAGAAACATCCTGAAGCAGGGTATTGAGACCCCGGAAGACCAGAATGATCTACAGAAAATGCAGCTTCGAGAGTTGGCTCGCCTGAATGGCACTCTACGGGAAGATCGgtgagcttctcaggaatgttgagaaaaatgcatagaaaatttgaattttg #### Sf1_ID1669_10 --> 0 - 1 Original Alignment TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg tgtctgtgggggcaccagtgtggacattgacttcttggtctgctctgtagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTGACAGGCGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCA---------------------------------ggtaagaaagggttagaccaaaaaacccatggggcgtgcactagggtaaaa Alignment from CESAR TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGg tgtctgtgggggcaccagtgtggacattgacttcttggtctgctctgtagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTGACAGGCGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGC------------------------------CCA---ggtaagaaagggttagaccaaaaaacccatggggcgtgcactagggtaaaa Alignment from Spaln_aa2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGG---CACCATGGCCCTCCTCCAATGG tgtctgtgggggcaccagtgtggacattgacttcttggtctgctctgtagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTGACAGGCGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCAGGTAAGAAAGGGTTAGACCAAAAAACCCATGGGGCGTgcactagggtaaaa Alignment from Spaln_nt2Genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCC tgtctgtgggggcaccagtgtggacattgacttcttggtctgctctgtagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTGACAGGCGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCAGgtaagaaagggttagaccaaaaaacccatggggcgtgcactagggtaaaa Alignment from Pairagon TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCCACCCACCTGGGCACCATGGCCCTCCTCCAATGG tgtctgtgggggcaccagtgtggacattgacttcttggtctgctctgtagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTGACAGGCGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCC---------------------------------AGgtaagaaagggttagaccaaaaaacccatggggcgtgcactagggtaaaa Alignment from Exonerate_protein2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCC tgtctgtgggggcaccagtgtggacattgacttcttggtctgctctgtagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTGACAGGCGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCAGgtaagaaagggttagaccaaaaaacccatggggcgtgcactagggtaaaa Alignment from Exonerate_coding2genome TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCC tgtctgtgggggcaccagtgtggacattgacttcttggtctgctctgtagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTGACAGGCGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCAGgtaagaaagggttagaccaaaaaacccatggggcgtgcactagggtaaaa Alignment from GeneWise TCTCTCATGTCTACAACTCAGAGCCGCCCACCCTGGATGAATTCTGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGCCTGACAGGTGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCGATGAACCAGGGCCCCC tgtctgtgggggcaccagtgtggacattgacttcttggtctgctctgtagTCTCTCATGTCTACGACTCAGAGCCGCCCACCCTGGATGAATTCCGGTCCTTCAGAGAATCGGCCCTACCATGGCATGCATGGAGGTGGTCCTGGTGGTCCTGGAGGTGGCCCCCACAGCTTCCCACACCCATTACCCAGTCTGACAGGCGGGCATGGTGGGCATCCCATGCAGCACAACCCAAATGGACCACCACCACCTTGGATGCAGCCACCACCACCACCAATGAACCAAGGCCCAGgtaagaaagggttagaccaaaaaacccatggggcgtgcactagggtaaaa #### Sf1_ID1670_11 --> 2 - 1 Original Alignment at------CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg gggccagttcaaatgtcctactaatttccttgataacttgttctcctcagatGACCTTCAGTATCTGGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAggtaaggccacttactttcttgggatgtctgtctggactgggagcaaatgg Alignment from CESAR at------CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAg gggccagttcaaatgtcctactaatttccttgataacttgttctcctcagatGACCTTCAGTATCTGGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAggtaaggccacttactttcttgggatgtctgtctggactgggagcaaatgg Alignment from Spaln_aa2Genome AT------CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG gggccagttcaaatgtcctactaatttccttgataacttgttctcctcagATGACCTTCAGTATCTGGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaaggccacttactttcttgggatgtctgtctggactgggagcaaatgg Alignment from Spaln_nt2Genome ATCAGTACCTGG------GAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG gggccagttcaaatgtcctactaatttccttgataacttgttctcctcagATGACCTTCAGTATCTGGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaaggccacttactttcttgggatgtctgtctggactgggagcaaatgg Alignment from Pairagon A------TCAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG gggccagttcaaatgtcctactaatttccttgataacttgttctcctcagATGACCTTCAGTATCTGGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaaggccacttactttcttgggatgtctgtctggactgggagcaaatgg Alignment from Exonerate_protein2genome AT------CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG gggccagttcaaatgtcctactaatttccttgataacttgttctcctcagATGACCTTCAGTATCTGGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaaggccacttactttcttgggatgtctgtctggactgggagcaaatgg Alignment from Exonerate_coding2genome AT------CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG gggccagttcaaatgtcctactaatttccttgataacttgttctcctcagATGACCTTCAGTATCTGGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaaggccacttactttcttgggatgtctgtctggactgggagcaaatgg Alignment from GeneWise --GAT---CAGTACCTGGGAAGTACGCCTGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAG gggccagttcaaatgtcctactaatttccttgataacttgttctcctcagATGACCTTCAGTATCTGGGAAGTACGCCAGTGGGCTCTGGGGTCTATCGCCTGCATCAAGGAAAAGgtaaggccacttactttcttgggatgtctgtctggactgggagcaaatgg #### Sf3b2_ID910_8 --> 2 - 0 Original Alignment agGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG atgaagtttttacagttaggagagttggctatgttctgtgttttcaacagagAAGGAGGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCCGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAA------gtgagcggttttgtctagtaggagcatgccacttttctgtgagtttcttg Alignment from CESAR agGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAAAAAGAG atgaagtttttacagttaggagagttggctatgttctgtgttttcaacagagAAGGAGGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCCGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAA------gtgagcggttttgtctagtaggagcatgccacttttctgtgagt Alignment from Spaln_aa2Genome CAGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA aagtttttacagttaggagagttggctatgttctgtgttttcaaca gAGAAGGAGGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCCGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAgtgagcggttttgtctagtaggagcatgccacttttctgtgagtttcttg Alignment from Spaln_nt2Genome AGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA atgaagtttttacagttaggagagttggctatgttctgtgttttcaacagAGAAGGAGGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCCGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAgtgagcggttttgtctagtaggagcatgccacttttctgtgagtttcttg Alignment from Pairagon AGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA atgaagtttttacagttaggagagttggctatgttctgtgttttcaacagAGAAGGAGGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCCGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAgtgagcggttttgtctagtaggagcatgccacttttctgtgagtttcttg Alignment from Exonerate_protein2genome AGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA atgaagtttttacagttaggagagttggctatgttctgtgttttcaaCAGAGAAGGAGGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCCGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAgtgagcggttttgtctagtaggagcatgccacttttctgtgagtttcttg Alignment from Exonerate_coding2genome AGGAGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA atgaagtttttacagttaggagagttggctatgttctgtgttttcaaCAGAGAAGGAGGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCCGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAgtgagcggttttgtctagtaggagcatgccacttttctgtgagtttcttg Alignment from GeneWise AGGAGGAGGAAATGGAGACAGATACTCGCTCATCTCTGGGACAGTCAGCATCAGAGACTGAGGAGGACACGGTGTCCATATCCAAA atgaagtttttacagttaggagagttggctatgttctgtgttttcaacagAGAAGGAGGAAATGGAGACAGTTACTCGCTCATCTCTAGGACAGTCCGCATCAGAGACTGAGGAGGACACAGTGTCCATATCCAAAgtgagcggttttgtctagtaggagcatgccacttttctgtgagtttcttg #### Sfxn2_ID9969_7 --> 0 - 1 Original Alignment AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG------a cctggacatttgaaaagtgatccctgacgaacctgtttctggcattttagAGAGCGGCAACTGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGGCATGTCTGGGagtgagttggatggagaacacctcatacagatccttgaatacctagttgca Alignment from CESAR AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG------a cctggacatttgaaaagtgatccctgacgaacctgtttctggcattttagAGAGCGGCAACTGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGGCATGTCTGGGagtgagttggatggagaacacctcatacagatccttgaatacctagttgca Alignment from Spaln_aa2Genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG------A cctggacatttgaaaagtgatccctgacgaacctgtttctggcattttagAGAGCGGCAACTGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGGCATGTCTGGGAgtgagttggatggagaacacctcatacagatccttgaatacctagttgca Alignment from Spaln_nt2Genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG------A cctggacatttgaaaagtgatccctgacgaacctgtttctggcattttagAGAGCGGCAACTGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGGCATGTCTGGGAgtgagttggatggagaacacctcatacagatccttgaatacctagttgca Alignment from Pairagon AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCAT------GA cctggacatttgaaaagtgatccctgacgaacctgtttctggcattttagAGAGCGGCAACTGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGGCATGTCTGGGAgtgagttggatggagaacacctcatacagatccttgaatacctagttgca Alignment from Exonerate_protein2genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGA cctggacatttgaaaagtgatccctgacgaacctgtttctggcattttagAGAGCGGCAACTGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGGCATGTctgggagtgagttggatggagaacacctcatacagatccttgaatacctagttgca Alignment from Exonerate_coding2genome AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATGA cctggacatttgaaaagtgatccctgacgaacctgtttctggcattttagAGAGCGGCAACTGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGGCATGTctgggagtgagttggatggagaacacctcatacagatccttgaatacctagttgca Alignment from GeneWise AGAGCTGCGGCTGTGGGCATCGCACAAGTGGTTATCTCTCGGATCACCATGGCAGCCCCTGGCATG------A cctggacatttgaaaagtgatccctgacgaacctgtttctggcattttagAGAGCGGCAACTGTGGGCATCGCACAAGTGGTCATCTCTCGGATCACAATGGCAGCCCCTGGCATGTCTGGGAgtgagttggatggagaacacctcatacagatccttgaatacctagttgca #### Sfxn2_ID9970_8 --> 2 - 0 Original Alignment tcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--------- gcagtgaacttggactttccgccttgtctattgattgtcttcccacacagccCTGTTGCCTGTCATTATGGAGAGGCTAGAGAGACTACATCTGATGAAGGAATCGGAAgtcagtcgttctccctgtaattcccccacactcccgctgcatgctgacat Alignment from CESAR tcCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--------- gcagtgaacttggactttccgccttgtctattgattgtcttcccacacagccCTGTTGCCTGTCATTATGGAGAGGCTAGAGAGACTACATCTGATGAAGGAATCGGAAgtcagtcgttctccctgtaattcccccacactcccgctgcatgctgacat Alignment from Spaln_aa2Genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--------- gcagtgaacttggactttccgccttgtctattgattgtcttcccacacagCCCTGTTGCCTGTCATTATGGAGAGGCTAGAGAGACTACATCTGATGAAGGAATCGGAAgtcagtcgttctccctgtaattcccccacactcccgctgcatgctgacat Alignment from Spaln_nt2Genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--------- gcagtgaacttggactttccgccttgtctattgattgtcttcccacacagCCCTGTTGCCTGTCATTATGGAGAGGCTAGAGAGACTACATCTGATGAAGGAATCGGAAgtcagtcgttctccctgtaattcccccacactcccgctgcatgctgacat Alignment from Pairagon TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--------- gcagtgaacttggactttccgccttgtctattgattgtcttcccacacagCCCTGTTGCCTGTCATTATGGAGAGGCTAGAGAGACTACATCTGATGAAGGAATCGGAAgtcagtcgttctccctgtaattcccccacactcccgctgcatgctgacat Alignment from Exonerate_protein2genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG gcagtgaacttggactttccgccttgtctattgattgtcttcccacacagCCCTGTTGCCTGTCATTATGGAGAGGCTAGAGAGACTACATCTGATGAAGgaatcggaagtcagtcgttctccctgtaattcccccacactcccgctgcatgctgacat Alignment from Exonerate_coding2genome TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG gcagtgaacttggactttccgccttgtctattgattgtcttcccacacagCCCTGTTGCCTGTCATTATGGAGAGGCTAGAGAGACTACATCTGATGAAGgaatcggaagtcagtcgttctccctgtaattcccccacactcccgctgcatgctgacat Alignment from GeneWise TCCTGTTGCCTGTCATCATGGAGAGGCTGGAGAGACTACACCTGATGAAG--------- gcagtgaacttggactttccgccttgtctattgattgtcttcccacacagCCCTGTTGCCTGTCATTATGGAGAGGCTAGAGAGACTACATCTGATGAAGGAATCGGAAgtcagtcgttctccctgtaattcccccacactcccgctgcatgctgacat #### Sfxn3_ID9286_4 --> 1 - 0 Original Alignment gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG aaactcaggctggacacacctctcctggtgtctggcttgtgttttaacaggCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCT---------gtttgatctcatagcgtaccctaccactattggcctctcctggattcttt Alignment from CESAR gCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG aaactcaggctggacacacctctcctggtgtctggcttgtgttttaacaggCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCT---------gtttgatctcatagcgtaccctaccactattggcctctcct Alignment from Spaln_aa2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCT aaactcaggctggacacacctctcctggtgtctggcttgtgttttaacagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTgtttgatctcatagcgtaccctaccactattggcctctcctggattcttt Alignment from Spaln_nt2Genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCT-----CACCAAGC aaactcaggctggacacacctctcctggtgtctggcttgtgttttaacagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTGTTTGATCTCATAGCgtaccctaccactattggcctctcctggattcttt Alignment from Pairagon GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCT aaactcaggctggacacacctctcctggtgtctggcttgtgttttaacagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAGTCTgtttgatctcatagcgtaccctaccactattggcctctcctggattcttt Alignment from Exonerate_protein2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAA aaactcaggctggacacacctctcctggtgtctggcttgtgttttaacagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAgtctgtttgatctcatagcgtaccctaccactattggcctctcctggattcttt Alignment from Exonerate_coding2genome GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAA aaactcaggctggacacacctctcctggtgtctggcttgtgttttaacagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAgtctgtttgatctcatagcgtaccctaccactattggcctctcctggattcttt Alignment from GeneWise GCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGGGCTGTGGCTACTGCTCTGGGACTCAAGTCTCTCACCAAG aaactcaggctggacacacctctcctggtgtctggcttgtgttttaacagGCAGTTGGGGACAGCCTATGTGAGTGCCACCACTGGAGCTGTGGCTACTGCTCTGGGACTAAAG---------TCTgtttgatctcatagcgtaccctaccactattggcctctcctggattcttt #### Sfxn3_ID9291_9 --> 1 - 2 Original Alignment cTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAag gggattcaaaaatcggtgtcacagacattatttcagctgtgcttctacagcTTGGTATTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAG---aggttggtagcgataccactcaacttgatttgaatctctgcctaggactctg Alignment from CESAR cTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAag gggattcaaaaatcggtgtcacagacattatttcagctgtgcttctacagcTTGGTATTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAG---aggttggtagcgataccactcaacttgatttgaatctctgcctaggactctg Alignment from Spaln_aa2Genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAG gggattcaaaaatcggtgtcacagacattatttcagctgtgcttctacagCTTGGTATTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGgttggtagcgataccactcaacttgatttgaatctctgcctaggactctg Alignment from Spaln_nt2Genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAGAA-G gggattcaaaaatcggtgtcacagacattatttcagctgtgcttctacagCTTGGTATTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGGTTGgtagcgataccactcaacttgatttgaatctctgcctaggactctg Alignment from Pairagon CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAG gggattcaaaaatcggtgtcacagacattatttcagctgtgcttctacagCTTGGTATTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGgttggtagcgataccactcaacttgatttgaatctctgcctaggactctg Alignment from Exonerate_protein2genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAG gggattcaaaaatcggtgtcacagacattatttcagctgtgcttctacagCTTGGTATTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGgttggtagcgataccactcaacttgatttgaatctctgcctaggactctg Alignment from Exonerate_coding2genome CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAG gggattcaaaaatcggtgtcacagacattatttcagctgtgcttctacagCTTGGTATTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGgttggtagcgataccactcaacttgatttgaatctctgcctaggactctg Alignment from GeneWise CTTGGTATTTGCCACACCCCTGTGCTGCGCTCTGTTCCCTCAGAG gggattcaaaaatcggtgtcacagacattatttcagctgtgcttctacagCTTGGTATTTGCCACACCCCTGTGTTGTGCCTTGTTCCCTCAGAGgttggtagcgataccactcaacttgatttgaatctctgcctaggactctg #### Sfxn4_ID13350_8 --> 0 - 0 Original Alignment GGTTGCTTGTATGGATACACCACAGCCTTTAACATCACCAATGGAAATGCCAGTTAT--- gcttctttcatgcctgaagacagtgatcgcttttctctttctcaccatagGGTTGTTTGTATGGATATACCACAGCCTTTAACATTACGAATGAAAATGCTAGTTATTTTgtgagtatttcgaacccttagaagatagtatttacatcattaaaaaatta Alignment from CESAR GGTTGCTTGTATGGATACACCACAGCCTTTAACATCACCAATGGAAATGCCAGTTAT--- gcttctttcatgcctgaagacagtgatcgcttttctctttctcaccatagGGTTGTTTGTATGGATATACCACAGCCTTTAACATTACGAATGAAAATGCTAGTTATTTTgtgagtatttcgaacccttagaagatagtatttacatcattaaaaaatta Alignment from Spaln_aa2Genome GGTTGCTTGTATGGATACACCACAGCCTTTAACATCACCAATGGAAATGCCAGTTAT--- gcttctttcatgcctgaagacagtgatcgcttttctctttctcaccatagGGTTGTTTGTATGGATATACCACAGCCTTTAACATTACGAATGAAAATGCTAGTTATTTTgtgagtatttcgaacccttagaagatagtatttacatcattaaaaaatta Alignment from Spaln_nt2Genome GGTTGCTTGTATGGATACACCACAGCCTTTAACATCACCAATGGAAATGCCAGTTAT--- gcttctttcatgcctgaagacagtgatcgcttttctctttctcaccatagGGTTGTTTGTATGGATATACCACAGCCTTTAACATTACGAATGAAAATGCTAGTTATTTTgtgagtatttcgaacccttagaagatagtatttacatcattaaaaaatta Alignment from Pairagon GGTTGCTTGTATGGATACACCACAGCCTTTAACATCACCAATGGAAATGCCAGTTAT--- gcttctttcatgcctgaagacagtgatcgcttttctctttctcaccatagGGTTGTTTGTATGGATATACCACAGCCTTTAACATTACGAATGAAAATGCTAGTTATTTTgtgagtatttcgaacccttagaagatagtatttacatcattaaaaaatta Alignment from Exonerate_protein2genome GGTTGCTTGTATGGATACACCACAGCCTTTAACATCACCAATGGAAATGCCAGTTAT--- gcttctttcatgcctgaagacagtgatcgcttttctctttctcaccatagGGTTGTTTGTATGGATATACCACAGCCTTTAACATTACGAATGAAAATGCTAGTTATTTTgtgagtatttcgaacccttagaagatagtatttacatcattaaaaaatta Alignment from Exonerate_coding2genome GGTTGCTTGTATGGATACACCACAGCCTTTAACATCACCAATGGAAATGCCAGTTAT--- gcttctttcatgcctgaagacagtgatcgcttttctctttctcaccatagGGTTGTTTGTATGGATATACCACAGCCTTTAACATTACGAATGAAAATGCTAGTTATTTTgtgagtatttcgaacccttagaagatagtatttacatcattaaaaaatta Alignment from GeneWise GGTTGCTTGTATGGATACACCACAGCCTTTAACATCACCAATGGAAATGCCAGTTATAGT gcttctttcatgcctgaagacagtgatcgcttttctctttctcaccatagGGTTGTTTGTATGGATATACCACAGCCTTTAACATTACGAATGAAAATGCTAGTTATTTTgtgagtatttcgaacccttagaagatagtatttacatcattaaaaaatta #### Sipa1_ID1138_14 --> 1 - 0 Original Alignment gCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG------ tgtggagcctctgcttctgctgagtccttccttttgtaattgtgttttaggCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAACTCCAAGAGGACTTGCAGAGGCTGTCTgtaagttgacagcctggcgggggtgcacagggctgcccctgacaagggct Alignment from CESAR gCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG------ tgtggagcctctgcttctgctgagtccttccttttgtaattgtgttttaggCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAACTCCAAGAGGACTTGCAGAGGCTGTCTgtaagttgacagcctggcgggggtgcacagggctgcccctgacaagggct Alignment from Spaln_aa2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG------ tgtggagcctctgcttctgctgagtccttccttttgtaattgtgttttagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAACTCCAAGAGGACTTGCAGAGGCTGTCTgtaagttgacagcctggcgggggtgcacagggctgcccctgacaagggct Alignment from Spaln_nt2Genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG-- tgtggagcctctgcttctgctgagtccttccttttgtaattgtgttttagGCC---ACCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAACTCCAAGAGGACTTGCAGAGGCTgtctgtaagttgacagcctggcgggggtgcacagggctgcccctgacaagggct Alignment from Pairagon GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG------ tgtggagcctctgcttctgctgagtccttccttttgtaattgtgttttagGCC---ACCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAACTCCAAGAGGACTTGCAGAGGCTGTCTgtaagttgacagcctggcgggggtgcacagggctgcccctgacaagggct Alignment from Exonerate_protein2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtggagcctctgcttctgctgagtccttccttttgtaattgtgttttagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAACTCCAAGAGGACTTGCAGAGGctgtctgtaagttgacagcctggcgggggtgcacagggctgcccctgacaagggct Alignment from Exonerate_coding2genome GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGG tgtggagcctctgcttctgctgagtccttccttttgtaattgtgttttagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAACTCCAAGAGGACTTGCAGAGGctgtctgtaagttgacagcctggcgggggtgcacagggctgcccctgacaagggct Alignment from GeneWise GCCAGAACCCGGGAGCCTGTCAGAAAAGGTCTCTCACCTAGAGTCCATGCTCTGGAAGCTCCAGGAGGACCTGCAGAGGGAGAAG tgtggagcctctgcttctgctgagtccttccttttgtaattgtgttttagGCCA---CCTGGGAGCCTATCAGAAAAGATCTCTCATCTAGAGTCCATGCTCTGGAAACTCCAAGAGGACTTGCAGAGGCTGTCTgtaagttgacagcctggcgggggtgcacagggctgcccctgacaagggct #### Sipa1_ID1139_13 --> 2 - 2 Original Alignment gaCAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---ga gccaggtggatgtttactccctcagacccctctccaactctggtccccagggCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGACgagtaagctttccgccctaacatacccactcttgtgtttgtgtacttgcctg Alignment from CESAR gaCAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCT---ga gccaggtggatgtttactccctcagacccctctccaactctggtccccagggCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGACgagtaagctttccgccctaacatacccactcttgtgtttgtgtacttgcctg Alignment from Spaln_aa2Genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCC gccaggtggatgtttactccctcagacccctctccaactctggtccccagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGACGAgtaagctttccgccctaacatacccactcttgtgtttgtgtacttgcctg Alignment from Spaln_nt2Genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCC gccaggtggatgtttactccctcagacccctctccaactctggtccccagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGACGAgtaagctttccgccctaacatacccactcttgtgtttgtgtacttgcctg Alignment from Pairagon GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGA--- gccaggtggatgtttactccctcagacccctctccaactctggtccccagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGACGAgtaagctttccgccctaacatacccactcttgtgtttgtgtacttgcctg Alignment from Exonerate_protein2genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCC gccaggtggatgtttactccctcagacccctctccaactctggtccccagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGACGAgtaagctttccgccctaacatacccactcttgtgtttgtgtacttgcctg Alignment from Exonerate_coding2genome GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCC gccaggtggatgtttactccctcagacccctctccaactctggtccccagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGACGAgtaagctttccgccctaacatacccactcttgtgtttgtgtacttgcctg Alignment from GeneWise GACAACCCATCTCAGAGAGCGGAGACCCCAAGGAAGCTTTAAAGTGTGATTCTGAGCC gccaggtggatgtttactccctcagacccctctccaactctggtccccagGGCAACCCATCTCAGAGAGTGGAGATCCCAAGGAAGCTTTAAAGTGTGATTCTGACGAgtaagctttccgccctaacatacccactcttgtgtttgtgtacttgcctg #### Sipa1_ID1140_12 --> 2 - 1 Original Alignment ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg ccctcctcccaaccccacccttcctaagtacgcttttgttttcctggcagttATGCCAGAAGCTGGTAGCGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCA------ggtaagtccagagctgccaggtggatgtttactccctgattctgttccccc Alignment from CESAR ttATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGg ccctcctcccaaccccacccttcctaagtacgcttttgttttcctggcagttATGCCAGAAGCTGGTAGCGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCA------ggtaagtccagagctgccaggtggatgtttactcacccctctccaactctg Alignment from Spaln_aa2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCC- ccctcctcccaaccccacccttcctaagtacgcttttgttttcctggcagTTATGCCAGAAGCTGGTAGCGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCAGgtaagtccagagctgccaggtggatgtttactccctgattctgttccccc Alignment from Spaln_nt2Genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAG ccctcctcccaaccccacccttcctaagtacgcttttgttttcctggcagTTATGCCAGAAGCTGGTAGCGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTC-----AGgtaagtccagagctgccaggtggatgtttactccctgattctgttccccc Alignment from Pairagon TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ccctcctcccaaccccacccttcctaagtacgcttttgttttcctggcagTTATGCCAGAAGCTGGTAGCGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTC------AGgtaagtccagagctgccaggtggatgtttactccctgattctgttccccc Alignment from Exonerate_protein2genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ccctcctcccaaccccacccttcctaagtacgcttttgttttcctggcagTTATGCCAGAAGCTGGTAGCGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCA------Ggtaagtccagagctgccaggtggatgtttactccctgattctgttccccc Alignment from Exonerate_coding2genome TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCCGGGAGG ccctcctcccaaccccacccttcctaagtacgcttttgttttcctggcagTTATGCCAGAAGCTGGTAGCGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCA------Ggtaagtccagagctgccaggtggatgtttactccctgattctgttccccc Alignment from GeneWise TTATGTCGGAAGCTGGCAGTGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCGCCTCCACTTGCAACACAATTCTGGAGTCACTGTCCC ccctcctcccaaccccacccttcctaagtacgcttttgttttcctggcagTTATGCCAGAAGCTGGTAGCGAGACCCTGGAGGATGAGTGGCAGTCCATCTCAGAGATCACCTCCACTTGCAATACAATTCTGGAGTCACTGTCAGgtaagtccagagctgccaggtggatgtttactccctgattctgttccccc #### Sipa1_ID1141_11 --> 0 - 1 Original Alignment GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAG---a gccaaggtgacattggatgctacaccatgtaagttgtgcttccttcttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAAGGCCTCCATCCTGCCCAGGACTCTGTCTCTACGGAATTCCATCAGTAAGGACagtaaaatggagccaggaaataggtcaggtggaggagactgcccctacccc Alignment from CESAR GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAG---a gccaaggtgacattggatgctacaccatgtaagttgtgcttccttcttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAAGGCCTCCATCCTGCCCAGGACTCTGTCTCTACGGAATTCCATCAGTAAGGACagtaaaatggagccaggaaataggtcaggtggaggagactgcccctacccc Alignment from Spaln_aa2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAG---A gccaaggtgacattggatgctacaccatgtaagttgtgcttccttcttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAAGGCCTCCATCCTGCCCAGGACTCTGTCTCTACGGAATTCCATCAGTAAGGACAgtaaaatggagccaggaaataggtcaggtggaggagactgcccctacccc Alignment from Spaln_nt2Genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAG---A gccaaggtgacattggatgctacaccatgtaagttgtgcttccttcttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAAGGCCTCCATCCTGCCCAGGACTCTGTCTCTACGGAATTCCATCAGTAAGGACAgtaaaatggagccaggaaataggtcaggtggaggagactgcccctacccc Alignment from Pairagon GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAG---A gccaaggtgacattggatgctacaccatgtaagttgtgcttccttcttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAAGGCCTCCATCCTGCCCAGGACTCTGTCTCTACGGAATTCCATCAGTAAGGACAgtaaaatggagccaggaaataggtcaggtggaggagactgcccctacccc Alignment from Exonerate_protein2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAG---A gccaaggtgacattggatgctacaccatgtaagttgtgcttccttcttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAAGGCCTCCATCCTGCCCAGGACTCTGTCTCTACGGAATTCCATCAGTAAGGACAgtaaaatggagccaggaaataggtcaggtggaggagactgcccctacccc Alignment from Exonerate_coding2genome GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAG---A gccaaggtgacattggatgctacaccatgtaagttgtgcttccttcttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAAGGCCTCCATCCTGCCCAGGACTCTGTCTCTACGGAATTCCATCAGTAAGGACAgtaaaatggagccaggaaataggtcaggtggaggagactgcccctacccc Alignment from GeneWise GACCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAGGGCCTCCATCCTGCCCAGAACCTTGTCTCTGCGGAATTCCATCAGTAAGATT- gccaaggtgacattggatgctacaccatgtaagttgtgcttccttcttagGATCAGTCAGGAAGCCCCAGTAGCCATGAAGACACCAGTGACTCAGGCCCAGAACTGAAGGCCTCCATCCTGCCCAGGACTCTGTCTCTACGGAATTCCATCAGTAAGGACAgtaaaatggagccaggaaataggtcaggtggaggagactgcccctacccc #### Sipa1_ID1142_10 --> 1 - 0 Original Alignment cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaaagcagctccactgtatgtttgttctctcacggttgttccctgcagc---------GATGAGGCCCCAGTCCTGCCCAACACCACACCAGACCTCCTCCTTGTAACCACTGCCAACCCTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtatggtgccaaggtgacattggatgctacaccatgaacattattcctcc Alignment from CESAR cTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG cattgctgtggaaaagcagctccacgttctctcacggttgttccctgcagc---------GATGAGGCCCCAGTCCTGCCCAACACCACACCAGACCTCCTCCTTGTAACCACTGCCAACCCTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtatggtgccaaggtgacattggatgctacaccatgtaagttgtgcttcc Alignment from Spaln_aa2Genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaaagcagctccactgtatgtttgttctctcacggttgttccctgcagC---------GATGAGGCCCCAGTCCTGCCCAACACCACACCAGACCTCCTCCTTGTAACCACTGCCAACCCTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtatggtgccaaggtgacattggatgctacaccatgaacattattcctcc Alignment from Spaln_nt2Genome CTCCCTG TCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaaagcagCTCCACTgtatgtttgttctctcacggttgttccctgcag--CGATGAGGCCCCAGTCCTGCCCAACACCACACCAGACCTCCTCCTTGTAACCACTGCCAACCCTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtatggtgccaaggtgacattggatgctacaccatgaacattattcctcc Alignment from Pairagon CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaaagcagctccactgtatgtttgttctctcacggttgttccctgcag---------CGATGAGGCCCCAGTCCTGCCCAACACCACACCAGACCTCCTCCTTGTAACCACTGCCAACCCTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtatggtgccaaggtgacattggatgctacaccatgaacattattcctcc Alignment from Exonerate_protein2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaaagcagctccactgtatgtttgttctctcacggttgtTCCCTGCAGCGATGAGGCCCCAGTCCTGCCCAACACCACACCAGACCTCCTCCTTGTAACCACTGCCAACCCTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtatggtgccaaggtgacattggatgctacaccatgaacattattcctcc Alignment from Exonerate_coding2genome CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCCCAG ggaaaagcagctccactgtatgtttgttctctcacggttgtTCCCTGCAGCGATGAGGCCCCAGTCCTGCCCAACACCACACCAGACCTCCTCCTTGTAACCACTGCCAACCCTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGgtatggtgccaaggtgacattggatgctacaccatgaacattattcctcc Alignment from GeneWise CTCCCTGTCCGATGAGGCTCCAGTCCTGCCCAACACCACTCCAGACCTCCTCCTTGTCACCACTGCCAACCCATCTGCACCTGGTACTGACAGAGAAACACCCCCTTCC----------------------------------------------------- ggaaaagcagctccactgtatgtttgttctctcacggttgttccctgcagC---------GATGAGGCCCCAGTCCTGCCCAACACCACACCAGACCTCCTCCTTGTAACCACTGCCAACCCTTCTGCACCTGATACTGATAGAGAAACACCCCCTTCCCAGGTATGGTGCCAAGGTGACATTGGATGCTACACCATGAACATTATTCCTCC #### Sipa1_ID1150_2 --> 2 - 0 Original Alignment aaCACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG acctaatcgccagaagcgactcccaacaaaccttctccttctcctcccagaa---------------------------GCACTGGGCCCAGTGGCTGTGAGCCTGCAACGGGAGGAAAAAGAGGGCAGTGGAGGGGCCCCCCTACACAGCTACCGGGTCATTGTGCGAACCACGCAGgtaagaaaggatcacaggacaccatagcctatactgaaggtgaatgaccc Alignment from CESAR aaCACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG aaagccactctccaaccaaccaacaacaaaccttctccttctcctcccagaa---------------------------GCACTGGGCCCAGTGGCTGTGAGCCTGCAACGGGAGGAAAAAGAGGGCAGTGGAGGGGCCCCCCTACACAGCTACCGGGTCATTGTGCGAACCACGCAGgtaagaaaggatcacaggacaccatagcctatactgaaggtgaaaccagc Alignment from Spaln_aa2Genome AGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG acctaatcgccagaagcgactcccaacaaaccttctccttctcctcccagAAGCACTGGGCCCAGTGGCTGTGAGCCTGCAACGGGAGGAAAAAGAGGGCAGTGGAGGGGCCCCCCTACACAGCTACCGGGTCATTGTGCGAACCACGCAGgtaagaaaggatcacaggacaccatagcctatactgaaggtgaatgaccc Alignment from Spaln_nt2Genome AGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG acctaatcgccagaagcgactcccaacaaaccttctccttctcctcccagAAGCACTGGGCCCAGTGGCTGTGAGCCTGCAACGGGAGGAAAAAGAGGGCAGTGGAGGGGCCCCCCTACACAGCTACCGGGTCATTGTGCGAACCACGCAGgtaagaaaggatcacaggacaccatagcctatactgaaggtgaatgaccc Alignment from Pairagon AACACCAGAACTTCTTTGGGCTGGATGAGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG acctaatcgccagaagcgactcccaacaaaccttctccttctcctcccagAA---------------------------GCACTGGGCCCAGTGGCTGTGAGCCTGCAACGGGAGGAAAAAGAGGGCAGTGGAGGGGCCCCCCTACACAGCTACCGGGTCATTGTGCGAACCACGCAGgtaagaaaggatcacaggacaccatagcctatactgaaggtgaatgaccc Alignment from Exonerate_protein2genome AGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG acctaatcgccagaagcgactcccaacaaaccttctccttctcctcccagAAGCACTGGGCCCAGTGGCTGTGAGCCTGCAACGGGAGGAAAAAGAGGGCAGTGGAGGGGCCCCCCTACACAGCTACCGGGTCATTGTGCGAACCACGCAGgtaagaaaggatcacaggacaccatagcctatactgaaggtgaatgaccc Alignment from Exonerate_coding2genome AGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG acctaatcgccagaagcgactcccaacaaaccttctccttctcctcccagAAGCACTGGGCCCAGTGGCTGTGAGCCTGCAACGGGAGGAAAAAGAGGGCAGTGGAGGGGCCCCCCTACACAGCTACCGGGTCATTGTGCGAACCACGCAGgtaagaaaggatcacaggacaccatagcctatactgaaggtgaatgaccc Alignment from GeneWise AGGCGCTGGGTCCGGTGGCCGTGAGCCTGCGACGGGAGGAGAAAGAGGGCAGCGGAGGGGGCACCCTACACAGCTACCGGGTCATCGTGCGGACCACGCAG acctaatcgccagaagcgactcccaacaaaccttctccttctcctcccagAAGCACTGGGCCCAGTGGCTGTGAGCCTGCAACGGGAGGAAAAAGAGGGCAGTGGAGGGGCCCCCCTACACAGCTACCGGGTCATTGTGCGAACCACGCAGgtaagaaaggatcacaggacaccatagcctatactgaaggtgaatgaccc #### Slc18a2_ID12939_7 --> 2 - 0 Original Alignment ct---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ctggccacttctgctacccaaggagggagattacaattattactttctagctCTGATTCAGCTCTTTGTAATCCAGCCCTCCCGTGTACTGCCAGAAgtgggcagctgggagtgggaggtgagggcccacgactgacctaggcaagt Alignment from CESAR ct---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ctggccacttctgctacccaaggagggagattacaattattactttctagctCTGATTCAGCTCTTTGTAATCCAGCCCTCCCGTGTACTGCCAGAAgtgggcagctgggagtgggaggtgagggcccacgactgacctaggcaagt Alignment from Spaln_aa2Genome CT---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ctggccacttctgctacccaaggagggagattacaattattactttctagCTCTGATTCAGCTCTTTGTAATCCAGCCCTCCCGTGTACTGCCAGAAgtgggcagctgggagtgggaggtgagggcccacgactgacctaggcaagt Alignment from Spaln_nt2Genome CT---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ctggccacttctgctacccaaggagggagattacaattattactttctagCTCTGATTCAGCTCTTTGTAATCCAGCCCTCCCGTGTACTGCCAGAAgtgggcagctgggagtgggaggtgagggcccacgactgacctaggcaagt Alignment from Pairagon CT---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ctggccacttctgctacccaaggagggagattacaattattactttctagCTCTGATTCAGCTCTTTGTAATCCAGCCCTCCCGTGTACTGCCAGAAgtgggcagctgggagtgggaggtgagggcccacgactgacctaggcaagt Alignment from Exonerate_protein2genome CT---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ctggccacttctgctacccaaggagggagattacaattattactttctagCTCTGATTCAGCTCTTTGTAATCCAGCCCTCCCGTGTACTGCCAGAAgtgggcagctgggagtgggaggtgagggcccacgactgacctaggcaagt Alignment from Exonerate_coding2genome CT---ATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ctggccacttctgctacccaaggagggagattacaattattactttctagCTCTGATTCAGCTCTTTGTAATCCAGCCCTCCCGTGTACTGCCAGAAgtgggcagctgggagtgggaggtgagggcccacgactgacctaggcaagt Alignment from GeneWise --GCTATTCAGCTCTTTGTGCTCCAGCCATCCCGAGTGCAGCCAGAA ctggccacttctgctacccaaggagggagattacaattattactttctagCTCTGATTCAGCTCTTTGTAATCCAGCCCTCCCGTGTACTGCCAGAAgtgggcagctgggagtgggaggtgagggcccacgactgacctaggcaagt #### Slc22a12_ID1790_7 --> 1 - 1 Original Alignment gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg gagcaattgacccaggctaatctgtctaacaaccccatgtccctccttaggTTTGCCTTTGGCTTCACCTTCTATGGCCTGGCCCTTGACCTGCAAGCCCTTGGAAGCAATATATTCCTGCTCCAGTCAATTATTGGGATTGTGGATTTCCCGGTGAAGACAGGCAGCTTGCTCTTGATCAGCCGCTTGGGCCAACGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTTTCCAATATACTGGTG------ggtaagcggtgcgtgccatctggctgagggtgagcataaggacgcaaaact Alignment from CESAR gTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATg gagcaattgacccaggctaatctgtctaacaaccccatgtccctccttaggTTTGCCTTTGGCTTCACCTTCTATGGCCTGGCCCTTGACCTGCAAGCCCTTGGAAGCAATATATTCCTGCTCCAGTCAATTATTGGGATTGTGGATTTCCCGGTGAAGACAGGCAGCTTGCTCTTGATCAGCCGCTTGGGCCAACGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTTTCCAATATACTGGTG------ggtaagcggtgcgtgccatctggctgagggtgagcataaggacgcaaaact Alignment from Spaln_aa2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTG- gagcaattgacccaggctaatctgtctaacaaccccatgtccctccttagGTTTGCCTTTGGCTTCACCTTCTATGGCCTGGCCCTTGACCTGCAAGCCCTTGGAAGCAATATATTCCTGCTCCAGTCAATTATTGGGATTGTGGATTTCCCGGTGAAGACAGGCAGCTTGCTCTTGATCAGCCGCTTGGGCCAACGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTTTCCAATATACTGGTGGgtaagcggtgcgtgccatctggctgagggtgagcataaggacgcaaaact Alignment from Spaln_nt2Genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGC gagcaattgacccaggctaatctgtctaacaaccccatgtccctccttagGTTTGCCTTTGGCTTCACCTTCTATGGCCTGGCCCTTGACCTGCAAGCCCTTGGAAGCAATATATTCCTGCTCCAGTCAATTATTGGGATTGTGGATTTCCCGGTGAAGACAGGCAGCTTGCTCTTGATCAGCCGCTTGGGCCAACGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTTTCCAATATACTGGTGGgtaagcggtgcgtgccatctggctgagggtgagcataaggacgcaaaact Alignment from Pairagon GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGCCCCATG gagcaattgacccaggctaatctgtctaacaaccccatgtccctccttagGTTTGCCTTTGGCTTCACCTTCTATGGCCTGGCCCTTGACCTGCAAGCCCTTGGAAGCAATATATTCCTGCTCCAGTCAATTATTGGGATTGTGGATTTCCCGGTGAAGACAGGCAGCTTGCTCTTGATCAGCCGCTTGGGCCAACGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTTTCCAATATACTGGTG------Ggtaagcggtgcgtgccatctggctgagggtgagcataaggacgcaaaact Alignment from Exonerate_protein2genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGC gagcaattgacccaggctaatctgtctaacaaccccatgtccctccttagGTTTGCCTTTGGCTTCACCTTCTATGGCCTGGCCCTTGACCTGCAAGCCCTTGGAAGCAATATATTCCTGCTCCAGTCAATTATTGGGATTGTGGATTTCCCGGTGAAGACAGGCAGCTTGCTCTTGATCAGCCGCTTGGGCCAACGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTTTCCAATATACTGGTGGgtaagcggtgcgtgccatctggctgagggtgagcataaggacgcaaaact Alignment from Exonerate_coding2genome GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGC gagcaattgacccaggctaatctgtctaacaaccccatgtccctccttagGTTTGCCTTTGGCTTCACCTTCTATGGCCTGGCCCTTGACCTGCAAGCCCTTGGAAGCAATATATTCCTGCTCCAGTCAATTATTGGGATTGTGGATTTCCCGGTGAAGACAGGCAGCTTGCTCTTGATCAGCCGCTTGGGCCAACGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTTTCCAATATACTGGTGGgtaagcggtgcgtgccatctggctgagggtgagcataaggacgcaaaact Alignment from GeneWise GTTTGCCTTTGGCTTCACCTTCTACGGCCTGGCCCTTGACCTGCAAGCCCTAGGAAGCAATATCTTCCTGCTCCAGGCACTCATCGGGATTGTGGACTTCCCGGTGAAGACAGGCAGCCTGCTGCTGATCAGCCGCTTGGGCCGGCGCCTCTGCCAGGTCAGCTTCCTGGTGCTCCCCGGACTCTGCATCCTGTCCAACATACTGGTGC gagcaattgacccaggctaatctgtctaacaaccccatgtccctccttagGTTTGCCTTTGGCTTCACCTTCTATGGCCTGGCCCTTGACCTGCAAGCCCTTGGAAGCAATATATTCCTGCTCCAGTCAATTATTGGGATTGTGGATTTCCCGGTGAAGACAGGCAGCTTGCTCTTGATCAGCCGCTTGGGCCAACGCCTTTGTCAGGTCAGCTTCCTGGTGCTCCCTGGACTCTGCATCCTTTCCAATATACTGGTGGgtaagcggtgcgtgccatctggctgagggtgagcataaggacgcaaaact #### Slc22a20_ID1351_2 --> 0 - 2 Original Alignment TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag gccaagcctagggacaaggtttaacctttggttttggcttttttatatag------CTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAATCTATCTACATGTCTGGAGTGTTGGTGGGAGCTGCCTTGTTTGGTTGTCTAGCTGACaggtacagcttttggggagcaaccatatgttcactcatatactgtcacttct Alignment from CESAR TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACag tgacaagccaagcctagggacaaggctttggttttggcttttttatatag------CTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAATCTATCTACATGTCTGGAGTGTTGGTGGGAGCTGCCTTGTTTGGTTGTCTAGCTGACaggtacagcttttggggagcaaccatatgttcactcatatactgtcacttct Alignment from Spaln_aa2Genome CTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gccaagcctagggacaaggtttaacctttggttttggcttttttatatagCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAATCTATCTACATGTCTGGAGTGTTGGTGGGAGCTGCCTTGTTTGGTTGTCTAGCTGACAGgtacagcttttggggagcaaccatatgttcactcatatactgtcacttct Alignment from Spaln_nt2Genome TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gccaagcctagggacaaggtttaacctttggttttggcttttttatatag------CTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAATCTATCTACATGTCTGGAGTGTTGGTGGGAGCTGCCTTGTTTGGTTGTCTAGCTGACAGgtacagcttttggggagcaaccatatgttcactcatatactgtcacttct Alignment from Pairagon TGGGACCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gccaagcctagggacaaggtttaacctttggttttggcttttttatatag------CTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAATCTATCTACATGTCTGGAGTGTTGGTGGGAGCTGCCTTGTTTGGTTGTCTAGCTGACAGgtacagcttttggggagcaaccatatgttcactcatatactgtcacttct Alignment from Exonerate_protein2genome CTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gccaagcctagggacaaggtttaacctttggttttggcttttttatatagCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAATCTATCTACATGTCTGGAGTGTTGGTGGGAGCTGCCTTGTTTGGTTGTCTAGCTGACAGgtacagcttttggggagcaaccatatgttcactcatatactgtcacttct Alignment from Exonerate_coding2genome CTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gccaagcctagggacaaggtttaacctttggttttggcttttttatatagCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAATCTATCTACATGTCTGGAGTGTTGGTGGGAGCTGCCTTGTTTGGTTGTCTAGCTGACAGgtacagcttttggggagcaaccatatgttcactcatatactgtcacttct Alignment from GeneWise CTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAGTCCATCTACATGTCCGGGGTGTTGGTGGGAGCCGCCTTGTTTGGTGGTCTTGCTGACAG gccaagcctagggacaaggtttaacctttggttttggcttttttatatagCTGGTGTGTGAGGCCCGCACCCTTCGTGACCTGGCTCAATCTATCTACATGTCTGGAGTGTTGGTGGGAGCTGCCTTGTTTGGTTGTCTAGCTGACAGgtacagcttttggggagcaaccatatgttcactcatatactgtcacttct #### Slc22a6_ID2281_2 --> 0 - 2 Original Alignment TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACag agatttcttgtgctcttccctgttcaacaaaaaatgtgttcttgtttcagTGGAACCTTGTCTGCTCTCATAGAGCCTTCCACCAATTGGCCCAGTCACTGTTCATGGTGGGAGTGTTACTGGGCGCCATGATGTTTGGCTACCTGGCG---aggtaagtagtcctggggagccaaagtgctcagttgaagtgggattgggggt Alignment from CESAR TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACag agatttcttgtgctcttccctgttcaacaaaaaatgtgttcttgtttcagTGGAACCTTGTCTGCTCTCATAGAGCCTTCCACCAATTGGCCCAGTCACTGTTCATGGTGGGAGTGTTACTGGGCGCCATGATGTTTGGCTACCTGGCG---aggtaagtagtcctggggagccaaagtgctcagttgaagtgggattgggggt Alignment from Spaln_aa2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGA agatttcttgtgctcttccctgttcaacaaaaaatgtgttcttgtttcagTGGAACCTTGTCTGCTCTCATAGAGCCTTCCACCAATTGGCCCAGTCACTGTTCATGGTGGGAGTGTTACTGGGCGCCATGATGTTTGGCTACCTGGCGAGgtaagtagtcctggggagccaaagtgctcagttgaagtgggattgggggt Alignment from Spaln_nt2Genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCG-GACAG agatttcttgtgctcttccctgttcaacaaaaaatgtgttcttgtttcagTGGAACCTTGTCTGCTCTCATAGAGCCTTCCACCAATTGGCCCAGTCACTGTTCATGGTGGGAGTGTTACTGGGCGCCATGATGTTTGGCTACCTGGCGAGGTAAgtagtcctggggagccaaagtgctcagttgaagtgggattgggggt Alignment from Pairagon TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG agatttcttgtgctcttccctgttcaacaaaaaatgtgttcttgtttcagTGGAACCTTGTCTGCTCTCATAGAGCCTTCCACCAATTGGCCCAGTCACTGTTCATGGTGGGAGTGTTACTGGGCGCCATGATGTTTGGCTACCTGGCG---AGgtaagtagtcctggggagccaaagtgctcagttgaagtgggattgggggt Alignment from Exonerate_protein2genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG agatttcttgtgctcttccctgttcaacaaaaaatgtgttcttgtttcagTGGAACCTTGTCTGCTCTCATAGAGCCTTCCACCAATTGGCCCAGTCACTGTTCATGGTGGGAGTGTTACTGGGCGCCATGATGTTTGGCTACCTGGCG---AGgtaagtagtcctggggagccaaagtgctcagttgaagtgggattgggggt Alignment from Exonerate_coding2genome TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGACAG agatttcttgtgctcttccctgttcaacaaaaaatgtgttcttgtttcagTGGAACCTTGTCTGCTCTCATAGAGCCTTCCACCAATTGGCCCAGTCACTGTTCATGGTGGGAGTGTTACTGGGCGCCATGATGTTTGGCTACCTGGCG---AGgtaagtagtcctggggagccaaagtgctcagttgaagtgggattgggggt Alignment from GeneWise TGGAACCTTGTGTGCTCTCATCGGGCCTTCCGCCAGCTGGCCCAGTCCCTGTTCATGGTGGGAGTGTTACTGGGAGCCATGATGTTTGGCTACCTGGCGGA agatttcttgtgctcttccctgttcaacaaaaaatgtgttcttgtttcagTGGAACCTTGTCTGCTCTCATAGAGCCTTCCACCAATTGGCCCAGTCACTGTTCATGGTGGGAGTGTTACTGGGCGCCATGATGTTTGGCTACCTGGCGAGgtaagtagtcctggggagccaaagtgctcagttgaagtgggattgggggt #### Slc22a8_ID2275_8 --> 2 - 2 Original Alignment aa---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag ctctggaggagtgaaaaccatgtcccgttgtggtcctttctcacccctagaaGTCATGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCaggtgagtgatgcacctgggtcaggggttcatgcacagaactgaattttcca Alignment from CESAR aaATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCag ctgctctggaggagtgaaaaccatgtcctgtggtcctttctcacccctagaagtcATGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCaggtgagtgatgcacctgggtcaggggttcatgcacagaactgaattttcca Alignment from Spaln_aa2Genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG ctctggaggagtgaaaaccatgtcccgttgtggtcctttctcacccctagaagTCATGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtgagtgatgcacctgggtcaggggttcatgcacagaactgaattttcca Alignment from Spaln_nt2Genome AA---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG ctctggaggagtgaaaaccatgtcccgttgtggtcctttctcacccctagAAGTCATGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtgagtgatgcacctgggtcaggggttcatgcacagaactgaattttcca Alignment from Pairagon AA---ATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG ctctggaggagtgaaaaccatgtcccgttgtggtcctttctcacccctagAAGTCATGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtgagtgatgcacctgggtcaggggttcatgcacagaactgaattttcca Alignment from Exonerate_protein2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG ctctggaggagtgaaaaccatgtcccgttgtggtcctttctcacccctagaagTCATGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtgagtgatgcacctgggtcaggggttcatgcacagaactgaattttcca Alignment from Exonerate_coding2genome AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG ctctggaggagtgaaaaccatgtcccgttgtggtcctttctcacccctagaagTCATGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtgagtgatgcacctgggtcaggggttcatgcacagaactgaattttcca Alignment from GeneWise AAATGCAGCTCTTGAGAACAGCACTGGCTGTATTTGGGAAGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCCTCTACACAAGTGAGCTCTACCCTACAGTCCTCAG ctctggaggagtgaaaaccatgtcccgttgtggtcctttctcacccctagaagTCATGGAGATTGTGAGGACAGCACTGGCTGTATTTGGTATGGGATGCCTGTCTGGCTCCTTCAGCTGCCTCTTCTTCTACACAAGTGAGCTCTACCCTACAGTCCTCAGgtgagtgatgcacctgggtcaggggttcatgcacagaactgaattttcca #### Slc29a2_ID790_4 --> 1 - 1 Original Alignment cATCCCCGAGTCGGTGCGGATTCTGGGCAGCCTGCTGGCCATACTACTGCTCTTTGCCCTGACAGCAGCGTTGGTGAAGGTGGACTTGAGCCCTGGGCTGTTCTTCTCTGTCACCATGGCGTCCGTCTGGTTCATCAATt cctcctgatgctaaaggagctaacgactaccccagccctttgtctttcagc------------------ATTCTGGGTAGTTTGCTCCCCATACTACTACTGTTTGCCCTGACAGCAGCCTTGGTGAAGGAGGACTTGAGCCCTGGGCTGTTCTTCTCTGTTACCATGGCATCTGTCTGGTTCATCAATtgtaccacacaccccagctcaatttccagtgcagcaacagccgagcagacc Alignment from CESAR cATCCCCGAGTCGGTGCGGATTCTGGGCAGCCTGCTGGCCATACTACTGCTCTTTGCCCTGACAGCAGCGTTGGTGAAGGTGGACTTGAGCCCTGGGCTGTTCTTCTCTGTCACCATGGCGTCCGTCTGGTTCATCAATt ggcatctgctcttggtggcctcctgactaccccagccctttgtctttcagc------------------ATTCTGGGTAGTTTGCTCCCCATACTACTACTGTTTGCCCTGACAGCAGCCTTGGTGAAGGAGGACTTGAGCCCTGGGCTGTTCTTCTCTGTTACCATGGCATCTGTCTGGTTCATCAATtgtaccacacaccccagctcaatttccagtgcagcaacagccgagcagacc Alignment from Spaln_aa2Genome CATCCCCGAGTCGGTGCGGATTCTGGGCAGCCTGCTGGCCATACTACTGCTCTTTGCCCTGACAGCAGCGTTGGTGAAGGTGGACTTGAGCCCTGGGCTGTTCTTCTCTGTCACCATGGCGTCCGTCTGGTTCATCAATT cctgatgctaaaggagctaacgactaccccagC---CCTTTGTCTTTCAGCATTCTGGGTAGTTTGCTCCCCATACTACTACTGTTTGCCCTGACAGCAGCCTTGGTGAAGGAGGACTTGAGCCCTGGGCTGTTCTTCTCTGTTACCATGGCATCTGTCTGGTTCATCAATTgtaccacacaccccagctcaatttccagtgcagcaacagccgagcagacc Alignment from Spaln_nt2Genome GATTCTGGGCAGCCTGCTGGCCATACTACTGCTCTTTGCCCTGACAGCAGCGTTGGTGAAGGTGGACTTGAGCCCTGGGCTGTTCTTCTCTGTCACCATGGCGTCCGTCTGGTTCATCAATT cctcctgatgctaaaggagctaacgactaccccagccctttgtctttcagCATTCTGGGTAGTTTGCTCCCCATACTACTACTGTTTGCCCTGACAGCAGCCTTGGTGAAGGAGGACTTGAGCCCTGGGCTGTTCTTCTCTGTTACCATGGCATCTGTCTGGTTCATCAATTgtaccacacaccccagctcaatttccagtgcagcaacagccgagcagacc Alignment from Pairagon CATCCCCGAGTCGGTGCGGATTCTGGGCAGCCTGCTGGCCATACTACTGCTCTTTGCCCTGACAGCAGCGTTGGTGAAGGTGGACTTGAGCCCTGGGCTGTTCTTCTCTGTCACCATGGCGTCCGTCTGGTTCATCAATT cctcctgatgctaaaggagctaacgactaccccagccctttgtctttcagC------------------ATTCTGGGTAGTTTGCTCCCCATACTACTACTGTTTGCCCTGACAGCAGCCTTGGTGAAGGAGGACTTGAGCCCTGGGCTGTTCTTCTCTGTTACCATGGCATCTGTCTGGTTCATCAATTgtaccacacaccccagctcaatttccagtgcagcaacagccgagcagacc Alignment from Exonerate_protein2genome CATCCCCGAGTCGGTGCGGATTCTGGGCAGCCTGCTGGCCATACTACTGCTCTTTGCCCTGACAGCAGCGTTGGTGAAGGTGGACTTGAGCCCTGGGCTGTTCTTCTCTGTCACCATGGCGTCCGTCTGGTTCATCAATT cctgatgctaaaggagctaacgactaccccagC---CCTTTGTCTTTCAGCATTCTGGGTAGTTTGCTCCCCATACTACTACTGTTTGCCCTGACAGCAGCCTTGGTGAAGGAGGACTTGAGCCCTGGGCTGTTCTTCTCTGTTACCATGGCATCTGTCTGGTTCATCAATTgtaccacacaccccagctcaatttccagtgcagcaacagccgagcagacc Alignment from Exonerate_coding2genome CATCCCCGAGTCGGTGCGGATTCTGGGCAGCCTGCTGGCCATACTACTGCTCTTTGCCCTGACAGCAGCGTTGGTGAAGGTGGACTTGAGCCCTGGGCTGTTCTTCTCTGTCACCATGGCGTCCGTCTGGTTCATCAATT cctgatgctaaaggagctaacgactaccccagC---CCTTTGTCTTTCAGCATTCTGGGTAGTTTGCTCCCCATACTACTACTGTTTGCCCTGACAGCAGCCTTGGTGAAGGAGGACTTGAGCCCTGGGCTGTTCTTCTCTGTTACCATGGCATCTGTCTGGTTCATCAATTgtaccacacaccccagctcaatttccagtgcagcaacagccgagcagacc Alignment from GeneWise CATCCCCGAGTCGGTGCGGATTCTGGGCAGCCTGCTGGCCATACTACTGCTCTTTGCCCTGACAGCAGCGTTGGTGAAGGTGGACTTGAGCCCTGGGCTGTTCTTCTCTGTCACCATGGCGTCCGTCTGGTTCATCAATT cctgatgctaaaggagctaacgactaccccagC---CCTTTGTCTTTCAGCATTCTGGGTAGTTTGCTCCCCATACTACTACTGTTTGCCCTGACAGCAGCCTTGGTGAAGGAGGACTTGAGCCCTGGGCTGTTCTTCTCTGTTACCATGGCATCTGTCTGGTTCATCAATTgtaccacacaccccagctcaatttccagtgcagcaacagccgagcagacc #### Slc29a2_ID791_5 --> 2 - 1 Original Alignment cc---TTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCa tcctctaggtgtggctgtctaagtgttgaattatttaattcttttgacagccCTTTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCagtagagacacctgggggtctaaagagctggctagaaaaagcagatagagg Alignment from CESAR cc---TTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCa tcctctaggtgtggctgtctaagtgttgaattatttaattcttttgacagccCTTTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCagtagagacacctgggggtctaaagagctggctagaaaaagcagatagagg Alignment from Spaln_aa2Genome CC---TTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA tcctctaggtgtggctgtctaagtgttgaattatttaattcttttgacagCCCTTTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtagagacacctgggggtctaaagagctggctagaaaaagcagatagagg Alignment from Spaln_nt2Genome CC---TTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA tcctctaggtgtggctgtctaagtgttgaattatttaattcttttgacagCCCTTTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtagagacacctgggggtctaaagagctggctagaaaaagcagatagagg Alignment from Pairagon CC---TTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA tcctctaggtgtggctgtctaagtgttgaattatttaattcttttgacagCCCTTTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtagagacacctgggggtctaaagagctggctagaaaaagcagatagagg Alignment from Exonerate_protein2genome CC---TTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA tcctctaggtgtggctgtctaagtgttgaattatttaattcttttgacagCCCTTTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtagagacacctgggggtctaaagagctggctagaaaaagcagatagagg Alignment from Exonerate_coding2genome CC---TTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA tcctctaggtgtggctgtctaagtgttgaattatttaattcttttgacagCCCTTTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtagagacacctgggggtctaaagagctggctagaaaaagcagatagagg Alignment from GeneWise --TCCTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGTGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCCTTGGCCA tcctctaggtgtggctgtctaagtgttgaattatttaattcttttgacagCCCTTTTCTGTGCCGTGCTTCAAGGCAGCCTCTTTGGGCAGCTGGGTACCATGCCTTCTACCTACAGCACCCTCTTCCTCAGCGGCCAGGGCCTGGCTGGGATCTTCGCTGCCCTTGCTATGCTCATGTCTTTGGCCAgtagagacacctgggggtctaaagagctggctagaaaaagcagatagagg #### Slit1_ID8223_16 --> 2 - 2 Original Alignment ggACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGct actgcttggagcttacttaggcccccaatctgcctttctttccctctcagggACAGAAGACTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCC---------ctgtaaagccagcgatatgagtggtgcccacccaactcccacctccattcct Alignment from CESAR ggACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGct actgcttggagcttacttaggcccccaatctgcctttctttccctctcagggACAGAAGACTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCC---------ctgtaaagccagcgatatgagtggtgcccacccaactcccacctccattcct Alignment from Spaln_aa2Genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCAC actgcttggagcttacttaggcccccaatctgcctttctttccctctcagGGACAGAAGACTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCCTgtaaagccagcgatatgagtggtgcccacccaactcccacctccattcct Alignment from Spaln_nt2Genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACG actgcttggagcttacttaggcccccaatctgcctttctttccctctcagGGACAGAAGACTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCC-CTgtaaagccagcgatatgagtggtgcccacccaactcccacctccattcct Alignment from Pairagon GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT actgcttggagcttacttaggcccccaatctgcctttctttccctctcagGGACAGAAGACTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCC---------CTgtaaagccagcgatatgagtggtgcccacccaactcccacctccattcct Alignment from Exonerate_protein2genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT actgcttggagcttacttaggcccccaatctgcctttctttccctctcagGGACAGAAGACTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCCTGTAAAGCCAgcgatatgagtggtgcccacccaactcccacctccattcct Alignment from Exonerate_coding2genome GGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCACGACTGAGCT actgcttggagcttacttaggcccccaatctgcctttctttccctctcagGGACAGAAGACTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCCTGTAAAGCCAgcgatatgagtggtgcccacccaactcccacctccattcct Alignment from GeneWise CCAAAGAGCAGTACTTCATTCCA------GGGACAGAGGACTACCACCTGAACAGCGAGTGTACCAGCGACGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTGGTGGAGTGCTCCAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAGTCCAC actgcttggagcttacttagGCCCCCAATCTGCCTTTCTTTCCCTCTCAGGGACAGAAGACTACCACCTGAACAGTGAGTGCACCAGTGATGTGGCCTGCCCACACAAGTGCCGTTGTGAGGCCAGTGTAGTGGAGTGCTCTAGCCTGAAACTCTCTAAGATCCCTGAGCGAATCCCCCAATCCCTgtaaagccagcgatatgagtggtgcccacccaactcccacctccattcct #### Smc3_ID11318_6 --> 0 - 2 Original Alignment ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---ac agttgtccagttggccatctgggcttttactcctggtcttttcttaccagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCAAacgtgggcatttgtttttgctcacagtgtgttacagatgttcatgaaaacat Alignment from CESAR ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---ac agttgtccagttggccatctgggcttttactcctggtcttttcttaccagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCAAacgtgggcatttgtttttgctcacagtgtgttacagatgttcatgaaaacat Alignment from Spaln_aa2Genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCACG-- agttgtccagttggccatctgggcttttactcctggtcttttcttaccagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCAAACgtgggcatttgtttttgctcacagtgtgttacagatgttcatgaaaacat Alignment from Spaln_nt2Genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---AC agttgtccagttggccatctgggcttttactcctggtcttttcttaccagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCAAACgtgggcatttgtttttgctcacagtgtgttacagatgttcatgaaaacat Alignment from Pairagon ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---AC agttgtccagttggccatctgggcttttactcctggtcttttcttaccagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCAAACgtgggcatttgtttttgctcacagtgtgttacagatgttcatgaaaacat Alignment from Exonerate_protein2genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---AC agttgtccagttggccatctgggcttttactcctggtcttttcttaccagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCAAACgtgggcatttgtttttgctcacagtgtgttacagatgttcatgaaaacat Alignment from Exonerate_coding2genome ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTC---AC agttgtccagttggccatctgggcttttactcctggtcttttcttaccagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCAAACgtgggcatttgtttttgctcacagtgtgttacagatgttcatgaaaacat Alignment from GeneWise ATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCACG-- agttgtccagttggccatctgggcttttactcctggtcttttcttaccagATTGATAAAGAGGAAGTTTCACTTCGAAGAGTTATTGGTGCCAAAAAGGATCAGTATTTCCTAGATAAGAAGATGGTCCAAACgtgggcatttgtttttgctcacagtgtgttacagatgttcatgaaaacat #### Smc3_ID11337_25 --> 0 - 0 Original Alignment ---------------------TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaacccacttgctgtggccagtaagtccctaattcccacttttttcagCGTCTCCAAGATTACAAACCTTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCATGTGAACAAAAAGGCACTAGATCAGTTTGTGAACTTCTCCGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGC---TACAAATCAGTCATGGAACTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCATTTAACTTTCAAACAAgtaagtaataatgatcctagtgtggagagggattgaatgtgtgtaacaat Alignment from CESAR ---------------------TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaacccacttgctgtggccagtaagtccctaattcccacttttttcagCGTCTCCAAGATTACAAACCTTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCATGTGAACAAAAAGGCACTAGATCAGTTTGTGAACTTCTCCGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGAT---AGCTACAAATCAGTCATGGAACTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCATTTAACTTTCAAACAAgtaagtaataatgatcctagtgtggagagggattgaatgtgtgtaacaat Alignment from Spaln_aa2Genome GCCTGAAGCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaacccacttgctgtggccagtaagtccctaattcccacttttttcagcgtctccaagATTACAAACCTTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCATGTGAACAAAAAGGCACTAGATCAGTTTGTGAACTTCTCCGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGAT---AGCTACAAATCAGTCATGGAACTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCATTTAACTTTCAAACAAgtaagtaataatgatcctagtgtggagagggattgaatgtgtgtaacaat Alignment from Spaln_nt2Genome -----------TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaacccacttgctgtggccagtaagtccctaattcccacttttttcagcgtctccaagATTACAAACCTTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCATGTGAACAAAAAGGCACTAGATCAGTTTGTGAACTTCTCCGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATA---GCTACAAATCAGTCATGGAACTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCATTTAACTTTCAAACAAgtaagtaataatgatcctagtgtggagagggattgaatgtgtgtaacaat Alignment from Pairagon ---------------------TTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaacccacttgctgtggccagtaagtccctaattcccacttttttcagCGTCTCCAAGATTACAAACCTTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCATGTGAACAAAAAGGCACTAGATCAGTTTGTGAACTTCTCCGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATA---GCTACAAATCAGTCATGGAACTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCATTTAACTTTCAAACAAgtaagtaataatgatcctagtgtggagagggattgaatgtgtgtaacaat Alignment from Exonerate_protein2genome GCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaacccacttgctgtggccagtaagtccctaattcccacttttttcagcgtctccaagattacaaACCTTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCATGTGAACAAAAAGGCACTAGATCAGTTTGTGAACTTCTCCGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGAT---AGCTACAAATCAGTCATGGAACTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCATTTAACTTTCAAACAAgtaagtaataatgatcctagtgtggagagggattgaatgtgtgtaacaat Alignment from Exonerate_coding2genome GCAGTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaacccacttgctgtggccagtaagtccctaattcccacttttttcagcgtctccaagattacaaACCTTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCATGTGAACAAAAAGGCACTAGATCAGTTTGTGAACTTCTCCGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGAT---AGCTACAAATCAGTCATGGAACTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCATTTAACTTTCAAACAAgtaagtaataatgatcctagtgtggagagggattgaatgtgtgtaacaat Alignment from GeneWise --------------TTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCACGTGAACAAAAAGGCTCTAGATCAGTTTGTGAATTTCTCTGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGATAGAGGCTACAAATCAATCATGGAATTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCAGTTAACTTTCAAACAG agaaacccacttgctgtggccagtaagtccctaattcccacttttttcagcgtctccaagATTACAAACCTTTGTTTCGAAAACTGGAGCAATGCAACACAGAGTTAAAGAAGTACAGCCATGTGAACAAAAAGGCACTAGATCAGTTTGTGAACTTCTCCGAGCAGAAGGAAAAGCTGATAAAGCGGCAAGAGGAATTGGAT---AGCTACAAATCAGTCATGGAACTGATGAATGTACTTGAACTTAGAAAATATGAAGCTATTCATTTAACTTTCAAACAAgtaagtaataatgatcctagtgtggagagggattgaatgtgtgtaacaat #### Snx32_ID1067_11 --> 0 - 1 Original Alignment GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg caacatccatgacaaaatgtgtcttgctctcctgctctcttgctttctagGACCTATTGTACCGGCGGCTCCGGGCACTGGCTGACTACGAGAATGCTAACAAAGCACTGGACAAAGCTCGGACTAGGAACCGTGAAGTATGGCCAGCAGAGAGCCGCCAGCAGCTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCT---------ggtgagtcctaaatggtacgaaagattgcaacactccacccaacacccatt Alignment from CESAR GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAg caacatccatgacaaaatgtgtcttgctctcctgctctcttgctttctagGACCTATTGTACCGGCGGCTCCGGGCACTGGCTGACTACGAGAATGCTAACAAAGCACTGGACAAAGCTCGGACTAGGAACCGTGAAGTATGGCCAGCAGAGAGCCGCCAGCAGCTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCT---------ggtgagtcctaaatggtacgaaagattgcaacactccacccaacacccatt Alignment from Spaln_aa2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCC- caacatccatgacaaaatgtgtcttgctctcctgctctcttgctttctagGACCTATTGTACCGGCGGCTCCGGGCACTGGCTGACTACGAGAATGCTAACAAAGCACTGGACAAAGCTCGGACTAGGAACCGTGAAGTATGGCCAGCAGAGAGCCGCCAGCAGCTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGgtgagtcctaaatggtacgaaagattgcaacactccacccaacacccatt Alignment from Spaln_nt2Genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCC---AGCGCTTCGAGCGCCTCTCTGACTCCGCCAA-----ACAAG caacatccatgacaaaatgtgtcttgctctcctgctctcttgctttctagGACCTATTGTACCGGCGGCTCCGGGCACTGGCTGACTACGAGAATGCTAACAAAGCACTGGACAAAGCTCGGACTAGGAACCGTGAAGTATGGCCAGCAGAGAGCCGCCAGCAGCTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGGTGAGTCCTAAATGgtacgaaagattgcaacactccacccaacacccatt Alignment from Pairagon GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCG caacatccatgacaaaatgtgtcttgctctcctgctctcttgctttctagGACCTATTGTACCGGCGGCTCCGGGCACTGGCTGACTACGAGAATGCTAACAAAGCACTGGACAAAGCTCGGACTAGGAACCGTGAAGTATGGCCAGCAGAGAGCCGCCAGCAGCTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGgtgagtcctaaatggtacgaaagattgcaacactccacccaacacccatt Alignment from Exonerate_protein2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG caacatccatgacaaaatgtgtcttgctctcctgctctcttgctttctagGACCTATTGTACCGGCGGCTCCGGGCACTGGCTGACTACGAGAATGCTAACAAAGCACTGGACAAAGCTCGGACTAGGAACCGTGAAGTATGGCCAGCAGAGAGCCGCCAGCAGCTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGGTGAGTCCTaaatggtacgaaagattgcaacactccacccaacacccatt Alignment from Exonerate_coding2genome GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGC---CAGCGCTTCGAGCGCCTCTCTGACTCCGCCAAACAAG caacatccatgacaaaatgtgtcttgctctcctgctctcttgctttctagGACCTATTGTACCGGCGGCTCCGGGCACTGGCTGACTACGAGAATGCTAACAAAGCACTGGACAAAGCTCGGACTAGGAACCGTGAAGTATGGCCAGCAGAGAGCCGCCAGCAGCTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGGTGAGTCCTaaatggtacgaaagattgcaacactccacccaacacccatt Alignment from GeneWise GACCTGTTGTACCGGCGGCTTCGGGCACTGGCTGACTACGAGAATGCTAACAAGGCACTGGACAAAGCTCGGACTAGGAACCGAGAAGTACGGCCAGCAGAGAGCCGCCAACAGCTGTGCTGCCAG---CGCTTCGAGCGCCTCTCTGACTCCG caacatccatgacaaaatgtgtcttgctctcctgctctcttgctttctagGACCTATTGTACCGGCGGCTCCGGGCACTGGCTGACTACGAGAATGCTAACAAAGCACTGGACAAAGCTCGGACTAGGAACCGTGAAGTATGGCCAGCAGAGAGCCGCCAGCAGCTGTGCTGCCAGCAGCGCTTTGAGCGCCTCTCTGACTCTGgtgagtcctaaatggtacgaaagattgcaacactccacccaacacccatt #### Snx32_ID1068_10 --> 0 - 0 Original Alignment AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taccaaccctctaggttctctaacaatttgctttcttttacccccaacag---------GGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtagatggcagcctaggaaacctgagcattgaaccatgtggacagtcatc Alignment from CESAR AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG aggaaagactaccaaccctctaggtatttgctttcttttacccccaacag---------GGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtagatggcagcctaggaaacctgagcattgaaccatgtggacagtcatc Alignment from Spaln_aa2Genome AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taccaaccctctaggttctctaacaatttgctttcttttacccccaacag---------GGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtagatggcagcctaggaaacctgagcattgaaccatgtggacagtcatc Alignment from Spaln_nt2Genome GGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taccaaccctctaggttctctaacaatttgctttcttttacccccaacagGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtagatggcagcctaggaaacctgagcattgaaccatgtggacagtcatc Alignment from Pairagon AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taccaaccctctaggttctctaacaatttgctttcttttacccccaacag---------GGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtagatggcagcctaggaaacctgagcattgaaccatgtggacagtcatc Alignment from Exonerate_protein2genome AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taccaaccctctaggttctctaacaatttgctttcttttacCCCCAACAGGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtagatggcagcctaggaaacctgagcattgaaccatgtggacagtcatc Alignment from Exonerate_coding2genome AAACTGGAAGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taccaaccctctaggttctctaacaatttgctttcttttacCCCCAACAGGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtagatggcagcctaggaaacctgagcattgaaccatgtggacagtcatc Alignment from GeneWise GGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAG taccaaccctctaggttctctaacaatttgctttcttttacccccaacagGGCCGGGTAGCCTCTGATGAGGACCTGAAGCTGTCTGACATGCTGAGATATTACATGCGAGACTCACAGGCAGCCAAGgtagatggcagcctaggaaacctgagcattgaaccatgtggacagtcatc #### Snx32_ID1073_5 --> 1 - 0 Original Alignment gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT--------- gaattatgatgaagtccagtagggaggtgaaagatactattttttaacaggGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATATAGCCAGGATATCCGTAAGgtaatgtgattgattcagcataatgggattaaagacaggctaggggaaat Alignment from CESAR gGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT--------- gaattatgatgaagtccagtagggaggtgaaagatactattttttaacaggGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATATAGCCAGGATATCCGTAAGgtaatgtgattgattcagcataatgggattaaagacaggctaggggaaat Alignment from Spaln_aa2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT--------- gaattatgatgaagtccagtagggaggtgaaagatactattttttaacagGGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATATAGCCAGGATATCCGTAAGgtaatgtgattgattcagcataatgggattaaagacaggctaggggaaat Alignment from Spaln_nt2Genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT---- gaattatgatgaagtccagtagggaggtgaaagatactattttttaacagGGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATATAGCCAGGATATCCgtaaggtaatgtgattgattcagcataatgggattaaagacaggctaggggaaat Alignment from Pairagon GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT---- gaattatgatgaagtccagtagggaggtgaaagatactattttttaacagGGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATATAGCCAGGATATCCgtaaggtaatgtgattgattcagcataatgggattaaagacaggctaggggaaat Alignment from Exonerate_protein2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT gaattatgatgaagtccagtagggaggtgaaagatactattttttaacagGGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATATAGCCAGGATatccgtaaggtaatgtgattgattcagcataatgggattaaagacaggctaggggaaat Alignment from Exonerate_coding2genome GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGAT gaattatgatgaagtccagtagggaggtgaaagatactattttttaacagGGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATATAGCCAGGATatccgtaaggtaatgtgattgattcagcataatgggattaaagacaggctaggggaaat Alignment from GeneWise GGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATACAGCCAGGATCTG------ gaattatgatgaagtccagtagggaggtgaaagatactattttttaacagGGAATACTTGGCCATCTTTAAGAAGACTGTTGCGATGCATGAAGTCTTCCTGCAGCGCCTGGCAGCCCATCCCACCCTGCGTCGGGACCACAACTTCTCCGTCTTCTTGGAATATAGCCAGGATATCCGTAAGgtaatgtgattgattcagcataatgggattaaagacaggctaggggaaat #### Snx32_ID1074_4 --> 0 - 2 Original Alignment ------------------ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aggatggatggctgtgacagccctttggccatattctctttgttttaaagTTCATAGCATTCTCTACGCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAAGAGCTAGAAgcgtaagtatttcccccacccctgcccattcctccagggtttcctaacaaag Alignment from CESAR ------------------ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAgc aggatggatggctgtgacagccctttggccatattctctttgttttaaagTTCATAGCATTCTCTACGCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAAGAGCTAGAAgcgtaagtatttcccccacccctgcccattcctccagggtttcctaacaaag Alignment from Spaln_aa2Genome CCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatggctgtgacagccctttggccatattctctttgttttaaagttcatagcattctctacgcttcccccagCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAAGAGCTAGAAGCgtaagtatttcccccacccctgcccattcctccagggtttcctaacaaag Alignment from Spaln_nt2Genome GT-ACGCCGGCCTCATCA-TTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatggctgtgacagccctttggccatattctctttgttttaaagTTCATAGCATTCTCTACGCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAAGAGCTAGAAGCgtaagtatttcccccacccctgcccattcctccagggtttcctaacaaag Alignment from Pairagon -----------ATTCCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatggctgtgacagccctttggccatattctctttgttttaaagttcatagCATTCTCTACGCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAAGAGCTAGAAGCgtaagtatttcccccacccctgcccattcctccagggtttcctaacaaag Alignment from Exonerate_protein2genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatggctgtgacagccctttggccatattctctttgttttaaagttcatagcattctctacgcttcccCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAAGAGCTAGAAGCgtaagtatttcccccacccctgcccattcctccagggtttcctaacaaag Alignment from Exonerate_coding2genome CCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatggctgtgacagccctttggccatattctctttgttttaaagttcatagcattctctacgcttcccCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAAGAGCTAGAAGCgtaagtatttcccccacccctgcccattcctccagggtttcctaacaaag Alignment from GeneWise --------------CCCCCAGCCCCTCCCAGGCCAGACTTTGAGGCTTCAAGGGAAAAGCTGCAGAAGTTGGGTGAGGGCAACAGCTCCATCACCCGGGAAGAATTCTCCAAGATGAAGCAGGAGCTAGAAGC aggatggatggctgtgacagccctttggccatattctctttgttttaaagttcatagCATTCTCTACGCTTCCCCCAGCCCCCCCCAGGTCAGACTTTGAGGCTTCAAGGGAAAAGTTGCAAAAGTTGGGTGAGGGCAACAGCTCGATCACCCGGGAAGAATTCTCCAAGATGAAACAAGAGCTAGAAGCgtaagtatttcccccacccctgcccattcctccagggtttcctaacaaag #### Snx32_ID1075_3 --> 0 - 0 Original Alignment AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC------ aaggcagctttgggtaagaagggatcacttgagctggttgtgttttatagAGTGGCCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTATGAATACACCAGCCTCATTGGTATGgtgagtagcagcagggcagagctggggtgttaggaatatggataaggatg Alignment from CESAR AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAG------TACGCCGGCCTCATC------ aaggcagctttgggtaagaagggatcacttgagctggttgtgttttatagAGTGGCCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTATGAATACACCAGCCTCATTGGTATGgtgagtagcagcagggcagagctggggtgttaggaatatggataaggatg Alignment from Spaln_aa2Genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAA------GAGTACGCCGGCCTCATC------ aaggcagctttgggtaagaagggatcacttgagctggttgtgttttatagAGTGGCCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTATGAATACACCAGCCTCATTGGTATGgtgagtagcagcagggcagagctggggtgttaggaatatggataaggatg Alignment from Spaln_nt2Genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACG------CCGGCCTCATCA aaggcagctttgggtaagaagggatcacttgagctggttgtgttttatagAGTGGCCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTATGAATACACCAGCCTCATTGgtatggtgagtagcagcagggcagagctggggtgttaggaatatggataaggatg Alignment from Pairagon AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACG------CCGGCCTCATC------ aaggcagctttgggtaagaagggatcacttgagctggttgtgttttatagAGTGGCCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTATGAATACACCAGCCTCATTGGTATGgtgagtagcagcagggcagagctggggtgttaggaatatggataaggatg Alignment from Exonerate_protein2genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC aaggcagctttgggtaagaagggatcacttgagctggttgtgttttatagAGTGGCCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTATGAATACACCAGCctcattggtatggtgagtagcagcagggcagagctggggtgttaggaatatggataaggatg Alignment from Exonerate_coding2genome AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTACGCCGGCCTCATC aaggcagctttgggtaagaagggatcacttgagctggttgtgttttatagAGTGGCCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTATGAATACACCAGCctcattggtatggtgagtagcagcagggcagagctggggtgttaggaatatggataaggatg Alignment from GeneWise AGTGGCCTCCCTCACTTTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCACGAAGAGTTCATCTGGCTACATGACACCTATGTGGAAAACGAAGAGTAC------GCCGGCCTCATC------ aaggcagctttgggtaagaagggatcacttgagctggttgtgttttatagAGTGGCCTCCCTCACTCTGCCCAGTCTGAGTTCTCAGTGGTTCGCCAGCATGAAGAGTTCATCTGGCTACATGACACCTATGTAGAAAACGAAGAGTATGAATACACCAGCCTCATTGGTATGgtgagtagcagcagggcagagctggggtgttaggaatatggataaggatg #### Sptbn2_ID610_5 --> 1 - 2 Original Alignment aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg tgacagagcacccagtccacggacaataaaggtatatgtgtttgctacaga------------------CATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcggtaggtaggtggggttagtgacccaggtacacatagatgggcagggtgag Alignment from CESAR aTACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcg ctctatccagtccttatatgacagaataaaggtatatgtgtttgctacaga------------------CATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACcggtaggtaggtggggttagtgacccaggtacacatagatgggcagggtgag Alignment from Spaln_aa2Genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tgacagagcacccagtccacggacaataaaggtatatgtgtttgctacagA------------------CATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtaggtaggtggggttagtgacccaggtacacatagatgggcagggtgag Alignment from Spaln_nt2Genome TGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tgacagagcacccagtccacggacaataaaggtatatgtgtttgctacag---ACATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtaggtaggtggggttagtgacccaggtacacatagatgggcagggtgag Alignment from Pairagon ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tgacagagcacccagtccacggacaataaaggtatatgtgtttgctacagA------------------CATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtaggtaggtggggttagtgacccaggtacacatagatgggcagggtgag Alignment from Exonerate_protein2genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tgacagagcacccagtccacggacaataaaggTATATGTGTTTGCTACAGACATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtaggtaggtggggttagtgacccaggtacacatagatgggcagggtgag Alignment from Exonerate_coding2genome ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tgacagagcacccagtccacggacaataaaggTATATGTGTTTGCTACAGACATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtaggtaggtggggttagtgacccaggtacacatagatgggcagggtgag Alignment from GeneWise ATACCCCAATGTCAATGTGCACAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCG tgacagagcacccagtccacggacaataaaggtatatgtgtttgctacagA------------------CATAACTTTACCACCAGTTGGAGAGATGGGCTGGCCTTTAATGCCATTGTGCACAAACACCGgtaggtaggtggggttagtgacccaggtacacatagatgggcagggtgag #### Sptbn2_ID634_29 --> 2 - 0 Original Alignment ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aaccttcgaactctctataaacatctctaatgttatttctgtgcttctagtt---------CTTGTGTTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcagtaccccagaggtgaccaaccccattactgccctattt Alignment from CESAR ttTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG ttgcactctaaccttcgaactctcttctaatgttatttctgtgcttctagtt---------CTTGTGTTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcagtaccccagaggtgaccaaccccattactgccctattt Alignment from Spaln_aa2Genome TGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aaccttcgaactctctataaacatctctaatgttatttctgtgcttctagTTCTTGTGTTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcagtaccccagaggtgaccaaccccattactgccctattt Alignment from Spaln_nt2Genome TGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aaccttcgaactctctataaacatctctaatgttatttctgtgcttctagTTCTTGTGTTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcagtaccccagaggtgaccaaccccattactgccctattt Alignment from Pairagon TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aaccttcgaactctctataaacatctctaatgttatttctgtgcttctagTT---------CTTGTGTTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcagtaccccagaggtgaccaaccccattactgccctattt Alignment from Exonerate_protein2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aaccttcgaactctctataaacatctctaatgttatttctgTGCTTCTAGTTCTTGTGTTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcagtaccccagaggtgaccaaccccattactgccctattt Alignment from Exonerate_coding2genome TTTTGGAGGTGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aaccttcgaactctctataaacatctctaatgttatttctgTGCTTCTAGTTCTTGTGTTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcagtaccccagaggtgaccaaccccattactgccctattt Alignment from GeneWise TGCTTGTGTTTGGGAGAGATGCAGGGATGGCGGAGGCCTGGCTGTGCAGTCAGGAGCCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGACGAAGTAGAGAGCCTCATCAAGCGACACGAAGCCTTTCAGAAGTCGGCCGTGGCCTGGGAAGAGCGTTTCAGTGCGCTGGAGAAGCTCACTGCG aaccttcgaactctctataaacatctctaatgttatttctgtgcttctagTTCTTGTGTTTGGGAGGGATGCAGGGATGGCAGAGGCCTGGCTGTGCAGTCAGGCACCATTGGTGCGAAGTGCAGAACTGGGTTGCACTGTGGATGAAGTAGAGAGCCTCATCAAGCGGCATGAAGCCTATCAGAAGTCAGCTGTGGCCTGGGAAGAGCGTTTCAGTGCACTGGATAAGCTCACTGCAgtaagtactgcagtaccccagaggtgaccaaccccattactgccctattt #### Sptbn2_ID637_32 --> 0 - 0 Original Alignment ---CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT cctttcaactcagccagcatctggatccgactcccgacccctccccgtagATCCCCCTGTTGGAACAGCAGAGACTTGAACAGGGCAATGTCCCTGAGGGACCTgtgagtctagctaatggcctaggtatgggtgtcaagagatgagggcgcaa Alignment from CESAR ---CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT cctttcaactcagccagcatctggatccgactcccgacccctccccgtagATCCCCCTGTTGGAACAGCAGAGACTTGAACAGGGCAATGTCCCTGAGGGACCTgtgagtctagctaatggcctaggtatgggtgtcaagagatgagggcgcaa Alignment from Spaln_aa2Genome CCCCTGTTGGAA---CAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT cctttcaactcagccagcatctggatccgactcccgacccctccccgtagATCCCCCTGTTGGAACAGCAGAGACTTGAACAGGGCAATGTCCCTGAGGGACCTgtgagtctagctaatggcctaggtatgggtgtcaagagatgagggcgcaa Alignment from Spaln_nt2Genome CCCCTGTTG---GAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT cctttcaactcagccagcatctggatccgactcccgacccctccccgtagATCCCCCTGTTGGAACAGCAGAGACTTGAACAGGGCAATGTCCCTGAGGGACCTgtgagtctagctaatggcctaggtatgggtgtcaagagatgagggcgcaa Alignment from Pairagon ---CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT cctttcaactcagccagcatctggatccgactcccgacccctccccgtagATCCCCCTGTTGGAACAGCAGAGACTTGAACAGGGCAATGTCCCTGAGGGACCTgtgagtctagctaatggcctaggtatgggtgtcaagagatgagggcgcaa Alignment from Exonerate_protein2genome ---CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT cctttcaactcagccagcatctggatccgactcccgacccctccccgtagATCCCCCTGTTGGAACAGCAGAGACTTGAACAGGGCAATGTCCCTGAGGGACCTgtgagtctagctaatggcctaggtatgggtgtcaagagatgagggcgcaa Alignment from Exonerate_coding2genome ---CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT cctttcaactcagccagcatctggatccgactcccgacccctccccgtagATCCCCCTGTTGGAACAGCAGAGACTTGAACAGGGCAATGTCCCTGAGGGACCTgtgagtctagctaatggcctaggtatgggtgtcaagagatgagggcgcaa Alignment from GeneWise ---CCCCTGTTGGAACAGCAGAGACTTGAACAGAGCAATGTCCCCGAAGGACCT cctttcaactcagccagcatctggatccgactcccgacccctccccgtagATCCCCCTGTTGGAACAGCAGAGACTTGAACAGGGCAATGTCCCTGAGGGACCTgtgagtctagctaatggcctaggtatgggtgtcaagagatgagggcgcaa #### Sptbn2_ID638_33 --> 0 - 2 Original Alignment GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC------ag gggaaggatacaattgatgtcatcctttgagattgttctatttgaaatagGGATCTGGTACAGGAGATGAGTCCCGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCACGTGGCCCTGCTCCTTCTCCCATGCCCCAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCCTACCCACGCGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACACCCGTaggtaagtatcatgccttggctgtactgaggcctgtggcctctcaggttctg Alignment from CESAR GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC------ag gggaaggatacaattgatgtcatcctttgagattgttctatttgaaatagGGATCTGGTACAGGAGATGAGTCCCGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCACGTGGCCCTGCTCCTTCTCCCATGCCCCAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCCTACCCACGCGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACACCCGTaggtaagtatcatgccttggctgtactgaggcctgtggcctctcaggttctg Alignment from Spaln_aa2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACAGG----- gggaaggatacaattgatgtcatcctttgagattgttctatttgaaatagGGATCTGGTACAGGAGATGAGTCCCGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCACGTGGCCCTGCTCCTTCTCCCATGCCCCAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCCTACCCACGCGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACACCCGTAGgtaagtatcatgccttggctgtactgaggcctgtggcctctcaggttctg Alignment from Spaln_nt2Genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAACA------G gggaaggatacaattgatgtcatcctttgagattgttctatttgaaatagGGATCTGGTACAGGAGATGAGTCCCGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCACGTGGCCCTGCTCCTTCTCCCATGCCCCAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCCTACCCACGCGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACACCCGTAGgtaagtatcatgccttggctgtactgaggcctgtggcctctcaggttctg Alignment from Pairagon GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC------AG gggaaggatacaattgatgtcatcctttgagattgttctatttgaaatagGGATCTGGTACAGGAGATGAGTCCCGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCACGTGGCCCTGCTCCTTCTCCCATGCCCCAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCCTACCCACGCGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACACCCGTAGgtaagtatcatgccttggctgtactgaggcctgtggcctctcaggttctg Alignment from Exonerate_protein2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC------AG gggaaggatacaattgatgtcatcctttgagattgttctatttgaaatagGGATCTGGTACAGGAGATGAGTCCCGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCACGTGGCCCTGCTCCTTCTCCCATGCCCCAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCCTACCCACGCGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACACCCGTAGgtaagtatcatgccttggctgtactgaggcctgtggcctctcaggttctg Alignment from Exonerate_coding2genome GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC------AG gggaaggatacaattgatgtcatcctttgagattgttctatttgaaatagGGATCTGGTACAGGAGATGAGTCCCGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCACGTGGCCCTGCTCCTTCTCCCATGCCCCAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCCTACCCACGCGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACACCCGTAGgtaagtatcatgccttggctgtactgaggcctgtggcctctcaggttctg Alignment from GeneWise GGATCTGGCACAGGAGACGAGTCCAGTGGGCCCCGGGGAGAGAGGCAGACCCTGCCCCGGGGCCCTGCTCCTTCTCCAATGCCCCAGAGCAGATCATCTGAAGCAGCTCATGGTGCCACCCTGCCCACACGAGGACCTGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAGATGGAAGCCTTCAACAAGAAAGCTGCCAAC---AGG-- gggaaggatacaattgatgtcatcctttgagattgttctatttgaaatagGGATCTGGTACAGGAGATGAGTCCCGTGGGCCCCAGGGAGAGAGGCAGACCTTGCCACGTGGCCCTGCTCCTTCTCCCATGCCCCAAAGCAGATCATCAGAAGCAGCTCATGGTGCCACCCTACCCACGCGAGGACCAGAGCTCTCTGCTCAGGAACAGATGGAAGGGATGCTGTGCCGCAAACAAGAAATGGAAGCCTTCAACAAGAAAGCTGCCAACACCCGTAGgtaagtatcatgccttggctgtactgaggcctgtggcctctcaggttctg #### Sptbn2_ID639_34 --> 1 - 2 Original Alignment g---------TCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgg cactttgtaggaacttctcctttgagaatagctttgtcttgtggccacaggATTGCCTGCTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCATAC------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgggtgagctttccaagctggattaagcacctgggctcctcttgggttggggg Alignment from CESAR g---------TCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgg cactttgtaggaacttctcctttgagaatagctttgtcttgtggccacaggATTGCCTGCTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCATAC------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGgggtgagctttccaagctggattaagcacctgggctcctcttgggttggggg Alignment from Spaln_aa2Genome GTCATGGCAG---------AATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactttgtaggaacttctcctttgagaatagctttgtcttgtggccacagGATTGCCTGCTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCATAC------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGGgtgagctttccaagctggattaagcacctgggctcctcttgggttggggg Alignment from Spaln_nt2Genome GTCATGGCAGA---------ATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactttgtaggaacttctcctttgagaatagctttgtcttgtggccacagGATTGCCTGCTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCATAC------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGGgtgagctttccaagctggattaagcacctgggctcctcttgggttggggg Alignment from Pairagon G---------TCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactttgtaggaacttctcctttgagaatagctttgtcttgtggccacagGATTGCCTGCTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCATAC------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGGgtgagctttccaagctggattaagcacctgggctcctcttgggttggggg Alignment from Exonerate_protein2genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactttgtaggaacttctcctttgagaatagctttgtcttgtggccacaggattgcctgCTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCATAC------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGGgtgagctttccaagctggattaagcacctgggctcctcttgggttggggg Alignment from Exonerate_coding2genome GTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactttgtaggaacttctcctttgagaatagctttgtcttgtggccacaggattgcctgCTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCATAC------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGGgtgagctttccaagctggattaagcacctgggctcctcttgggttggggg Alignment from GeneWise -------AGGTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCCTACCATGGAGAAGTGCCTGTCAGCCTGGCCAGGGCCCAGGGAAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGG cactttgtaggaacttctcctttgagaatagctttgtcttgtggccacagGATTGCCTGCTCATGGCAGAATGTGTACTGTGTACTTCGGCGTGGGAGCCTCGGCTTTTACAAGGATGCCAGGGCAGCTAGTGCAGGAGTGCCATAC------GAAGTGCCTGTCAGCCTGGCCAGGGCCCAAGGTAGTGTGGCCTTTGATTATCGGAAACGCAAACATGTTTTCAAGCTGGGgtgagctttccaagctggattaagcacctgggctcctcttgggttggggg #### Ssh3_ID444_12 --> 1 - 2 Original Alignment aGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCag gctacccttaatgtgactgtgcatggacaatcacatgtcttccattcaaga------------------------------AAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGGAGCTCCGCCCCATAGTACACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCaggtatgcgtggagaggtcaagggtggtgttgtgtatactgaggggtggctc Alignment from CESAR aGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCag aggctacttgggttggaaaggcatggacaatcacatgtcttccattcaaga------------------------------AAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGGAGCTCCGCCCCATAGTACACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCaggtatgcgtggagaggtcaagggtggtgttgtgtatactgaggggtggctc Alignment from Spaln_aa2Genome TAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gctacccttaatgtgactgtgcatggacaatcacatgtcttccattcaagAAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGGAGCTCCGCCCCATAGTACACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtatgcgtggagaggtcaagggtggtgttgtgtatactgaggggtggctc Alignment from Spaln_nt2Genome TAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gctacccttaatgtgactgtgcatggacaatcacatgtcttccattcaagAAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGGAGCTCCGCCCCATAGTACACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtatgcgtggagaggtcaagggtggtgttgtgtatactgaggggtggctc Alignment from Pairagon AGCACAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gctacccttaatgtgactgtgcatggacaatcacatgtcttccattcaagA------------------------------AAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGGAGCTCCGCCCCATAGTACACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtatgcgtggagaggtcaagggtggtgttgtgtatactgaggggtggctc Alignment from Exonerate_protein2genome CAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gctacccttaatgtgactgtgcatGGACAATCACATGTCTTCCATTCAAGAAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGGAGCTCCGCCCCATAGTACACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtatgcgtggagaggtcaagggtggtgttgtgtatactgaggggtggctc Alignment from Exonerate_coding2genome CAGGGCACTCGGGTGCTAGTCCACTGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG gctacccttaatgtgactgtgcatGGACAATCACATGTCTTCCATTCAAGAAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGGAGCTCCGCCCCATAGTACACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtatgcgtggagaggtcaagggtggtgttgtgtatactgaggggtggctc Alignment from GeneWise CAGGGCACTCGGGTGCTAGTCCAC------------------------TGTAAGATGGGTGTCAGCCGTTCTGCCGCCACGGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCTGGAGCAAGCCCTGATCCACGTGCAGGAGCTCCGGCCCATTGTACGCCCCAACCACGGCTTCCTGCGCCAGCTACGGACCTACCAGGGCATTCTGACTGCCAG GCTACCCTTAATGTGACTGTGCATGGACAATCACATGTCTTCCATTCAAGAAAGACAGGTGTCAGCCGATCAGCTGCAACAGTACTAGCCTATGCCATGAAACAGTATGGCTGGGACCCAGAGCAAGCCCTGATCCATGTGCAGGAGCTCCGCCCCATAGTACACCCCAATCACAGTTTTCTGCACCAGCTACGGACCTACCAAGGCATTTTGACTGCCAGgtatgcgtggagaggtcaagggtggtgttgtgtatactgaggggtggctc #### Ssh3_ID447_9 --> 0 - 0 Original Alignment ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTGGAA ttcataatggggggcccattcttttgcctcctgatgctctcgctctgcagATCCATCAGGCCCTGGAACTACGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCGGACATCTCGCATCTTCCCGCAC---------gtaagcgtcgccccatcttccacgttgtctctgtagGGCTCTGAGTGGAA Alignment from CESAR ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTC ttcataatggggggcccattcttttgcctcctgatgctctcgctctgcagATCCATCAGGCCCTGGAACTACGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCGGACATCTCGCATCTTCCCGCAC---------gtaagcgtcgcttatgcagtcctatttcatcaccagGGCTC Alignment from Spaln_aa2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCAC CTCTACTTGGGCTC ttcataatggggggcccattcttttgcctcctgatgctctcgctctgcagATCCATCAGGCCCTGGAACTACGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCGGACATCTCGCATCTTCCCGCACgtaagcgtcgccccatcttccacgttgtctctgtag---------GGCTC Alignment from Spaln_nt2Genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCAC CTCTACTTGGGCTC ttcataatggggggcccattcttttgcctcctgatgctctcgctctgcagATCCATCAGGCCCTGGAACTACGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCGGACATCTCGCATCTTCCCGCACgtaagcgtcgccccatcttccacgttgtctctgtag---------GGCTC Alignment from Pairagon ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCAC CTCTACTTGGGCTC ttcataatggggggcccattcttttgcctcctgatgctctcgctctgcagATCCATCAGGCCCTGGAACTACGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCGGACATCTCGCATCTTCCCGCACgtaagcgtcgccccatcttccacgttgtctctgtag---------GGCTC Alignment from Exonerate_protein2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCAC CTCTACTTGGGCTC ttcataatggggggcccattcttttgcctcctgatgctctcgctctgcagATCCATCAGGCCCTGGAACTACGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCGGACATCTCGCATCTTCCCGCACgtaagcgtcgccccatcttccacgttgtctctgtag---------GGCTC Alignment from Exonerate_coding2genome ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCAC CTCTACTTGGGCTC ttcataatggggggcccattcttttgcctcctgatgctctcgctctgcagATCCATCAGGCCCTGGAACTACGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCGGACATCTCGCATCTTCCCGCACgtaagcgtcgccccatcttccacgttgtctctgtag---------GGCTC Alignment from GeneWise ATCCGTCAGGCCCTGGAGCTGCGTCTGGGATGTCCTCTCCAGCAGTACCGTGACTTTATTGACAACCAGATGTTGCTGCTCATGGCCCAGCAAGACCGGGCCTCTCGCATCTTCCCCCACCTCTACTTG GGCTCTGAGTG ttcataatggggggcccattcttttgcctcctgatgctctcgctctgcagATCCATCAGGCCCTGGAACTACGTCTTGGATGTCCTCTCCAGCAATACCGTGACTTTATTGACAACCAGATGCTGCTTCTCATGGCCCAGCAAGATCGGACATCTCGCATCTTCCCGCACGTA---AGCgtcgccccatcttccacgttgtctctgtagGGCTCTGAGTG #### Ssh3_ID448_8 --> 1 - 0 Original Alignment gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ctggtggtaactaagtgaaatggaccccatttttttttttccctctgtagg---TCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGTTGAATTGTGGCAGGTGTTGGATACCAGTGACCTTGAGAGTGTCACTTCTAAAGAGgtgagcatgatggctaggccagcctgagacttgccttcccttgtgactct Alignment from CESAR gGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG gtgctggtggtaactaagtgaaatgcccatttttttttttccctctgtagg---TCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGTTGAATTGTGGCAGGTGTTGGATACCAGTGACCTTGAGAGTGTCACTTCTAAAGAGgtgagcatgatggctaggccagcctgagacttgccttcccttgtgactct Alignment from Spaln_aa2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ctggtggtaactaagtgaaatggaccccatttttttttttccctctgtagG---TCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGTTGAATTGTGGCAGGTGTTGGATACCAGTGACCTTGAGAGTGTCACTTCTAAAGAGgtgagcatgatggctaggccagcctgagacttgccttcccttgtgactct Alignment from Spaln_nt2Genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ctggtggtaactaagtgaaatggaccccatttttttttttccctctgtagG---TCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGTTGAATTGTGGCAGGTGTTGGATACCAGTGACCTTGAGAGTGTCACTTCTAAAGAGgtgagcatgatggctaggccagcctgagacttgccttcccttgtgactct Alignment from Pairagon GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ctggtggtaactaagtgaaatggaccccatttttttttttccctctgtagG---TCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGTTGAATTGTGGCAGGTGTTGGATACCAGTGACCTTGAGAGTGTCACTTCTAAAGAGgtgagcatgatggctaggccagcctgagacttgccttcccttgtgactct Alignment from Exonerate_protein2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ctggtggtaactaagtgaaatggaccccatttttttttttccctctgTAGGTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGTTGAATTGTGGCAGGTGTTGGATACCAGTGACCTTGAGAGTGTCACTTCTAAAGAGgtgagcatgatggctaggccagcctgagacttgccttcccttgtgactct Alignment from Exonerate_coding2genome GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ctggtggtaactaagtgaaatggaccccatttttttttttccctctgTAGGTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGTTGAATTGTGGCAGGTGTTGGATACCAGTGACCTTGAGAGTGTCACTTCTAAAGAGgtgagcatgatggctaggccagcctgagacttgccttcccttgtgactct Alignment from GeneWise GGCTTCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGCTGAATTGTGGCAGGTGTTGGACACCAGTGACCTGGACAGTGTCACTTCTAAAGAG ctggtggtaactaagtgaaatggaccccatttttttttttccctctgtagG---TCAGAGCAGGAAAAGATGGAGCAGGCGATCCTGGTTGAATTGTGGCAGGTGTTGGATACCAGTGACCTTGAGAGTGTCACTTCTAAAGAGgtgagcatgatggctaggccagcctgagacttgccttcccttgtgactct #### Ssh3_ID449_7 --> 1 - 2 Original Alignment gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca gagtttaagagttccaagcaccctgactccattttctattgtcaatatagg---------------------------TGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGAGAAACTTAACTCTGACCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAcagtgagtactggggcaggttggagcatggggacaaggaggaagaggaggtg Alignment from CESAR gGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAca ggagggaaccaagtatgatggagtgactccattttctattgtcaatatagg---------------------------TGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGAGAAACTTAACTCTGACCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGAcagtgagtactggggcaggttggagcatggggacaaggaggaagaggaggtg Alignment from Spaln_aa2Genome GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA gagtttaagagttccaagcaccctgactccattttctattgtcaatatagG---------------------------TGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGAGAAACTTAACTCTGACCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACAgtgagtactggggcaggttggagcatggggacaaggaggaagaggaggtg Alignment from Spaln_nt2Genome CATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA gagtttaagagttccaagcaccctgactccattttctattgtcaatatag-GTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGAGAAACTTAACTCTGACCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACAgtgagtactggggcaggttggagcatggggacaaggaggaagaggaggtg Alignment from Pairagon GGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA gagtttaagagttccaagcaccctgactccattttctattgtcaatatagG---------------------------TGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGAGAAACTTAACTCTGACCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACAgtgagtactggggcaggttggagcatggggacaaggaggaagaggaggtg Alignment from Exonerate_protein2genome ATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA gagtttaagagttccaagcaccctgactccattttctattgtcaatatagGTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGAGAAACTTAACTCTGACCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACAgtgagtactggggcaggttggagcatggggacaaggaggaagaggaggtg Alignment from Exonerate_coding2genome ATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA gagtttaagagttccaagcaccctgactccattttctattgtcaatatagGTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGAGAAACTTAACTCTGACCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACAgtgagtactggggcaggttggagcatggggacaaggaggaagaggaggtg Alignment from GeneWise ----------TGGGCCACACTGCAGGTATTGCACCAGGCATGTGAGGTAGCTCTAGGCAGTGGCCTTGTGCCTGGTGGCAGTGCCCTTGCCTGGGCTACTTACTACCAGGAGAAACTCAACTCTGACCAGGGTTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACA gagtttaagagTTCCAAGCACCCTGACTCCATTTTCTATTGTCAATATAGGTGTGAGGTAGCTCTTGGTAGTGGCCTTGTGCCTGGTGGCAGTGCTCTTGCATGGGCTACTTACTACCAGGAGAAACTTAACTCTGACCAGGGCTGCCTCAATGAGTGGATGGCCATGTCTGACCTGGAGTCCTTTCGACCACCTAATGCTGAGCCTGGACAgtgagtactggggcaggttggagcatggggacaaggaggaagaggaggtg #### Stip1_ID1988_13 --> 0 - 2 Original Alignment GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---------ga gtgacccatatagtgttgatatgccccctctctaatctgttgtattacagGAAGCAGCAGATGGTTACCAACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCTGAGGATGTGAAGCGGCAGGCCATGGCCGACCCTGAGGTTCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCTTATTTGTAgagtgagctgagtggggaagtgagagagaattttatgtttctttcagtgaac Alignment from CESAR GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---------ga gtgacccatatagtgttgatatgccccctctctaatctgttgtattacagGAAGCAGCAGATGGTTACCAACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCTGAGGATGTGAAGCGGCAGGCCATGGCCGACCCTGAGGTTCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCTTATTTGTAgagtgagctgagtggggaagtgagagagaattttatgtttctttcagtgaac Alignment from Spaln_aa2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGAA-------- gtgacccatatagtgttgatatgccccctctctaatctgttgtattacagGAAGCAGCAGATGGTTACCAACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCTGAGGATGTGAAGCGGCAGGCCATGGCCGACCCTGAGGTTCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCTTATTTGTAGAgtgagctgagtggggaagtgagagagaattttatgtttctttcagtgaac Alignment from Spaln_nt2Genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---------GA gtgacccatatagtgttgatatgccccctctctaatctgttgtattacagGAAGCAGCAGATGGTTACCAACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCTGAGGATGTGAAGCGGCAGGCCATGGCCGACCCTGAGGTTCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCTTATTTGTAGAgtgagctgagtggggaagtgagagagaattttatgtttctttcagtgaac Alignment from Pairagon GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---------GA gtgacccatatagtgttgatatgccccctctctaatctgttgtattacagGAAGCAGCAGATGGTTACCAACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCTGAGGATGTGAAGCGGCAGGCCATGGCCGACCCTGAGGTTCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCTTATTTGTAGAgtgagctgagtggggaagtgagagagaattttatgtttctttcagtgaac Alignment from Exonerate_protein2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA gtgacccatatagtgttgatatgccccctctctaatctgttgtattacagGAAGCAGCAGATGGTTACCAACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCTGAGGATGTGAAGCGGCAGGCCATGGCCGACCCTGAGGTTCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCTTatttgtagagtgagctgagtggggaagtgagagagaattttatgtttctttcagtgaac Alignment from Exonerate_coding2genome GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCGA gtgacccatatagtgttgatatgccccctctctaatctgttgtattacagGAAGCAGCAGATGGTTACCAACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCTGAGGATGTGAAGCGGCAGGCCATGGCCGACCCTGAGGTTCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCTTatttgtagagtgagctgagtggggaagtgagagagaattttatgtttctttcagtgaac Alignment from GeneWise GAAGCAGCAGATGGTTACCAACGCTGTATGATGGCACAGTACAACAGACATGATAGCCCTGAGGATGTGAAGCGGCGGGCCATGGCTGACCCTGAGGTGCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGC---------GA gtgacccatatagtgttgatatgccccctctctaatctgttgtattacagGAAGCAGCAGATGGTTACCAACGTTGCATGATGGCACAGTACAACAGACATGACAGCCCTGAGGATGTGAAGCGGCAGGCCATGGCCGACCCTGAGGTTCAGCAGATAATGAGTGACCCAGCCATGAGACTCATCCTGGAGCAGATGCAAAAGGACCCCCAGGCTCTGAGCTTATTTGTAGAgtgagctgagtggggaagtgagagagaattttatgtttctttcagtgaac #### Stip1_ID1989_12 --> 2 - 0 Original Alignment tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ggatcgtggccaagtaatactaagttgtaccaatctgaccctacttgcagacAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCATTAGACCTGGACTCCAGT------gtgagtacccagtgctgttggcctatgcacacatccctgttgacttcccc Alignment from CESAR tcAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ggatcgtggccaagtaatactaagttgtaccaatctgaccctacttgcagacAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCATTAGACCTGGACTCCAGT------gtgagtacccagtgctgttggcctatgcacacatccctgttgac Alignment from Spaln_aa2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGC ggatcgtggccaagtaatactaagttgtaccaatctgaccctacttgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCATTAGACCTGGACTCCAGTgtgagtacccagtgctgttggcctatgcacacatccctgttgacttcccc Alignment from Spaln_nt2Genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGC ggatcgtggccaagtaatactaagttgtaccaatctgaccctacttgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCATTAGACCTGGACTCCAGTgtgagtacccagtgctgttggcctatgcacacatccctgttgacttcccc Alignment from Pairagon TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGC ggatcgtggccaagtaatactaagttgtaccaatctgaccctacttgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCATTAGACCTGGACTCCAGTgtgagtacccagtgctgttggcctatgcacacatccctgttgacttcccc Alignment from Exonerate_protein2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTA ggatcgtggccaagtaatactaagttgtaccaatctgaccctacttgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCATTAGACCTGGACTCCAGTGTGAgtacccagtgctgttggcctatgcacacatccctgttgacttcccc Alignment from Exonerate_coding2genome TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTA ggatcgtggccaagtaatactaagttgtaccaatctgaccctacttgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCATTAGACCTGGACTCCAGTGTGAgtacccagtgctgttggcctatgcacacatccctgttgacttcccc Alignment from GeneWise TCAAGGGTTATACACGGAAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCGTTAGACCTGGACTCCAGCTGTAAG ggatcgtggccaagtaatactaagttgtaccaatctgaccctacttgcagACAAGGGTTATACCCGGCAAGCAGCTGCTCTGGAAGCCATGAAGGACTATACAAAAGCCATGGATGTGTACCAAAAAGCATTAGACCTGGACTCC------AGTgtgagtacccagtgctgttggcctatgcacacatccctgttgacttcccc #### Stx3_ID3299_7 --> 2 - 0 Original Alignment ctGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagtggtacactgagcctatcttttttctctgtgttgattttccagctGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAATCCAGCCATCTTCACT------gtgagtccatgtaacatctgcacttggttcagtagactggaatgagccca Alignment from CESAR ctGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagtggtacactgagcctatcttttttctctgtgttgattttccagctGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAATCCAGCCATCTTCACT------gtgagtccatgtaacatctgcacttggttcagtagactggaatg Alignment from Spaln_aa2Genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACT agcagagtggtacactgagcctatcttttttctctgtgttgattttccagCTGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAATCCAGCCATCTTCACTgtgagtccatgtaacatctgcacttggttcagtagactggaatgagccca Alignment from Spaln_nt2Genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACT agcagagtggtacactgagcctatcttttttctctgtgttgattttccagCTGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAATCCAGCCATCTTCACTgtgagtccatgtaacatctgcacttggttcagtagactggaatgagccca Alignment from Pairagon CTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACT agcagagtggtacactgagcctatcttttttctctgtgttgattttccagCTGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAATCCAGCCATCTTCACTgtgagtccatgtaacatctgcacttggttcagtagactggaatgagccca Alignment from Exonerate_protein2genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagtggtacactgagcctatcttttttctctgtgttgattttccagCTGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAATCCAGCCATCTTCACTGTGAGTccatgtaacatctgcacttggttcagtagactggaatgagccca Alignment from Exonerate_coding2genome CTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACTTCTGGG agcagagtggtacactgagcctatcttttttctctgtgttgattttccagCTGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAATCCAGCCATCTTCACTGTGAGTccatgtaacatctgcacttggttcagtagactggaatgagccca Alignment from GeneWise CTGGCAAGAAGACAACAGATGAGGAGCTGGAAGAGATGTTGGAGAGTGGCAACCCAGCCATCTTCACT agcagagtggtacactgagcctatcttttttctctgtgttgattttccagCTGGCAAGAAGACAACAGATGAGGAGCTAGAGGAGATGTTGGAGAGTGGCAATCCAGCCATCTTCACTgtgagtccatgtaacatctgcacttggttcagtagactggaatgagccca #### Syvn1_ID1383_2 --> 0 - 0 Original Alignment GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggtaagtggaaagtaacctcaaattgtctctctcttaaccctccagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATG---gtaattagttaaaggcagggttcaggggagggtgcccaaatgcatttttc Alignment from CESAR GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggtaagtggaaagtaacctcaaattgtctctctcttaaccctccagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATG---gtaattagttaaaggcagggttcaggggagggtgcccaaatgcattt Alignment from Spaln_aa2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATG caggggtaagtggaaagtaacctcaaattgtctctctcttaaccctccagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGgtaattagttaaaggcagggttcaggggagggtgcccaaatgcatttttc Alignment from Spaln_nt2Genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG---- caggggtaagtggaaagtaacctcaaattgtctctctcttaaccctccagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGTAATTAgttaaaggcagggttcaggggagggtgcccaaatgcatttttc Alignment from Pairagon GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGG------------------------------------------------- caggggtaagtggaaagtaacctcaaattgtctctctcttaaccctccagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGTAATTAGTTAAAGGCAGGGTTCAGGGGAGGGTGCCCAAATGCATTTTTC Alignment from Exonerate_protein2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggtaagtggaaagtaacctcaaattgtctctctcttaaccctccagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGTAattagttaaaggcagggttcaggggagggtgcccaaatgcatttttc Alignment from Exonerate_coding2genome GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggtaagtggaaagtaacctcaaattgtctctctcttaaccctccagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGTAattagttaaaggcagggttcaggggagggtgcccaaatgcatttttc Alignment from GeneWise GTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGCAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAGATGGAG caggggtaagtggaaagtaacctcaaattgtctctctcttaaccctccagGTCCTGTACATCCAGGCCTTTGTCCTTGTCTTCCTCTTGGGCAAGGTGATGGGGAAGGTGTTCTTCGGGCAGCTGAGGGCAGCAGAG---ATGgtaattagttaaaggcagggttcaggggagggtgcccaaatgcatttttc #### Syvn1_ID1385_4 --> 0 - 1 Original Alignment ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTC------------t ggggtgtggggcacctccaaccatcttgtgacttcctctctctcttccagATGGAGCGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGTATTGTCGAATCCATTGAAtgtaagggatacctgatactcattgaagctgtgcgtgtaatttgtttgagg Alignment from CESAR ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTC------------t ggggtgtggggcacctccaaccatcttgtgacttcctctctctcttccagATGGAGCGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGTATTGTCGAATCCATTGAAtgtaagggatacctgatactcattgaagctgtgcgtgtaatttgtttgagg Alignment from Spaln_aa2Genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTC------------T ggggtgtggggcacctccaaccatcttgtgacttcctctctctcttccagATGGAGCGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGTATTGTCGAATCCATTGAATgtaagggatacctgatactcattgaagctgtgcgtgtaatttgtttgagg Alignment from Spaln_nt2Genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTC------------T ggggtgtggggcacctccaaccatcttgtgacttcctctctctcttccagATGGAGCGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGTATTGTCGAATCCATTGAATgtaagggatacctgatactcattgaagctgtgcgtgtaatttgtttgagg Alignment from Pairagon ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTC------------T ggggtgtggggcacctccaaccatcttgtgacttcctctctctcttccagATGGAGCGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGTATTGTCGAATCCATTGAATgtaagggatacctgatactcattgaagctgtgcgtgtaatttgtttgagg Alignment from Exonerate_protein2genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCG ggggtgtggggcacctccaaccatcttgtgacttcctctctctcttccagATGGAGCGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGTATTGtcgaatccattgaatgtaagggatacctgatactcattgaagctgtgcgtgtaatttgtttgagg Alignment from Exonerate_coding2genome ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCG ggggtgtggggcacctccaaccatcttgtgacttcctctctctcttccagATGGAGCGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGTATTGtcgaatccattgaatgtaagggatacctgatactcattgaagctgtgcgtgtaatttgtttgagg Alignment from GeneWise ATGGAACGCAGCCCCAACATCTCCTGGCTCTTCCACTGCCGCATCGTC------------T ggggtgtggggcacctccaaccatcttgtgacttcctctctctcttccagATGGAGCGTAGCCCCAACATCTCCTGGCTCTTCCACTGCCGTATTGTCGAATCCATTGAATgtaagggatacctgatactcattgaagctgtgcgtgtaatttgtttgagg #### Syvn1_ID1387_6 --> 0 - 1 Original Alignment TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACA------g agagcaaggggaagctaggactcacatctgtgcgctcatgtctctcttagTACGCCATTCTGATGACCATGGCACTCACCATCTTCATCAAGTATGTGCTGCACTCTGTGGACCTCCAGAGCGAGAATCCCTGGGACAACAAGGCTGTATACATGCTCTACACAGAGCTGTTTACAGGCAATggtaactaattcccattcagtccacagctgcatcacagcatccactggtgt Alignment from CESAR TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAg agagcaaggggaagctaggactcacatctgtgcgctcatgtctctcttagTACGCCATTCTGATGACCATGGCACTCACCATCTTCATCAAGTATGTGCTGCACTCTGTGGACCTCCAGAGCGAGAATCCCTGGGACAACAAGGCTGTATACATGCTCTACACAGAGCTGTTTACAggcaatggtaactaattcccattcagtccacagctgcatcacagcatccactggtgt Alignment from Spaln_aa2Genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG agagcaaggggaagctaggactcacatctgtgcgctcatgtctctcttagTACGCCATTCTGATGACCATGGCACTCACCATCTTCATCAAGTATGTGCTGCACTCTGTGGACCTCCAGAGCGAGAATCCCTGGGACAACAAGGCTGTATACATGCTCTACACAGAGCTGTTTACAGgcaatggtaactaattcccattcagtccacagctgcatcacagcatccactggtgt Alignment from Spaln_nt2Genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG agagcaaggggaagctaggactcacatctgtgcgctcatgtctctcttagTACGCCATTCTGATGACCATGGCACTCACCATCTTCATCAAGTATGTGCTGCACTCTGTGGACCTCCAGAGCGAGAATCCCTGGGACAACAAGGCTGTATACATGCTCTACACAGAGCTGTTTACAGgcaatggtaactaattcccattcagtccacagctgcatcacagcatccactggtgt Alignment from Pairagon TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG agagcaaggggaagctaggactcacatctgtgcgctcatgtctctcttagTACGCCATTCTGATGACCATGGCACTCACCATCTTCATCAAGTATGTGCTGCACTCTGTGGACCTCCAGAGCGAGAATCCCTGGGACAACAAGGCTGTATACATGCTCTACACAGAGCTGTTTACAGgcaatggtaactaattcccattcagtccacagctgcatcacagcatccactggtgt Alignment from Exonerate_protein2genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG agagcaaggggaagctaggactcacatctgtgcgctcatgtctctcttagTACGCCATTCTGATGACCATGGCACTCACCATCTTCATCAAGTATGTGCTGCACTCTGTGGACCTCCAGAGCGAGAATCCCTGGGACAACAAGGCTGTATACATGCTCTACACAGAGCTGTTTACAGgcaatggtaactaattcccattcagtccacagctgcatcacagcatccactggtgt Alignment from Exonerate_coding2genome TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAG agagcaaggggaagctaggactcacatctgtgcgctcatgtctctcttagTACGCCATTCTGATGACCATGGCACTCACCATCTTCATCAAGTATGTGCTGCACTCTGTGGACCTCCAGAGCGAGAATCCCTGGGACAACAAGGCTGTATACATGCTCTACACAGAGCTGTTTACAGgcaatggtaactaattcccattcagtccacagctgcatcacagcatccactggtgt Alignment from GeneWise TACGCCATTCTGATGACCATGGTGCTTACCATCTTCATCAAGTATGTGCTGCACTCCGTGGACCTCCAGAGCGAGAACCCCTGGGACAACAAGGCTGTATACATGCTCTACACGGAGCTGTTTACAGGC---- agagcaaggggaagctaggactcacatctgtgcgctcatgtctctcttagTACGCCATTCTGATGACCATGGCACTCACCATCTTCATCAAGTATGTGCTGCACTCTGTGGACCTCCAGAGCGAGAATCCCTGGGACAACAAGGCTGTATACATGCTCTACACAGAGCTGTTTACAGGCAATGgtaactaattcccattcagtccacagctgcatcacagcatccactggtgt #### Syvn1_ID1388_7 --> 2 - 2 Original Alignment gcTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag atggcttcgcttagtcatgcagttggctttccttctctcctggggaccaggc---------------------------------ACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAAGCCCATGTACCTGGCCATGaggtgagtctggccttgtcttagtcactcccatgttccccttctctttgttg Alignment from CESAR cTTCATCAAGGTCCTGCTGTACATGGCCTTCATG------------------ACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGag c---------------ATGCAGTTGGCTTTCCTTCTCTCCTGGGGACCAGGCACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAAGCCCATGTACCTGGCCATGaggtgagtctggccttgtcttagtcactcccatgttccccttccctatcctc Alignment from Spaln_aa2Genome GCTTC---ATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG atggcttcgcttagTCATGCAGTTGGCTTTCCTTCTCTCCTGGGGACCAGGCACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtgagtctggccttgtcttagtcactcccatgttccccttctctttgttg Alignment from Spaln_nt2Genome GCTTCATCAAGG---TCCTGCTGTACATGGCCTTCATG-ACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG tggcttcgcttagTCATGCAGTTGGCTTTCCTTCTCT-CCTGGGGACCAGGCACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtgagtctggccttgtcttagtcactcccatgttccccttctctttgttg Alignment from Pairagon GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG atggcttcgcttagtcatgcagttggctttccttctctcctggggaccagGC---------------------------------ACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtgagtctggccttgtcttagtcactcccatgttccccttctctttgttg Alignment from Exonerate_protein2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG atggcttcgcttagtcaTGCAGTTGGCTTTCCTTCTCTCCTGGGGACCAGGCACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtgagtctggccttgtcttagtcactcccatgttccccttctctttgttg Alignment from Exonerate_coding2genome GCTTCATCAAGGTCCTGCTGTACATGGCCTTCATGACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG atggcttcgcttagtcaTGCAGTTGGCTTTCCTTCTCTCCTGGGGACCAGGCACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtgagtctggccttgtcttagtcactcccatgttccccttctctttgttg Alignment from GeneWise -TTCATCAAGGTCCTGCTGTACATGGCCTTCATG------------------ACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAGGCCCATGTACCTGGCCATGAG ATGGCTTCGCTTAGTCATGCAGTTGGCTTTCCTTCTCTCCTGGGGACCAGGCACCATCATGATCAAGGTGCACACATTCCCACTCTTTGCCATTAAGCCCATGTACCTGGCCATGAGgtgagtctggccttgtcttagtcactcccatgttccccttctctttgttg #### Syvn1_ID1394_13 --> 2 - 2 Original Alignment cc------------------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg gtggaaagctgaggcccaggtagcttagaccctagtcacttcccttgcagccAAAAAGAGCCGTGAGGAGTTCCCCCCAATGCCTGTGCCCCCTGCAGGCTTTGCTGGTCTAACGCCAGAGGAGTTGCGAGCACTAGAGGGCCACGAGCGGCAGCACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgggcaagtatgtcatattcaatagcactccagaaaggtcttatgtccttttg Alignment from CESAR cc------------------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgg gtggaaagctgaggcccaggtagcttagaccctagtcacttcccttgcagccAAAAAGAGCCGTGAGGAGTTCCCCCCAATGCCTGTGCCCCCTGCAGGCTTTGCTGGTCTAACGCCAGAGGAGTTGCGAGCACTAGAGGGCCACGAGCGGCAGCACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGgggcaagtatgtcatattcaatagcactccagaaaggtcttatgtccttttg Alignment from Spaln_aa2Genome CC------------------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gtggaaagctgaggcccaggtagcttagaccctagtcacttcccttgcagCCAAAAAGAGCCGTGAGGAGTTCCCCCCAATGCCTGTGCCCCCTGCAGGCTTTGCTGGTCTAACGCCAGAGGAGTTGCGAGCACTAGAGGGCCACGAGCGGCAGCACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGGgcaagtatgtcatattcaatagcactccagaaaggtcttatgtccttttg Alignment from Spaln_nt2Genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gtggaaagctgaggcccaggtagcttagaccctagtcacttcccttgcagccaaaaagagccgtgaggag--TTCCCCCCAATGCCTGTGCCCCCTGCAGGCTTTGCTGGTCTAACGCCAGAGGAGTTGCGAGCACTAGAGGGCCACGAGCGGCAGCACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGGgcaagtatgtcatattcaatagcactccagaaaggtcttatgtccttttg Alignment from Pairagon CC------------------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gtggaaagctgaggcccaggtagcttagaccctagtcacttcccttgcagCCAAAAAGAGCCGTGAGGAGTTCCCCCCAATGCCTGTGCCCCCTGCAGGCTTTGCTGGTCTAACGCCAGAGGAGTTGCGAGCACTAGAGGGCCACGAGCGGCAGCACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGGgcaagtatgtcatattcaatagcactccagaaaggtcttatgtccttttg Alignment from Exonerate_protein2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gtggaaagctgaggcccaggtagcttagaccctagtcacttcccttgcagccaaaaagagccgtgaggAGTTCCCCCCAATGCCTGTGCCCCCTGCAGGCTTTGCTGGTCTAACGCCAGAGGAGTTGCGAGCACTAGAGGGCCACGAGCGGCAGCACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGGgcaagtatgtcatattcaatagcactccagaaaggtcttatgtccttttg Alignment from Exonerate_coding2genome CCTTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGG gtggaaagctgaggcccaggtagcttagaccctagtcacttcccttgcagccaaaaagagccgtgaggAGTTCCCCCCAATGCCTGTGCCCCCTGCAGGCTTTGCTGGTCTAACGCCAGAGGAGTTGCGAGCACTAGAGGGCCACGAGCGGCAGCACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTGTGCTGGCTTCCCTGGGgcaagtatgtcatattcaatagcactccagaaaggtcttatgtccttttg Alignment from GeneWise ----------TTCCCCCCAATGCCTGTGCCCCCTGCGGGCTTTGCTGGCCTAACCCCAGAGGAGCTGCGAGCACTAGAGGGCCATGAGCGGCAGCACCTGGAGGCCCGGCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACT gtggaaagctgaggcccaggtagcttagaccctagtcacttcccttgcagccaaaaagagCCGTGAGGAGTTCCCCCCAATGCCTGTGCCCCCTGCAGGCTTTGCTGGTCTAACGCCAGAGGAGTTGCGAGCACTAGAGGGCCACGAGCGGCAGCACCTGGAGGCCCGTCTGCAGAGTCTGCGCAACATACACACACTACTGGATGCTGCCATGCTTCAAATCAACCAGTACCTCACTgtgctggcttccctggggcaagtatgtcatattcaatagcactccagaaaggtcttatgtccttttg #### Taf5_ID10096_4 --> 0 - 2 Original Alignment GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACag aaatatgttgaacaaaagtttaggacttgtgaacctgctctctcttgcag---TTTTTTGGTCTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACaggtaaaaagtacataaaggtgaaagctatggcgcagaggactggagtggat Alignment from CESAR GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACag accaaatatgttgaacaaaagtttacttgtgaacctgctctctcttgcag---TTTTTTGGTCTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACaggtaaaaagtacataaaggtgaaagctatggcgcagaggactggagtggat Alignment from Spaln_aa2Genome GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG aaatatgttgaacaaaagtttaggacttgtgaacctgctctctcttgcagTTTTTTGGT---CTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtaaaaagtacataaaggtgaaagctatggcgcagaggactggagtggat Alignment from Spaln_nt2Genome TTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG aaatatgttgaacaaaagtttaggacttgtgaacctgctctctcttgcagTTTTTTGGTCTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtaaaaagtacataaaggtgaaagctatggcgcagaggactggagtggat Alignment from Pairagon TTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG aaatatgttgaacaaaagtttaggacttgtgaacctgctctctcttgcagTTTTTTGGTCTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtaaaaagtacataaaggtgaaagctatggcgcagaggactggagtggat Alignment from Exonerate_protein2genome GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG aaatatgttgaacaaaagtttaggacttgtgaacctgctctctcttgCAGTTTTTTGGTCTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtaaaaagtacataaaggtgaaagctatggcgcagaggactggagtggat Alignment from Exonerate_coding2genome GTATTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG aaatatgttgaacaaaagtttaggacttgtgaacctgctctctcttgCAGTTTTTTGGTCTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtaaaaagtacataaaggtgaaagctatggcgcagaggactggagtggat Alignment from GeneWise TTTTTTGGTTTACTAAAAGAACCAGAAATTGAGGTGCCTTTGGATGATGAGGACGAAGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAG aaatatgttgaacaaaagtttaggacttgtgaacctgctctctcttgcagTTTTTTGGTCTACTAAAAGAACCAGACATTGAGGTGCCCTTGGATGACGAGGATGAGGAAGGAGAAAATGAAGAAGGAAAACCTAAAAAGAAGAAGCCTAAGAAGGATAGTATTGGCTCTAAAAGCAAAAAACAAGATCCCAATGCCCCGCCTCAAAACAGgtaaaaagtacataaaggtgaaagctatggcgcagaggactggagtggat #### Taf5_ID10102_10 --> 0 - 1 Original Alignment GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA---------g tccactttagtctgatcagataaatttatactccttcttttcttaaatagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGATGCTCTGggtgagccattgcaggtccatagggtagagaaaccacagcaaacacaaatt Alignment from CESAR GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA---------g tccactttagtctgatcagataaatttatactccttcttttcttaaatagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGATGCTCTGggtgagccattgcaggtccatagggtagagaaaccacagcaaacacaaatt Alignment from Spaln_aa2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA---------G tccactttagtctgatcagataaatttatactccttcttttcttaaatagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGATGCTCTGGgtgagccattgcaggtccatagggtagagaaaccacagcaaacacaaatt Alignment from Spaln_nt2Genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG--------- tccactttagtctgatcagataaatttatactccttcttttcttaaatagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGATGCTCTGGgtgagccattgcaggtccatagggtagagaaaccacagcaaacacaaatt Alignment from Pairagon GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG--------- tccactttagtctgatcagataaatttatactccttcttttcttaaatagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGATGCTCTGGgtgagccattgcaggtccatagggtagagaaaccacagcaaacacaaatt Alignment from Exonerate_protein2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tccactttagtctgatcagataaatttatactccttcttttcttaaatagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGatgctctgggtgagccattgcaggtccatagggtagagaaaccacagcaaacacaaatt Alignment from Exonerate_coding2genome GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAG tccactttagtctgatcagataaatttatactccttcttttcttaaatagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGatgctctgggtgagccattgcaggtccatagggtagagaaaccacagcaaacacaaatt Alignment from GeneWise GGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTGGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCTTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCA---------G tccactttagtctgatcagataaatttatactccttcttttcttaaatagGGACCAATTCATTCCTTGACATTTTCTCCCAATGGGAGATTCCTAGCTACAGGAGCAACAGATGGCAGAGTACTTCTTTGGGATATTGGACACGGCCTGATGGTTGGAGAATTAAAAGGCCACACTGATACAGTGTGTTCACTTAGGTTTAGTAGAGATGGTGAAATTTTGGCATCAGATGCTCTGGgtgagccattgcaggtccatagggtagagaaaccacagcaaacacaaatt #### Tbc1d10c_ID400_4 --> 0 - 2 Original Alignment GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACAC---------gg atagctcctagccacccaaccttctataatgctcttctgtccctttccagGAACTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGGGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCTCAGGGACATAGTCGCTTTgggtaagaggtcaggagtctacccaggccggagtctccattgttcaaggatg Alignment from CESAR GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACAC---------gg atagctcctagccacccaaccttctataatgctcttctgtccctttccagGAACTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGGGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCTCAGGGACATAGTCGCTTTgggtaagaggtcaggagtctacccaggccggagtctccattgttcaaggatg Alignment from Spaln_aa2Genome GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGGG-------- atagctcctagccacccaaccttctataatgctcttctgtccctttccagGAACTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGGGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCTCAGGGACATAGTCGCTTTGGgtaagaggtcaggagtctacccaggccggagtctccattgttcaaggatg Alignment from Spaln_nt2Genome GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACAC---------GG atagctcctagccacccaaccttctataatgctcttctgtccctttccagGAACTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGGGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCTCAGGGACATAGTCGCTTTGGgtaagaggtcaggagtctacccaggccggagtctccattgttcaaggatg Alignment from Pairagon GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACA---------CGG atagctcctagccacccaaccttctataatgctcttctgtccctttccagGAACTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGGGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCTCAGGGACATAGTCGCTTTGGgtaagaggtcaggagtctacccaggccggagtctccattgttcaaggatg Alignment from Exonerate_protein2genome GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG atagctcctagccacccaaccttctataatgctcttctgtccctttccagGAACTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGGGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCTCAGGGACATAGtcgctttgggtaagaggtcaggagtctacccaggccggagtctccattgttcaaggatg Alignment from Exonerate_coding2genome GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACACGG atagctcctagccacccaaccttctataatgctcttctgtccctttccagGAACTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGGGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCTCAGGGACATAGtcgctttgggtaagaggtcaggagtctacccaggccggagtctccattgttcaaggatg Alignment from GeneWise GAGCTGGCAGCAGCCCCCGGGGACCCGCAGTGGATGGAGACCATTGGCAGAGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCCCAGGGACAC---------GG atagctcctagccacccaaccttctataatgctcttctgtccctttccagGAACTGGCAGCAGCCCCTGGGGACCCACAGTGGATGGAGGCCATTGGCAGGGACTTGCACCGTCAGTTTCCTCTGCATGAGATGTTTGTGTCACCTCAGGGACATAGTCGCTTTGGgtaagaggtcaggagtctacccaggccggagtctccattgttcaaggatg #### Tbc1d10c_ID401_3 --> 0 - 0 Original Alignment GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG gagagcaagagagcagaggaacccctgagtattaacattgtttgttttagGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTACGTGCCCGGTGCTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACA------gtaggatgcagcaagttggcaggctctcttcaagccttactgagagcacc Alignment from CESAR GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG gagagcaagagagcagaggaacccctgagtattaacattgtttgttttagGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTACGTGCCCGGTGCTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACA------gtaggatgcagcaagttggcaggctctcttcaagccttactgag Alignment from Spaln_aa2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACC gagagcaagagagcagaggaacccctgagtattaacattgtttgttttagGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTACGTGCCCGGTGCTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACAgtaggatgcagcaagttggcaggctctcttcaagccttactgagagcacc Alignment from Spaln_nt2Genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACC gagagcaagagagcagaggaacccctgagtattaacattgtttgttttagGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTACGTGCCCGGTGCTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACAgtaggatgcagcaagttggcaggctctcttcaagccttactgagagcacc Alignment from Pairagon GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACC gagagcaagagagcagaggaacccctgagtattaacattgtttgttttagGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTACGTGCCCGGTGCTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACAgtaggatgcagcaagttggcaggctctcttcaagccttactgagagcacc Alignment from Exonerate_protein2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACC gagagcaagagagcagaggaacccctgagtattaacattgtttgttttagGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTACGTGCCCGGTGCTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACAgtaggatgcagcaagttggcaggctctcttcaagccttactgagagcacc Alignment from Exonerate_coding2genome GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACC gagagcaagagagcagaggaacccctgagtattaacattgtttgttttagGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTACGTGCCCGGTGCTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACAgtaggatgcagcaagttggcaggctctcttcaagccttactgagagcacc Alignment from GeneWise GTAAAGATCCAGTGCCGCAAGGGCATCCCCTCAGCCCTGCGTGCCCGGTGTTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGCACCTACCAG gagagcaagagagcagaggaacccctgagtattaacattgtttgttttagGTAAAGATACAGTGCCGCAAGGGCATTCCCACTGTCTTACGTGCCCGGTGCTGGCCCCTCCTGTGTGGGGCCCGGATGTGTCAGAAGAACAACCCTGGC------ACAgtaggatgcagcaagttggcaggctctcttcaagccttactgagagcacc #### Tcirg1_ID169_18 --> 2 - 2 Original Alignment ag------CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg ggcgggggtgtgacaggcattctcaagtcaatcaaacattatatctgtagagCACGAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTCGGCATGGGCCGAGAGATTGGTGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGGCTCTTAGCCTTCCTGCATGCTCTGCGGTTGCATtggtacaggcctctgtagtgggacttggcatggagggagtgggtggatttgt Alignment from CESAR ag------CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACtg ggcgggggtgtgacaggcattctcaagtcaatcaaacattatatctgtagagCACGAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTCGGCATGGGCCGAGAGATTGGTGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGGCTCTTAGCCTTCCTGCATGCTCTGCGGTTGCATtggtacaggcctctgtagtgggacttggcatggagggagtgggtggatttgt Alignment from Spaln_aa2Genome AG------CTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggcgggggtgtgacaggcattctcaagtcaatcaaacattatatctgtagAGCACGAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTCGGCATGGGCCGAGAGATTGGTGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGGCTCTTAGCCTTCCTGCATGCTCTGCGGTTGCATTGgtacaggcctctgtagtgggacttggcatggagggagtgggtggatttgt Alignment from Spaln_nt2Genome AGC------TGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggcgggggtgtgacaggcattctcaagtcaatcaaacattatatctgtagAGCACGAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTCGGCATGGGCCGAGAGATTGGTGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGGCTCTTAGCCTTCCTGCATGCTCTGCGGTTGCATTGgtacaggcctctgtagtgggacttggcatggagggagtgggtggatttgt Alignment from Pairagon ------AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggcgggggtgtgacaggcattctcaagtcaatcaaacattatatctgtagAGCACGAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTCGGCATGGGCCGAGAGATTGGTGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGGCTCTTAGCCTTCCTGCATGCTCTGCGGTTGCATTGgtacaggcctctgtagtgggacttggcatggagggagtgggtggatttgt Alignment from Exonerate_protein2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggcgggggtgtgacaggcattctcaagtcaatcaaacattatatctgtagagcacgAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTCGGCATGGGCCGAGAGATTGGTGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGGCTCTTAGCCTTCCTGCATGCTCTGCGGTTGCATTGgtacaggcctctgtagtgggacttggcatggagggagtgggtggatttgt Alignment from Exonerate_coding2genome AGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggcgggggtgtgacaggcattctcaagtcaatcaaacattatatctgtagagcacgAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTCGGCATGGGCCGAGAGATTGGTGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGGCTCTTAGCCTTCCTGCATGCTCTGCGGTTGCATTGgtacaggcctctgtagtgggacttggcatggagggagtgggtggatttgt Alignment from GeneWise -----CAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTGGGCATGGGCCGAGAGATCGGCGTGGCAGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTGTTGACTGTGGCCATCCTGTTAGTGATGGAGGGGCTCTCAGCCTTCCTGCATGCCCTGCGGTTGCACTG ggcgggggtgtgacaggcattctcaagtcaatcaaacattatatctgtagAGCACGAGCTGTCTGAGGTCCTGTGGGCCATGGTGATGCGCATAGGCCTCGGCATGGGCCGAGAGATTGGTGTGGCGGCTGTGGTGCTGGTCCCTGTGTTTGCTGCCTTTGCTGTATTGACTGTGGCCATTCTGTTAGTGATGGAGGGGCTCTTAGCCTTCCTGCATGCTCTGCGGTTGCATTGgtacaggcctctgtagtgggacttggcatggagggagtgggtggatttgt #### Tcirg1_ID170_17 --> 0 - 1 Original Alignment TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCC---c gaaggcctgccaggtcaggctattgtctctgccttgtcctttatttaaagTTTGTCCCTTCTGAGATCTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGCTGCATCTCCAACACAGCCTCTTACCTGCGGCTTTGGGCCTTGAGCCTGGCCCATGCTGTCcgtatgtgacctttctctcagggtcatattacaatatcctacctggtgcca Alignment from CESAR TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCC---c gaaggcctgccaggtcaggctattgtctctgccttgtcctttatttaaagTTTGTCCCTTCTGAGATCTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGCTGCATCTCCAACACAGCCTCTTACCTGCGGCTTTGGGCCTTGAGCCTGGCCCATGCTGTCcgtatgtgacctttctctcagggtcatattacaatatcctacctggtgcca Alignment from Spaln_aa2Genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCC---C gaaggcctgccaggtcaggctattgtctctgccttgtcctttatttaaagTTTGTCCCTTCTGAGATCTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGCTGCATCTCCAACACAGCCTCTTACCTGCGGCTTTGGGCCTTGAGCCTGGCCCATGCTGTCCgtatgtgacctttctctcagggtcatattacaatatcctacctggtgcca Alignment from Spaln_nt2Genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGC---CC gaaggcctgccaggtcaggctattgtctctgccttgtcctttatttaaagTTTGTCCCTTCTGAGATCTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGCTGCATCTCCAACACAGCCTCTTACCTGCGGCTTTGGGCCTTGAGCCTGGCCCATGCTGTCCgtatgtgacctttctctcagggtcatattacaatatcctacctggtgcca Alignment from Pairagon TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGC---CC gaaggcctgccaggtcaggctattgtctctgccttgtcctttatttaaagTTTGTCCCTTCTGAGATCTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGCTGCATCTCCAACACAGCCTCTTACCTGCGGCTTTGGGCCTTGAGCCTGGCCCATGCTGTCCgtatgtgacctttctctcagggtcatattacaatatcctacctggtgcca Alignment from Exonerate_protein2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCC---C gaaggcctgccaggtcaggctattgtctctgccttgtcctttatttaaagTTTGTCCCTTCTGAGATCTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGCTGCATCTCCAACACAGCCTCTTACCTGCGGCTTTGGGCCTTGAGCCTGGCCCATGCTGTCCgtatgtgacctttctctcagggtcatattacaatatcctacctggtgcca Alignment from Exonerate_coding2genome TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCC---C gaaggcctgccaggtcaggctattgtctctgccttgtcctttatttaaagTTTGTCCCTTCTGAGATCTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGCTGCATCTCCAACACAGCCTCTTACCTGCGGCTTTGGGCCTTGAGCCTGGCCCATGCTGTCCgtatgtgacctttctctcagggtcatattacaatatcctacctggtgcca Alignment from GeneWise --------------------------------------------------TTTGTCCCTTCTGAGATCTTCATGCACCAAGCAATCCACACCATTGAGTTCTGCCTGGGCTGCATCTCCAACACAGCCTCCTACTTGCGTCTCTGGGCCCTGAGCCTGGCCCATGCCCAG- GAAGGCCTGCCAGGTCAGGCTATTGTCTCTGCCTTGTCCTTTATTTAAAGTTTGTCCCTTCTGAGATCTTCATGCATCGAGCAATCCACACCATTGAGTTCTGTCTTGGCTGCATCTCCAACACAGCCTCTTACCTGCGGCTTTGGGCCTTGAGCCTGGCCCATGCTGTCCgtatgtgacctttctctcagggtcatattacaatatcctacctggtgcca #### Tcirg1_ID171_16 --> 0 - 0 Original Alignment ---GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG ttgcacaggccatttcaggggctgcagctatttgtgtctttctgaaccagGATGATGAGGACACAGACAAGCTACTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCCGATGAGGAGGAGGCTGGGAGCCCAGGGGAGGAAGAAACTGAAgtaagtagaacaataatttgtcgaggaaggcctgccaggtcaggctattg Alignment from CESAR GAT---GAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG ttgcacaggccatttcaggggctgcagctatttgtgtctttctgaaccagGATGATGAGGACACAGACAAGCTACTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCCGATGAGGAGGAGGCTGGGAGCCCAGGGGAGGAAGAAACTGAAgtaagtagaacaataatttgtcgaggaaggcctgccaggtcaggctattg Alignment from Spaln_aa2Genome CAGGATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG ttgcacaggccatttcaggggctgcagctatttgtgtctttctgaaccagGATGATGAGGACACAGACAAGCTACTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCCGATGAGGAGGAGGCTGGGAGCCCAGGGGAGGAAGAAACTGAAgtaagtagaacaataatttgtcgaggaaggcctgccaggtcaggctattg Alignment from Spaln_nt2Genome GATGA---GGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG ttgcacaggccatttcaggggctgcagctatttgtgtctttctgaaccagGATGATGAGGACACAGACAAGCTACTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCCGATGAGGAGGAGGCTGGGAGCCCAGGGGAGGAAGAAACTGAAgtaagtagaacaataatttgtcgaggaaggcctgccaggtcaggctattg Alignment from Pairagon --------------------------GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG ttgcacaggccatttcaggggctgcagCTATTTGTGTCTTTCTGAACCAGGATGATGAGGACACAGACAAGCTACTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCCGATGAGGAGGAGGCTGGGAGCCCAGGGGAGGAAGAAACTGAAgtaagtagaacaataatttgtcgaggaaggcctgccaggtcaggctattg Alignment from Exonerate_protein2genome CAGGATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG ttgcacaggccatttcaggggctgcagctatttgtgtctttctgaaccagGATGATGAGGACACAGACAAGCTACTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCCGATGAGGAGGAGGCTGGGAGCCCAGGGGAGGAAGAAACTGAAgtaagtagaacaataatttgtcgaggaaggcctgccaggtcaggctattg Alignment from Exonerate_coding2genome CAGGATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG ttgcacaggccatttcaggggctgcagctatttgtgtctttctgaaccagGATGATGAGGACACAGACAAGCTACTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCCGATGAGGAGGAGGCTGGGAGCCCAGGGGAGGAAGAAACTGAAgtaagtagaacaataatttgtcgaggaaggcctgccaggtcaggctattg Alignment from GeneWise ---GATGAGGACACGGACAAGCTTCTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCTGATGAGGAGAAGGCTGGGAGCCCAGGGGATGAAGAAACTGAG-------------------------------------------------- ttgcacaggccatttcaggggctgcagctatttgtgtctttctgaaccagGATGATGAGGACACAGACAAGCTACTGGCCTCCCCTGATGCATCCACCTTGGAGAACAGCTGGAGCCCCGATGAGGAGGAGGCTGGGAGCCCAGGGGAGGAAGAAACTGAAGTAAGTAGAACAATAATTTGTCGAGGAAGGCCTGCCAGGTCAGGCTATTG #### Tcirg1_ID172_15 --> 0 - 0 Original Alignment GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gattccatacactgtacatgggctgaggtttccctctctctgcccttcag------GTACAGTACGTTCTGGTGGTCCTGGCTTTGGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCCAGCACCGACACAGAAGAAACACTCAAAGAAGA---GCAGGCCAGCAGgtaagaacacagggattggaggcagcatgagtggtgacctctgtaacctc Alignment from CESAR GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gtaactgattccatacactgtacataggtttccctctctctgcccttcag------GTACAGTACGTTCTGGTGGTCCTGGCTTTGGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCCAGCACCGACACAGAAGAAACACTCAAAGAAGA---GCAGGCCAGCAGgtaagaacacagggattggaggcagcatgagtggtgacctctgtaacctc Alignment from Spaln_aa2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gattccatacactgtacatgggctgaggtttccctctctctgcccttcag------GTACAGTACGTTCTGGTGGTCCTGGCTTTGGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCCAGCACCGACACAGAAGAAACACTCAAAGAAGA---GCAGGCCAGCAGgtaagaacacagggattggaggcagcatgagtggtgacctctgtaacctc Alignment from Spaln_nt2Genome GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gattccatacactgtacatgggctgaggtttccctctctctgcccttcag------GTACAGTACGTTCTGGTGGTCCTGGCTTTGGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCCAGCACCGACACAGAAGAAACACTCAAAGAAG---AGCAGGCCAGCAGgtaagaacacagggattggaggcagcatgagtggtgacctctgtaacctc Alignment from Pairagon GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gattccatacactgtacatgggctgaggtttccctctctctgcccttcag------GTACAGTACGTTCTGGTGGTCCTGGCTTTGGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCCAGCACCGACACAGAAGAAACACTCAAAGAAG---AGCAGGCCAGCAGgtaagaacacagggattggaggcagcatgagtggtgacctctgtaacctc Alignment from Exonerate_protein2genome GTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gattccatacactgtacatgggctgaggtttccctctctctgcccttcagGTACAGTACGTTCTGGTGGTCCTGGCTTTGGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCCAGCACCGACACAGAAGAAACACTCAAAGAAGA---GCAGGCCAGCAGgtaagaacacagggattggaggcagcatgagtggtgacctctgtaacctc Alignment from Exonerate_coding2genome GTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gattccatacactgtacatgggctgaggtttccctctctctgcccttcagGTACAGTACGTTCTGGTGGTCCTGGCTTTGGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCCAGCACCGACACAGAAGAAACACTCAAAGAAGA---GCAGGCCAGCAGgtaagaacacagggattggaggcagcatgagtggtgacctctgtaacctc Alignment from GeneWise GAAGTGGTACAGTACGTGCTGGTGGTCCTGGCTTTGGCTACCGTTCCTATCCTGTTGCTGGGCACACCCTTGTACCTGCTGCGCCAGCACCGCCACAGAAGAAACACTCAGAGAAGGCCAGCAGGCCAGCAG gattccatacactgtacatgggctgaggtttccctctctctgcccttcagGTA------CAGTACGTTCTGGTGGTCCTGGCTTTGGCTACTGTCCCTATCCTACTGCTGGGCACACCCTTGTACCTCCTACGCCAGCACCGACACAGAAGAAACACTCAAAGAAGA---GCAGGCCAGCAGgtaagaacacagggattggaggcagcatgagtggtgacctctgtaacctc #### Tcirg1_ID173_14 --> 1 - 0 Original Alignment gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agggtgctactgatttcgaggacacagtttttaaaaaacttttcccctagg---------------------CTGCTGCTTGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTC------TACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCTGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCCCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtaggtcatttacagaggatggctgacttcctcactggggttgttctagt Alignment from CESAR gCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG atgggcagtctttgtgggcctagggagtttttaaaaaacttttcccctagg---------------------CTGCTGCTTGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTC------TACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCTGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCCCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtaggtcatttacagaggatggctgacttcctcactggggttgttctagt Alignment from Spaln_aa2Genome GTGCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agggtgctactgatttcgaggacacagTTTTTAAAAAACTTTTCCCCTAGGCTGCTGCTTGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTC------TACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCTGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCCCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtaggtcatttacagaggatggctgacttcctcactggggttgttctagt Alignment from Spaln_nt2Genome CCG GCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG AGGgtgctactgatttcgaggacacagtttttaaaaaacttttcccctagGCTGCTGCTTGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCT------CTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCTGCCCCCA------TTATTCACTTCATCAATATGTTCCTCTTCTCCCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtaggtcatttacagaggatggctgacttcctcactggggttgttctagt Alignment from Pairagon GCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agggtgctactgatttcgaggacacagtttttaaaaaacttttcccctag---------------------GCTGCTGCTTGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCT------CTACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCTGCCCCCA------TTATTCACTTCATCAATATGTTCCTCTTCTCCCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtaggtcatttacagaggatggctgacttcctcactggggttgttctagt Alignment from Exonerate_protein2genome GTGCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agggtgctactgatttcgaggacacagTTTTTAAAAAACTTTTCCCCTAGGCTGCTGCTTGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTC------TACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCTGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCCCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtaggtcatttacagaggatggctgacttcctcactggggttgttctagt Alignment from Exonerate_coding2genome GTGCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agggtgctactgatttcgaggacacagTTTTTAAAAAACTTTTCCCCTAGGCTGCTGCTTGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTC------TACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCTGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCCCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtaggtcatttacagaggatggctgacttcctcactggggttgttctagt Alignment from GeneWise GTGCACTTTGGCCAGGCCCACCGGCTACTGCTGGAGACCTTGCCTGAGCTCATCTTCCTGCTGGGTCTCTTTGGCTACCTTGTGTTCCTCATTGTCTACAAGTGGGTGAATGTCTCAGCTGCTAGCGCCTCCTCGGCCCCCAGTATCCTCATTCACTTCATCAATATGTTCCTCTTCTCTCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAG agggtgctactgatttcgaggacacagTTTTTAAAAAACTTTTCCCCTAGGCTGCTGCTTGAGACCTTGTCTGAGCTCATCTTCCTCCTGGGTCTC------TACCTTGTGTTCCTGATTGTCTACAAGTGGGTGAATGTCTCAGCTACTAGTGCTGCCTCTGCCCCC------ATTATTCACTTCATCAATATGTTCCTCTTCTCCCAAAACCCCACCAATCATCTGCTCTTCCATGGGCAGgtaggtcatttacagaggatggctgacttcctcactggggttgttctagt #### Tcirg1_ID175_12 --> 1 - 0 Original Alignment tGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--- cagggcacctgaccaactgtgtagctcaccaatacgtgttttgtgtctagtGATGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAGCCATGCgtaattgggcatacgagtgcatggaaaggaggcggctgggaaggcttgtc Alignment from CESAR tGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--- cagggcacctgaccaactgtgtagctcaccaatacgtgttttgtgtctagtGATGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAGCCATGCgtaattgggcatacgagtgcatggaaaggaggcggctgggaaggcttgtc Alignment from Spaln_aa2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--- cagggcacctgaccaactgtgtagctcaccaatacgtgttttgtgtctagTGATGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAGCCATGCgtaattgggcatacgagtgcatggaaaggaggcggctgggaaggcttgtc Alignment from Spaln_nt2Genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCGA-- cagggcacctgaccaactgtgtagctcaccaatacgtgttttgtgtctagTGATGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAGCCATGCgtaattgggcatacgagtgcatggaaaggaggcggctgggaaggcttgtc Alignment from Pairagon ------------------------------------------------AGTGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--- CAGGGCACCTGACCAACTGTGTAGCTCACCAATACGTGTTTTGTGTCTAGTGATGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAGCCATGCgtaattgggcatacgagtgcatggaaaggaggcggctgggaaggcttgtc Alignment from Exonerate_protein2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--- cagggcacctgaccaactgtgtagctcaccaatacgtgttttgtgtctagTGATGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAGCCATGCgtaattgggcatacgagtgcatggaaaggaggcggctgggaaggcttgtc Alignment from Exonerate_coding2genome TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCG--- cagggcacctgaccaactgtgtagctcaccaatacgtgttttgtgtctagTGATGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAGCCATGCgtaattgggcatacgagtgcatggaaaggaggcggctgggaaggcttgtc Alignment from GeneWise TGACGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATCACTGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGACCCGATC cagggcacctgaccaactgtgtagctcaccaatacgtgttttgtgtctagTGATGAGTATCTGTCCCAGCACTCCATGCTCACCCTGAACCCTAACATTACAGGTGTCTTCCTTGGACCATATCCCTTTGGCATTGAGCCATGCgtaattgggcatacgagtgcatggaaaggaggcggctgggaaggcttgtc #### Tcirg1_ID176_11 --> 0 - 2 Original Alignment ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG---ag ttccaggacccccagatcttgcagaccaatcttattttaattttttacagATCTGGCAGACCTTCTTTGGAGGTCAATACCTACTCCTCCTCATGGGTCTGTTCTCTGTCTACACTGGCTTTATCTCCACTGAGTGTTTCAGCCAGGCGACTACTATTTTTCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGGTGctgtaagtcctacaacctttcctatgcagccagggcacctgaccaactgtgt Alignment from CESAR ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG---ag ttccaggacccccagatcttgcagaccaatcttattttaattttttacagATCTGGCAGACCTTCTTTGGAGGTCAATACCTACTCCTCCTCATGGGTCTGTTCTCTGTCTACACTGGCTTTATCTCCACTGAGTGTTTCAGCCAGGCGACTACTATTTTTCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGGTGctgtaagtcctacaacctttcctatgcagccagggcacctgaccaactgtgt Alignment from Spaln_aa2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAG ttccaggacccccagatcttgcagaccaatcttattttaattttttacagATCTGGCAGACCTTCTTTGGAGGTCAATACCTACTCCTCCTCATGGGTCTGTTCTCTGTCTACACTGGCTTTATCTCCACTGAGTGTTTCAGCCAGGCGACTACTATTTTTCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGGTgctgtaagtcctacaacctttcctatgcagccagggcacctgaccaactgtgt Alignment from Spaln_nt2Genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGA ttccaggacccccagatcttgcagaccaatcttattttaattttttacagATCTGGCAGACCTTCTTTGGAGGTCAATACCTACTCCTCCTCATGGGTCTGTTCTCTGTCTACACTGGCTTTATCTCCACTGAGTGTTTCAGCCAGGCGACTACTATTTTTCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG-gtgctgtaagtcctacaacctttcctatgcagccagggcacctgaccaactgtgt Alignment from Pairagon ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG------------------------------------------------------- ttccaggacccccagatcttgcagaccaatcttattttaattttttacagATCTGGCAGACCTTCTTTGGAGGTCAATACCTACTCCTCCTCATGGGTCTGTTCTCTGTCTACACTGGCTTTATCTCCACTGAGTGTTTCAGCCAGGCGACTACTATTTTTCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGGTGCTGTAAGTCCTACAACCTTTCCTATGCAGCCAGGGCACCTGACCAACTGTGT Alignment from Exonerate_protein2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG ttccaggacccccagatcttgcagaccaatcttattttaattttttacagATCTGGCAGACCTTCTTTGGAGGTCAATACCTACTCCTCCTCATGGGTCTGTTCTCTGTCTACACTGGCTTTATCTCCACTGAGTGTTTCAGCCAGGCGACTACTATTTTTCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGgtgctgtaagtcctacaacctttcctatgcagccagggcacctgaccaactgtgt Alignment from Exonerate_coding2genome ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGG ttccaggacccccagatcttgcagaccaatcttattttaattttttacagATCTGGCAGACCTTCTTTGGAGGTCAATACCTACTCCTCCTCATGGGTCTGTTCTCTGTCTACACTGGCTTTATCTCCACTGAGTGTTTCAGCCAGGCGACTACTATTTTTCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGgtgctgtaagtcctacaacctttcctatgcagccagggcacctgaccaactgtgt Alignment from GeneWise ATCTGGCAGACCTTCTTTGGGGGTCGATACCTACTCCTGCTCATGGGTCTGTTCTCCGTCTACACTGGCTTCATCTACAATGAGTGCTTCAGCCGAGCCACCACTATTTTCCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGAGT-- ttccaggacccccagatcttgcagaccaatcttattttaattttttacagATCTGGCAGACCTTCTTTGGAGGTCAATACCTACTCCTCCTCATGGGTCTGTTCTCTGTCTACACTGGCTTTATCTCCACTGAGTGTTTCAGCCAGGCGACTACTATTTTTCCCTCAGGTTGGAGTGTGGCTGCCATGGCCAACCAGTCAGGCTGGGTGCTgtaagtcctacaacctttcctatgcagccagggcacctgaccaactgtgt #### Tcirg1_ID182_5 --> 1 - 0 Original Alignment t---------TTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaaactatctttctttctttgtagtTACGTGTCATTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTTGAGGACCCAGTGACAgtaagattacatggaagacgtatgttttccttgctctacagGGTGAGCCT Alignment from CESAR t---------TTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaaactatctttctttctttgtagtTACGTGTCATTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTTGAGGACCCAGTGACAgtaagattacatggaagacatgtctcattttcttctctaagGGTGAGCCT Alignment from Spaln_aa2Genome ----GTCAATTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaaactatctttctttctttgtagTTACGTGTCATTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTTGAGGACCCAGTGACAgtaagattacatggaagacgtatgttttccttgctctacagGGTGAGCCT Alignment from Spaln_nt2Genome TTTTGTGGCA---------GGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaaactatctttctttctttgtagTTACGTGTCATTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTTGAGGACCCAGTGACAgtaagattacatggaagacgtatgttttccttgctctacagGGTGAGCCT Alignment from Pairagon ------------------------------------------------------------TTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT CTGTGAGGAGAGTTGGGAGGAGGCTGCAAACTATCTTTCTTTCTTTGTAGTTACGTGTCATTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTTGAGGACCCAGTGACAgtaagattacatggaagacgtatgttttccttgctctacagGGTGAGCCT Alignment from Exonerate_protein2genome GAAGGTCAATTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaaactatctttctttctttgtagTTACGTGTCATTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTTGAGGACCCAGTGACAgtaagattacatggaagacgtatgttttccttgctctacagGGTGAGCCT Alignment from Exonerate_coding2genome GAAGGTCAATTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaaactatctttctttctttgtagTTACGTGTCATTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTTGAGGACCCAGTGACAgtaagattacatggaagacgtatgttttccttgctctacagGGTGAGCCT Alignment from GeneWise -------AATTTTGTGGCAGGTGCTGTGGAGCCCTACAAGGCTGCGGCCCTGGAGCGCCTGCTGTGGAGAGCTTGCCGCGGCTTCCTCATTGCCAGCTTTCGGGAGACTGAGGGGCAGCTGGAGGACCCAGTGACG GGTGAGCCT ctgtgaggagagttgggaggaggctgcaaactatctttctttctttgtagTTACGTGTCATTTGTGGCAGGTGCAGTGGAGCCCTACAAGGCTGCGGCCTTGGAGCGCCTGCTGTGGAGAGCTTGCCGTGGCTTTCTCATTGCTAGCTTTCGGGAGACTGAGGGGCAGCTTGAGGACCCAGTGACAgtaagattacatggaagacgtatgttttccttgctctacagGGTGAGCCT #### Tcirg1_ID183_4 --> 0 - 2 Original Alignment GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa aggtatggggcctcaagatatacatgcctccatgcccctctctgccctagGTGGCAGCTGATCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGAC---------aagtgaggtgggaaggctatggcagcttatcttttatgggctccccacaagt Alignment from CESAR GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCaa aggtatggggcctcaagatatacatgcctccatgcccctctctgccctagGTGGCAGCTGATCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGAC---------aagtgaggtgggaaggctatggcagcttatcttttatgggctccccacaagt Alignment from Spaln_aa2Genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCT aggtatggggcctcaagatatacatgcctccatgcccctctctgccctagGTGGCAGCTGATCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACAAgtgaggtgggaaggctatggcagcttatcttttatgggctccccacaagt Alignment from Spaln_nt2Genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA aggtatggggcctcaagatatacatgcctccatgcccctctctgccctagGTGGCAGCTGATCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGAC----AAGTGAGgtgggaaggctatggcagcttatcttttatgggctccccacaagt Alignment from Pairagon GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA aggtatggggcctcaagatatacatgcctccatgcccctctctgccctagGTGGCAGCTGATCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGA---------CAAgtgaggtgggaaggctatggcagcttatcttttatgggctccccacaagt Alignment from Exonerate_protein2genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA aggtatggggcctcaagatatacatgcctccatgcccctctctgccctagGTGGCAGCTGATCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACAAGTGAGGTGGgaaggctatggcagcttatcttttatgggctccccacaagt Alignment from Exonerate_coding2genome GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCTGAAGGTCAA aggtatggggcctcaagatatacatgcctccatgcccctctctgccctagGTGGCAGCTGATCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACAAGTGAGGTGGgaaggctatggcagcttatcttttatgggctccccacaagt Alignment from GeneWise GTGGCAGCTGACCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCAGACCT aggtatggggcctcaagatatacatgcctccatgcccctctctgccctagGTGGCAGCTGATCATACTGAAGGACCCTTCTCTGAGACAACACCCCTGCTTCCAGGCACCCGGGGGCCACATTCTGACAAgtgaggtgggaaggctatggcagcttatcttttatgggctccccacaagt #### Tcirg1_ID185_2 --> 0 - 1 Original Alignment CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa atcccttcccagaggttctgatacatattgacctgttcctttgttttcagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGCGAGGAACTGGAA---------agtaaggtggtttcttcatacccattcacatcccatggcatgcttggtctg Alignment from CESAR CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGAAGACGTTTa atcccttcccagaggttctgatacatattgacctgttcctttgttttcagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGCGAGGAACTGGAA---------agtaaggtggtttcttcatacccattcacatcccatggcatgcttggtctg Alignment from Spaln_aa2Genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAG- atcccttcccagaggttctgatacatattgacctgttcctttgttttcagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGCGAGGAACTGGAAAgtaaggtggtttcttcatacccattcacatcccatggcatgcttggtctg Alignment from Spaln_nt2Genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGA atcccttcccagaggttctgatacatattgacctgttcctttgttttcagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGCGAGGAACTGGAAAgtaaggtggtttcttcatacccattcacatcccatggcatgcttggtctg Alignment from Pairagon CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGA atcccttcccagaggttctgatacatattgacctgttcctttgttttcagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGCGAGGAACTGGAAAgtaaggtggtttcttcatacccattcacatcccatggcatgcttggtctg Alignment from Exonerate_protein2genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGA atcccttcccagaggttctgatacatattgacctgttcctttgttttcagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGCGAGGAACTGGAAAgtaaggtggtttcttcatacccattcacatcccatggcatgcttggtctg Alignment from Exonerate_coding2genome CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGA atcccttcccagaggttctgatacatattgacctgttcctttgttttcagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGCGAGGAACTGGAAAgtaaggtggtttcttcatacccattcacatcccatggcatgcttggtctg Alignment from GeneWise CTCAACGAATCCGTGAGCGCCTTCCAGAGACGCTTCGTGGTAGACGTCCGGCGCTGCGAGGAACTGGAGA atcccttcccagaggttctgatacatattgacctgttcctttgttttcagTTCAATGAATCTGTGAGTGCATTCCAGAGACGCTTTGTGGTAGATGTCCGGCGCTGCGAGGAACTGGAAAgtaaggtggtttcttcatacccattcacatcccatggcatgcttggtctg #### Tctn3_ID7999_2 --> 2 - 2 Original Alignment ctTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAag caggaaaactttgagtgagttccatctttctttctctcgtctctccctagctTTACCAATCTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCT---------aggtgaggtgtccctactgcggtgcccctccggtggaggagtgcgagctcct Alignment from CESAR ctTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAag caggaaaactttgagtgagttccatctttctttctctcgtctctccctagctTTACCAATCTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCT---------aggtgaggtgtccctactgcggtgcccctccggtggaggagtgcgagctcct Alignment from Spaln_aa2Genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGG caggaaaactttgagtgagttccatctttctttctctcgtctctccctagCTTTACCAATCTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTAGgtgaggtgtccctactgcggtgcccctccggtggaggagtgcgagctcct Alignment from Spaln_nt2Genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGG caggaaaactttgagtgagttccatctttctttctctcgtctctccctagCTTTACCAATCTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTAGgtgaggtgtccctactgcggtgcccctccggtggaggagtgcgagctcct Alignment from Pairagon CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGGTAGTGTAAG caggaaaactttgagtgagttccatctttctttctctcgtctctccctagCTTTACCAATCTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCT---------AGgtgaggtgtccctactgcggtgcccctccggtggaggagtgcgagctcct Alignment from Exonerate_protein2genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGG caggaaaactttgagtgagttccatctttctttctctcgtctctccctagCTTTACCAATCTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTAGgtgaggtgtccctactgcggtgcccctccggtggaggagtgcgagctcct Alignment from Exonerate_coding2genome CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGG caggaaaactttgagtgagttccatctttctttctctcgtctctccctagCTTTACCAATCTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTAGgtgaggtgtccctactgcggtgcccctccggtggaggagtgcgagctcct Alignment from GeneWise CTTTACCGATCTGTGTCTGTGACTTGACTCCGGGTACCTGCGATTTAAACTGCTGCTGTGACAAGGACTGCGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTGG caggaaaactttgagtgagttccatctttctttctctcgtctctccctagCTTTACCAATCTGTGTCTGTGACCTGACTCCAGGTACCTGTGATTTAAACTGCTGCTGTGACAAGGACTGTGATCTTCTCCATCCCAGAACAGTCTTTTCCTTCTGTCTTCCTAGgtgaggtgtccctactgcggtgcccctccggtggaggagtgcgagctcct #### Tdrd1_ID12222_23 --> 2 - 0 Original Alignment agATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG--------------- gatccgtctctgccttgacctaggtccaagtcacttgctctgccttccagagATACCACACAGTAGAGACTGCTGTTGCACAGAATTACAGAAACAGAAACAATTTACATTTgtgagtattggtgctgcttcaaacatgaagcacatgtgctgcctcccatt Alignment from CESAR agATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG--------------- gatccgtctctgccttgacctaggtccaagtcacttgctctgccttccagagATACCACACAGTAGAGACTGCTGTTGCACAGAATTACAGAAACAGAAACAATTTACATTTgtgagtattggtgctgcttcaaacatgaagcacatgtgctgcctcccatt Alignment from Spaln_aa2Genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG--------------- gatccgtctctgccttgacctaggtccaagtcacttgctctgccttccagAGATACCACACAGTAGAGACTGCTGTTGCACAGAATTACAGAAACAGAAACAATTTACATTTgtgagtattggtgctgcttcaaacatgaagcacatgtgctgcctcccatt Alignment from Spaln_nt2Genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAGA-------------- gatccgtctctgccttgacctaggtccaagtcacttgctctgccttccagAGATACCACACAGTAGAGACTGCTGTTGCACAGAATTACAGAAACAGAAACAATTTACATTTgtgagtattggtgctgcttcaaacatgaagcacatgtgctgcctcccatt Alignment from Pairagon AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG--------------- gatccgtctctgccttgacctaggtccaagtcacttgctctgccttccagAGATACCACACAGTAGAGACTGCTGTTGCACAGAATTACAGAAACAGAAACAATTTACATTTgtgagtattggtgctgcttcaaacatgaagcacatgtgctgcctcccatt Alignment from Exonerate_protein2genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccgtctctgccttgacctaggtccaagtcacttgctctgccttccagAGATACCACACAGTAGAGACTGCTGTTGCACAGAATTACAGAAACAGaaacaatttacatttgtgagtattggtgctgcttcaaacatgaagcacatgtgctgcctcccatt Alignment from Exonerate_coding2genome AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG gatccgtctctgccttgacctaggtccaagtcacttgctctgccttccagAGATACCACACAGTAGAGACTGCTGTTGCACAGAATTACAGAAACAGaaacaatttacatttgtgagtattggtgctgcttcaaacatgaagcacatgtgctgcctcccatt Alignment from GeneWise AGATACCACACAGCAGAGACTGCTGTTGCACAGAGTTACAGAAACAG--------------- gatccgtctctgccttgacctaggtccaagtcacttgctctgccttccagAGATACCACACAGTAGAGACTGCTGTTGCACAGAATTACAGAAACAGAAACAATTTACATTTgtgagtattggtgctgcttcaaacatgaagcacatgtgctgcctcccatt #### Tle4_ID3619_18 --> 0 - 1 Original Alignment ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tcttcatgagagctgtgtgctgtcactcaaacatttatttcaatcctcagATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTT---------ggtgagcaaatcaagcctgctcctcttttccagtttttgtaatttgaatga Alignment from CESAR ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTg tcttcatgagagctgtgtgctgtcactcaaacatttatttcaatcctcagATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTT---------ggtgagcaaatcaagcctgctcctcttttccagtttttgtaatttgaatga Alignment from Spaln_aa2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTT- tcttcatgagagctgtgtgctgtcactcaaacatttatttcaatcctcagATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGgtgagcaaatcaagcctgctcctcttttccagtttttgtaatttgaatga Alignment from Spaln_nt2Genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTG tcttcatgagagctgtgtgctgtcactcaaacatttatttcaatcctcagATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGgtgagcaaatcaagcctgctcctcttttccagtttttgtaatttgaatga Alignment from Pairagon ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTG tcttcatgagagctgtgtgctgtcactcaaacatttatttcaatcctcagATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGgtgagcaaatcaagcctgctcctcttttccagtttttgtaatttgaatga Alignment from Exonerate_protein2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tcttcatgagagctgtgtgctgtcactcaaacatttatttcaatcctcagATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGGTGAGCAAAtcaagcctgctcctcttttccagtttttgtaatttgaatga Alignment from Exonerate_coding2genome ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGCCCACTGTG tcttcatgagagctgtgtgctgtcactcaaacatttatttcaatcctcagATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGGTGAGCAAAtcaagcctgctcctcttttccagtttttgtaatttgaatga Alignment from GeneWise ATCTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAATAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTG tcttcatgagagctgtgtgctgtcactcaaacatttatttcaatcctcagATTTTTTCATTGGGCTATTGCCCAACTGGAGAGTGGCTTGCAGTGGGGATGGAGAACAGCAATGTGGAAGTATTGCATGTCACCAAACCAGACAAATACCAGTTGCATCTTCATGAGAGCTGTGTGCTGTCACTCAAGTTTGgtgagcaaatcaagcctgctcctcttttccagtttttgtaatttgaatga #### Tm7sf2_ID1413_7 --> 0 - 1 Original Alignment ---------GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg cttgaggacatcaactgggttaacccaaacatacttatcttgtgttatagTATCTCGACGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTTATGCTGGTCTTTGGAGATCTAGCTTGGATACCATTCACCTACAGCCTGCAGGCCCAGTTCCTTTTGTACCATCCACAACCTCTGGGGTTACCCATGGCCTTGCTCATCTGCCTCCTTAGGggttggtatgagataccctcagtgccccttccccttccatccatgctctgt Alignment from CESAR ---------GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGg cttgaggacatcaactgggttaacccaaacatacttatcttgtgttatagTATCTCGACGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTTATGCTGGTCTTTGGAGATCTAGCTTGGATACCATTCACCTACAGCCTGCAGGCCCAGTTCCTTTTGTACCATCCACAACCTCTGGGGTTACCCATGGCCTTGCTCATCTGCCTCCTTAGGggttggtatgagataccctcagtgccccttccccttccatccatgctctgt Alignment from Spaln_aa2Genome GAGTCTGTCCTCACCACC---------ATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG cttgaggacatcaactgggttaacccaaacatacttatcttgtgttatagTATCTCGACGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTTATGCTGGTCTTTGGAGATCTAGCTTGGATACCATTCACCTACAGCCTGCAGGCCCAGTTCCTTTTGTACCATCCACAACCTCTGGGGTTACCCATGGCCTTGCTCATCTGCCTCCTTAGGGgttggtatgagataccctcagtgccccttccccttccatccatgctctgt Alignment from Spaln_nt2Genome GAGTCTGTCC---------TCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG cttgaggacatcaactgggttaacccaaacatacttatcttgtgttatagTATCTCGACGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTTATGCTGGTCTTTGGAGATCTAGCTTGGATACCATTCACCTACAGCCTGCAGGCCCAGTTCCTTTTGTACCATCCACAACCTCTGGGGTTACCCATGGCCTTGCTCATCTGCCTCCTTAGGGgttggtatgagataccctcagtgccccttccccttccatccatgctctgt Alignment from Pairagon ---------GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG cttgaggacatcaactgggttaacccaaacatacttatcttgtgttatagTATCTCGACGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTTATGCTGGTCTTTGGAGATCTAGCTTGGATACCATTCACCTACAGCCTGCAGGCCCAGTTCCTTTTGTACCATCCACAACCTCTGGGGTTACCCATGGCCTTGCTCATCTGCCTCCTTAGGGgttggtatgagataccctcagtgccccttccccttccatccatgctctgt Alignment from Exonerate_protein2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG cttgaggacatcaactgggttaacccaaacatacttatcttgtgttatagtatctcgacGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTTATGCTGGTCTTTGGAGATCTAGCTTGGATACCATTCACCTACAGCCTGCAGGCCCAGTTCCTTTTGTACCATCCACAACCTCTGGGGTTACCCATGGCCTTGCTCATCTGCCTCCTTAGGGgttggtatgagataccctcagtgccccttccccttccatccatgctctgt Alignment from Exonerate_coding2genome GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG cttgaggacatcaactgggttaacccaaacatacttatcttgtgttatagtatctcgacGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTTATGCTGGTCTTTGGAGATCTAGCTTGGATACCATTCACCTACAGCCTGCAGGCCCAGTTCCTTTTGTACCATCCACAACCTCTGGGGTTACCCATGGCCTTGCTCATCTGCCTCCTTAGGGgttggtatgagataccctcagtgccccttccccttccatccatgctctgt Alignment from GeneWise ---------GAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTCATGCTGGTCTTTGGAGATCTAGCTTGGGTACCATTCACCTACAGCCTGCAGGCCCAGTTCCTGTTGTACCATCCACAGCCTCTGGGGTTGCCCATGGCCTTGCTCATCTGCCTCCTTAAGG cttgaggacatcaactgggttaacccaaacatacttatcttgtgttatagTATCTCGACGAGTCTGTCCTCACCACCATGGACATAATACATGATGGTTTTGGCTTTATGCTGGTCTTTGGAGATCTAGCTTGGATACCATTCACCTACAGCCTGCAGGCCCAGTTCCTTTTGTACCATCCACAACCTCTGGGGTTACCCATGGCCTTGCTCATCTGCCTCCTTAGGGgttggtatgagataccctcagtgccccttccccttccatccatgctctgt #### Tm7sf2_ID1418_2 --> 2 - 0 Original Alignment gc---------GTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgagagagctcttggaagcagtcatgttcaccacctttccgtgtctgcaggcTTATTTTTTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCCCACCTGCTCCTCGCCGCTCGCTCAGGGCCAGCGCGACTCCTGGCCCTGCCAGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTACTGTTGTTCATCTGGCTCGGCCTGCAGGTGGCACTCTATTTGCTGCCCGCATGCAAGgtaagggatctgtcgcaacacacgaaggataaggggcagggagggtcgta Alignment from CESAR gc---------GTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgagagagctcttggaagcagtcatgttcaccacctttccgtgtctgcaggcTTATTTTTTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCCCACCTGCTCCTCGCCGCTCGCTCAGGGCCAGCGCGACTCCTGGCCCTGCCAGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTACTGTTGTTCATCTGGCTCGGCCTGCAGGTGGCACTCTATTTGCTGCCCGCATGCAAGgtaagggatctgtcgcaacacacgaaggataaggggcagggagggtcgta Alignment from Spaln_aa2Genome GCGTCGCGGCTTTACTG---------ATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgagagagctcttggaagcagtcatgttcaccacctttccgtgtctgcagGCTTATTTTTTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCCCACCTGCTCCTCGCCGCTCGCTCAGGGCCAGCGCGACTCCTGGCCCTGCCAGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTACTGTTGTTCATCTGGCTCGGCCTGCAGGTGGCACTCTATTTGCTGCCCGCATGCAAGgtaagggatctgtcgcaacacacgaaggataaggggcagggagggtcgta Alignment from Spaln_nt2Genome GCGTCGCGGCTTTACTG---------ATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgagagagctcttggaagcagtcatgttcaccacctttccgtgtctgcagGCTTATTTTTTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCCCACCTGCTCCTCGCCGCTCGCTCAGGGCCAGCGCGACTCCTGGCCCTGCCAGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTACTGTTGTTCATCTGGCTCGGCCTGCAGGTGGCACTCTATTTGCTGCCCGCATGCAAGgtaagggatctgtcgcaacacacgaaggataaggggcagggagggtcgta Alignment from Pairagon GC---------GTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgagagagctcttggaagcagtcatgttcaccacctttccgtgtctgcagGCTTATTTTTTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCCCACCTGCTCCTCGCCGCTCGCTCAGGGCCAGCGCGACTCCTGGCCCTGCCAGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTACTGTTGTTCATCTGGCTCGGCCTGCAGGTGGCACTCTATTTGCTGCCCGCATGCAAGgtaagggatctgtcgcaacacacgaaggataaggggcagggagggtcgta Alignment from Exonerate_protein2genome CGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgagagagctcttggaagcagtcatgttcaccacctttccgtgtctgcaggcttattttttgttgCAGCTTTATTGATACTGCTGCCTGCCACCATGTCCCACCTGCTCCTCGCCGCTCGCTCAGGGCCAGCGCGACTCCTGGCCCTGCCAGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTACTGTTGTTCATCTGGCTCGGCCTGCAGGTGGCACTCTATTTGCTGCCCGCATGCAAGgtaagggatctgtcgcaacacacgaaggataaggggcagggagggtcgta Alignment from Exonerate_coding2genome CGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgagagagctcttggaagcagtcatgttcaccacctttccgtgtctgcaggcttattttttgttgCAGCTTTATTGATACTGCTGCCTGCCACCATGTCCCACCTGCTCCTCGCCGCTCGCTCAGGGCCAGCGCGACTCCTGGCCCTGCCAGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTACTGTTGTTCATCTGGCTCGGCCTGCAGGTGGCACTCTATTTGCTGCCCGCATGCAAGgtaagggatctgtcgcaacacacgaaggataaggggcagggagggtcgta Alignment from GeneWise --------GGCGTCGCGGCTTTACTGATCCTGCTGCCTGCCACCATGTTCCACCTGCTCCTGGCGGCTCGCTCGGGCCCGGCGCGCCTCCTGGCCCTACCGGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTGCTATTGTTCATCTGGCTCGGCCTGCAGGTGGCGCTCTATTTGCTGCCTGCACGCAAG tgagagagctcttggaagcagtcatgttcaccacctttccgtgtctgcagGCTTATTTTTTGTTGCAGCTTTATTGATACTGCTGCCTGCCACCATGTCCCACCTGCTCCTCGCCGCTCGCTCAGGGCCAGCGCGACTCCTGGCCCTGCCAGCCTATCTGCCTGGGCTGGAGGAGCTGTGGAGCCCATGGGCTCTGCTACTGTTGTTCATCTGGCTCGGCCTGCAGGTGGCACTCTATTTGCTGCCCGCATGCAAGgtaagggatctgtcgcaacacacgaaggataaggggcagggagggtcgta #### Tmem179b_ID2369_4 --> 1 - 0 Original Alignment c---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA tcctccccacccctgctaccaacctgttcaccctagtgccccacccgcagcGATTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacggtagcttaagtgtgtt Alignment from CESAR c---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA tcctccccacccctgctaccaacctgttcaccctagtgccccacccgcagcGATTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacggtagcttaagtgtgtt Alignment from Spaln_aa2Genome C---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGA tcctccccacccctgctaccaacctgttcaccctagtgccccacccgcagCGATTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacggtagcttaagtgtgtt Alignment from Spaln_nt2Genome CTGCTCTGAA---GCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA tcctccccacccctgctaccaacctgttcaccctagtgccccacccgcagCGATTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacggtagcttaagtgtgtt Alignment from Pairagon C---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA tcctccccacccctgctaccaacctgttcaccctagtgccccacccgcagCGATTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacggtagcttaagtgtgtt Alignment from Exonerate_protein2genome C---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA tcctccccacccctgctaccaacctgttcaccctagtgccccacccgcagCGATTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacggtagcttaagtgtgtt Alignment from Exonerate_coding2genome C---TGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA tcctccccacccctgctaccaacctgttcaccctagtgccccacccgcagCGATTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacggtagcttaagtgtgtt Alignment from GeneWise -AGCTGCTCTGAAGCCCAGAAAACCTCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAA tcctccccacccctgctaccaacctgttcaccctagtgccccacccgcagCGATTGCTCTGAAGCCCAGAAGACCGCATGGACACCTTCAGGAACTGCTGTGCAGTTTTACTCCAACCTACATACTGCTGAAgtaagacacaggtatacaccaagattaagcaacggtagcttaagtgtgtt #### Tmem179b_ID2370_3 --> 1 - 2 Original Alignment aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag tgaggtgaatcccacgtaggctgacggcttgcatttcctctcttcactaga---TCTATAGGGCTCCGGATTGCTTTGGCCATCTCGGCTACAGCCATCTTCCTAATCTTAGTGTCTGCCTGTATACTTCGATTTGGTACCAATTCTTTCTGCAATTCCATCATCTCTTTGAATCTTACAATTaggtaaggggtgagggagggaaccctagcacggactgtcattctgtggggga Alignment from CESAR aGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTag gtttgaggtgaatcccacgtaggctggcttgcatttcctctcttcactaga---TCTATAGGGCTCCGGATTGCTTTGGCCATCTCGGCTACAGCCATCTTCCTAATCTTAGTGTCTGCCTGTATACTTCGATTTGGTACCAATTCTTTCTGCAATTCCATCATCTCTTTGAATCTTACAATTaggtaaggggtgagggagggaaccctagcacggactgtcattctgtggggga Alignment from Spaln_aa2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tgaggtgaatcccacgtaggctgacggcttgcatttcctctcttcactagA---TCTATAGGGCTCCGGATTGCTTTGGCCATCTCGGCTACAGCCATCTTCCTAATCTTAGTGTCTGCCTGTATACTTCGATTTGGTACCAATTCTTTCTGCAATTCCATCATCTCTTTGAATCTTACAATTAGgtaaggggtgagggagggaaccctagcacggactgtcattctgtggggga Alignment from Spaln_nt2Genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tgaggtgaatcccacgtaggctgacggcttgcatttcctctcttcactagA---TCTATAGGGCTCCGGATTGCTTTGGCCATCTCGGCTACAGCCATCTTCCTAATCTTAGTGTCTGCCTGTATACTTCGATTTGGTACCAATTCTTTCTGCAATTCCATCATCTCTTTGAATCTTACAATTAGgtaaggggtgagggagggaaccctagcacggactgtcattctgtggggga Alignment from Pairagon AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tgaggtgaatcccacgtaggctgacggcttgcatttcctctcttcactagA---TCTATAGGGCTCCGGATTGCTTTGGCCATCTCGGCTACAGCCATCTTCCTAATCTTAGTGTCTGCCTGTATACTTCGATTTGGTACCAATTCTTTCTGCAATTCCATCATCTCTTTGAATCTTACAATTAGgtaaggggtgagggagggaaccctagcacggactgtcattctgtggggga Alignment from Exonerate_protein2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tgaggtgaatcccacgtaggctgacggcttgcatttcctctcttcacTAGATCTATAGGGCTCCGGATTGCTTTGGCCATCTCGGCTACAGCCATCTTCCTAATCTTAGTGTCTGCCTGTATACTTCGATTTGGTACCAATTCTTTCTGCAATTCCATCATCTCTTTGAATCTTACAATTAGgtaaggggtgagggagggaaccctagcacggactgtcattctgtggggga Alignment from Exonerate_coding2genome AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tgaggtgaatcccacgtaggctgacggcttgcatttcctctcttcacTAGATCTATAGGGCTCCGGATTGCTTTGGCCATCTCGGCTACAGCCATCTTCCTAATCTTAGTGTCTGCCTGTATACTTCGATTTGGTACCAATTCTTTCTGCAATTCCATCATCTCTTTGAATCTTACAATTAGgtaaggggtgagggagggaaccctagcacggactgtcattctgtggggga Alignment from GeneWise AGGTTCTATAGGGCTCCGAATTGCTTTGGCCATCTCAGCTACAGCCATCTTCCTGATCTTAGTGTCTGCCTGTATACTTCGATTTGGCACCAATTCTTTCTGCAATTCCATCATCTCCTTGAACCTTACAATTAG tgaggtgaatcccacgtaggctgacggcttgcatttcctctcttcactagA---TCTATAGGGCTCCGGATTGCTTTGGCCATCTCGGCTACAGCCATCTTCCTAATCTTAGTGTCTGCCTGTATACTTCGATTTGGTACCAATTCTTTCTGCAATTCCATCATCTCTTTGAATCTTACAATTAGgtaaggggtgagggagggaaccctagcacggactgtcattctgtggggga #### Trmt112_ID1861_2 --> 0 - 0 Original Alignment GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctggacctacctcactgaatgtttttaacctgagctctttcccctagGCCACTGAAGTCCGCATCAACCCTGTGGAGTTTAACCCAGAGTTAGTGGCGCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCT---------gtgagtaccgcggcagccctgcccttcctgttgtatcttaggggcaggct Alignment from CESAR GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctggacctacctcactgaatgtttttaacctgagctctttcccctagGCCACTGAAGTCCGCATCAACCCTGTGGAGTTTAACCCAGAGTTAGTGGCGCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCT---------gtgagtaccgcggcagccctgcccttcctgttgtatcttag Alignment from Spaln_aa2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctggacctacctcactgaatgtttttaacctgagctctttcccctagGCCACTGAAGTCCGCATCAACCCTGTGGAGTTTAACCCAGAGTTAGTGGCGCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTGTGAGTACCgcggcagccctgcccttcctgttgtatcttaggggcaggct Alignment from Spaln_nt2Genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctggacctacctcactgaatgtttttaacctgagctctttcccctagGCCACTGAAGTCCGCATCAACCCTGTGGAGTTTAACCCAGAGTTAGTGGCGCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTGTGAGTACCgcggcagccctgcccttcctgttgtatcttaggggcaggct Alignment from Pairagon GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCA gacctggacctacctcactgaatgtttttaacctgagctctttcccctagGCCACTGAAGTCCGCATCAACCCTGTGGAGTTTAACCCAGAGTTAGTGGCGCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTgtgagtaccgcggcagccctgcccttcctgttgtatcttaggggcaggct Alignment from Exonerate_protein2genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctggacctacctcactgaatgtttttaacctgagctctttcccctagGCCACTGAAGTCCGCATCAACCCTGTGGAGTTTAACCCAGAGTTAGTGGCGCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTGTGAGTACCgcggcagccctgcccttcctgttgtatcttaggggcaggct Alignment from Exonerate_coding2genome GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctggacctacctcactgaatgtttttaacctgagctctttcccctagGCCACTGAAGTCCGCATCAACCCTGTGGAGTTTAACCCAGAGTTAGTGGCGCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGGGCTGTGAGTACCgcggcagccctgcccttcctgttgtatcttaggggcaggct Alignment from GeneWise GCCACTGAGGTCCGCATCAACCCCGTGGAGTTCAACCCGGAGTTCGTGGCGCGGATGATCCCCAAAGTGGAGTGGGCGGCGCTTGTGCAGGCAGCGGACACC gacctggacctacctcactgaatgtttttaacctgagctctttcccctagGCCACTGAAGTCCGCATCAACCCTGTGGAGTTTAACCCAGAGTTAGTGGCGCGTATGATCCCCAAAGTGGAGTGGGCAGCACTTGTTCGG---------GCTgtgagtaccgcggcagccctgcccttcctgttgtatcttaggggcaggct #### Trpt1_ID1981_4 --> 0 - 1 Original Alignment ---------------------GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gagtgcatgaaaggggtttctctgctgctgggtgtctatttatgctgtagTCCACATCCCCACTTGCAAGGGTCCCTGAGTTGGAACTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGGCACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCTTCAGGATTGCCA---GACCCTGGTGTTATCAGTggtaattgtcacattacctagtctctcctccctggtctccaccagggatca Alignment from CESAR ---------------------GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCg gagtgcatgaaaggggtttctctgctgctgggtgtctatttatgctgtagTCCACATCCCCACTTGCAAGGGTCCCTGAGTTGGAACTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGGCACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCTTCAGGATTGCCA---GACCCTGGTGTTATCAGTggtaattgtcacattacctagtctctcctccctggtctccaccagggatca Alignment from Spaln_aa2Genome -CCTGAGTTGGAA---CTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gagtgcatgaaaggggtttctctgctgctgggtgtctatttatgctgtagtccacatccccacttgcaagGGTCCCTGAGTTGGAACTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGGCACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCTTCAGGATTGCCA---GACCCTGGTGTTATCAGTGgtaattgtcacattacctagtctctcctccctggtctccaccagggatca Alignment from Spaln_nt2Genome GTCCCTGAGTTG-GAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gagtgcatgaaaggggtttctctgctgctgggtgtctatttatgctgtagtccacatccccacttgcaagGGTCCCTGAGTTGGAACTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGGCACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCTTCAGGATTGCC---AGACCCTGGTGTTATCAGTGgtaattgtcacattacctagtctctcctccctggtctccaccagggatca Alignment from Pairagon ---------------------GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gagtgcatgaaaggggtttctctgctgctgggtgtctatttatgctgtagTCCACATCCCCACTTGCAAGGGTCCCTGAGTTGGAACTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGGCACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCTTCAGGATTGCC---AGACCCTGGTGTTATCAGTGgtaattgtcacattacctagtctctcctccctggtctccaccagggatca Alignment from Exonerate_protein2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gagtgcatgaaaggggtttctctgctgctgggtgtctatttatgctgtagtccacatccccacttgcaaggGTCCCTGAGTTGGAACTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGGCACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCTTCAGGATTGCCA---GACCCTGGTGTTATCAGTGgtaattgtcacattacctagtctctcctccctggtctccaccagggatca Alignment from Exonerate_coding2genome GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gagtgcatgaaaggggtttctctgctgctgggtgtctatttatgctgtagtccacatccccacttgcaaggGTCCCTGAGTTGGAACTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGGCACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCTTCAGGATTGCCA---GACCCTGGTGTTATCAGTGgtaattgtcacattacctagtctctcctccctggtctccaccagggatca Alignment from GeneWise ---------------------GTCCCTGAGTTGGAACTGACGCCCCTGGAGACACCACAAGCCCTGCCCTTGACACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCTATTCTACTAAAGGGCTTGTCACGCCAAGGAAGGACACACATCCACTTGGCCTCAGGATTGCCTGGGGACCCTGGTGTCATCAGCG gagtgcatgaaaggggtttctctgctgctgggtgtctatttatgctgtagTCCACATCCCCACTTGCAAGGGTCCCTGAGTTGGAACTGACACCCCTGGAGACACCACAAGCCCTGCCCTTGGCACTAGTCCATGGTACATTCTGGAAGCACTGGCCATCCATTCTACTAAAGGGTTTGTCACGCCAAGGAAGGACACGCATCCACCTGGCTTCAGGATTGCCA---GACCCTGGTGTTATCAGTGgtaattgtcacattacctagtctctcctccctggtctccaccagggatca #### Trpt1_ID1982_5 --> 2 - 1 Original Alignment gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAg cacatagctatgcaggggaacagagagcaaattctttgttttttttctaggcATTCGACCAAATTGTGAAGTGACAGTGTTTATTGATGGGCCCCTAGCCCTC---ggtgagaagaattgccccacagggctgaatcatccatgcctgtcatagaac Alignment from CESAR gcATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAg cacatagctatgcaggggaacagagagcaaattctttgttttttttctaggcATTCGACCAAATTGTGAAGTGACAGTGTTTATTGATGGGCCCCTAGCCCTC---ggtgagaagaattgccccacagggctgaatcatccatgcctgtcatagaac Alignment from Spaln_aa2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTC- cacatagctatgcaggggaacagagagcaaattctttgttttttttctagGCATTCGACCAAATTGTGAAGTGACAGTGTTTATTGATGGGCCCCTAGCCCTCGgtgagaagaattgccccacagggctgaatcatccatgcctgtcatagaac Alignment from Spaln_nt2Genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCA CAG cacatagctatgcaggggaacagagagcaaattctttgttttttttctagGCATTCGACCAAATTGTGAAGTGACAGTGTTTATTGATGGGCCCCTAGCCCTCGgtgagaagaattgccccacagggctgaatcatccatgcctgtcatagAAC Alignment from Pairagon GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG cacatagctatgcaggggaacagagagcaaattctttgttttttttctagGCATTCGACCAAATTGTGAAGTGACAGTGTTTATTGATGGGCCCCTAGCCCTC---Ggtgagaagaattgccccacagggctgaatcatccatgcctgtcatagaac Alignment from Exonerate_protein2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG cacatagctatgcaggggaacagagagcaaattctttgttttttttctagGCATTCGACCAAATTGTGAAGTGACAGTGTTTATTGATGGGCCCCTAGCCCTC---Ggtgagaagaattgccccacagggctgaatcatccatgcctgtcatagaac Alignment from Exonerate_coding2genome GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCACAG cacatagctatgcaggggaacagagagcaaattctttgttttttttctagGCATTCGACCAAATTGTGAAGTGACAGTGTTTATTGATGGGCCCCTAGCCCTC---Ggtgagaagaattgccccacagggctgaatcatccatgcctgtcatagaac Alignment from GeneWise GCATTCGTCCAAATTGTGAGGTGGCGGTGTTCATCGATGGACCCCTAGCCCTCA cacatagctatgcaggggaacagagagcaaattctttgttttttttctagGCATTCGACCAAATTGTGAAGTGACAGTGTTTATTGATGGGCCCCTAGCCCTCGgtgagaagaattgccccacagggctgaatcatccatgcctgtcatagaac #### Trpt1_ID1983_6 --> 2 - 1 Original Alignment atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAc atagaacgtgactatcatatggtcacacgcctgttcctcctgtccctcagatGGAATTCCT---TTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGAAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTCCAGCTTCGACCT---cgtacggagcatataaaccaccccccaccccggtctgatgctcacgataag Alignment from CESAR atGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAc atagaacgtgactatcatatggtcacacgcctgttcctcctgtccctcagatGGAATTCCT---TTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGAAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTCCAGCTTCGACCT---cgtacggagcatataaaccaccccccaccccggtctgatgctcacgataag Alignment from Spaln_aa2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCT- atagaacgtgactatcatatggtcacacgcctgttcctcctgtccctcagATGGAATTCCT---TTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGAAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTCCAGCTTCGACCTCgtacggagcatataaaccaccccccaccccggtctgatgctcacgataag Alignment from Spaln_nt2Genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC atagaacgtgactatcatatggtcacacgcctgttcctcctgtccctcagATGGAATTCCT---TTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGAAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTCCAGCTTCGACCT---Cgtacggagcatataaaccaccccccaccccggtctgatgctcacgataag Alignment from Pairagon ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC atagaacgtgactatcatatggtcacacgcctgttcctcctgtccctcagATGGAATTCCT---TTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGAAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTCCAGCTTCGACCT---Cgtacggagcatataaaccaccccccaccccggtctgatgctcacgataag Alignment from Exonerate_protein2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC atagaacgtgactatcatatggtcacacgcctgttcctcctgtccctcagATGGAATTCCT---TTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGAAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTCCAGCTTCGACCTCGTAcggagcatataaaccaccccccaccccggtctgatgctcacgataag Alignment from Exonerate_coding2genome ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTACAC atagaacgtgactatcatatggtcacacgcctgttcctcctgtccctcagATGGAATTCCT---TTCTGCTTCGCCAATGGGGTGATTCTGACTCCAGGAAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTCCAGCTTCGACCTCGTAcggagcatataaaccaccccccaccccggtctgatgctcacgataag Alignment from GeneWise ATGGAATCCCTTTCTTCTGCTCCGCCAATGGTGTGATTCTGACTCCAGGGAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTCAAGGAGGCCCTGCAGCTTCGACCTA atagaacgtgactatcatatggtcacacgcctgttcctcctgtccctcagATGGAATTCCTTTC---TGCTTCGCCAATGGGGTGATTCTGACTCCAGGAAATGCTGAAGGCTTCCTGCTTCCCAAGTACTTTAAGGAGGCCCTCCAGCTTCGACCTCgtacggagcatataaaccaccccccaccccggtctgatgctcacgataag #### Tsga10ip_ID978_2 --> 0 - 2 Original Alignment ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag cctaatgaagagtaggaacgtccaccttgctgtgcctggcttgttttcag---------CGACTCACTGGAAATCGGCGCTTCTCCCAGGTTCTGTCGGCACTGGGGGTAGACGAGGACCAGCTGCTAGCTGAGGCGGGTATTGCTGAGAGCACTCCCCGGAAGCACaggtgagaggggacaaggtcacctagtgttccctatgtcacacatgtgtatt Alignment from CESAR ACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACag tcaagcagccctaatgaagagtaggcttgctgtgcctggcttgttttcag---------CGACTCACTGGAAATCGGCGCTTCTCCCAGGTTCTGTCGGCACTGGGGGTAGACGAGGACCAGCTGCTAGCTGAGGCGGGTATTGCTGAGAGCACTCCCCGGAAGCACaggtgagaggggacaaggtcacctagtgttccctatgtcacacatgtgtatt Alignment from Spaln_aa2Genome AGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG cctaatgaagagtaggaacgtccaccttgctgtgcctggcttgttttcagCGACTCACTGGAAATCGGCGCTTCTCCCAGGTTCTGTCGGCACTGGGGGTAGACGAGGACCAGCTGCTAGCTGAGGCGGGTATTGCTGAGAGCACTCCCCGGAAGCACAGgtgagaggggacaaggtcacctagtgttccctatgtcacacatgtgtatt Alignment from Spaln_nt2Genome AGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG cctaatgaagagtaggaacgtccaccttgctgtgcctggcttgttttcagCGACTCACTGGAAATCGGCGCTTCTCCCAGGTTCTGTCGGCACTGGGGGTAGACGAGGACCAGCTGCTAGCTGAGGCGGGTATTGCTGAGAGCACTCCCCGGAAGCACAGgtgagaggggacaaggtcacctagtgttccctatgtcacacatgtgtatt Alignment from Pairagon GACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG cctaatgaagagtaggaacgtccaccttgctgtgcctggcttgttttcagcGACTCACTGGAAATCGGCGCTTCTCCCAGGTTCTGTCGGCACTGGGGGTAGACGAGGACCAGCTGCTAGCTGAGGCGGGTATTGCTGAGAGCACTCCCCGGAAGCACAGgtgagaggggacaaggtcacctagtgttccctatgtcacacatgtgtatt Alignment from Exonerate_protein2genome AGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG cctaatgaagagtaggaacgtccaccttgctgtgcctggcttgttttcagCGACTCACTGGAAATCGGCGCTTCTCCCAGGTTCTGTCGGCACTGGGGGTAGACGAGGACCAGCTGCTAGCTGAGGCGGGTATTGCTGAGAGCACTCCCCGGAAGCACAGgtgagaggggacaaggtcacctagtgttccctatgtcacacatgtgtatt Alignment from Exonerate_coding2genome AGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG cctaatgaagagtaggaacgtccaccttgctgtgcctggcttgttttcagCGACTCACTGGAAATCGGCGCTTCTCCCAGGTTCTGTCGGCACTGGGGGTAGACGAGGACCAGCTGCTAGCTGAGGCGGGTATTGCTGAGAGCACTCCCCGGAAGCACAGgtgagaggggacaaggtcacctagtgttccctatgtcacacatgtgtatt Alignment from GeneWise CAGACCAACGCCAGACTCACTGCAAATCGGCGCTTCTCCCAGGTGCTGTCAGCACTGGGGGTAGACGAGGACCAGCTGCTGGCCGAGGCAGGCAATGCTGAGAGCACCCCCCGGAAGCACAG cctaatgaagagtaggaacgtccaccttgctgtgcctgGCTTGTTTTCAGCGACTCACTGGAAATCGGCGCTTCTCCCAGGTTCTGTCGGCACTGGGGGTAGACGAGGACCAGCTGCTAGCTGAGGCGGGTATTGCTGAGAGCACTCCCCGGAAGCACAGgtgagaggggacaaggtcacctagtgttccctatgtcacacatgtgtatt #### Tut1_ID2554_7 --> 2 - 1 Original Alignment gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCA---------------------g ccggtcttgtaaatagtacttcccaactagctgagtgctctcctccacaggaGGTGGCCCCCTCCTCAATAACTATGCCTTGACATTGTTGGTCATCTACTTGCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTAACCCAGAGAGCATGGAATTTCCCATTGATAATCggtaaggcagaatggcctctaccatcatgatcacagcttcatcttatccct Alignment from CESAR gaGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCA---------------------g ccggtcttgtaaatagtacttcccaactagctgagtgctctcctccacaggaGGTGGCCCCCTCCTCAATAACTATGCCTTGACATTGTTGGTCATCTACTTGCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTAACCCAGAGAGCATGGAATTTCCCATTGATAATCggtaaggcagaatggcctctaccatcatgatcacagcttcatcttatccct Alignment from Spaln_aa2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGA ccggtcttgtaaatagtacttcccaactagctgagtgctctcctccacagGAGGTGGCCCCCTCCTCAATAACTATGCCTTGACATTGTTGGTCATCTACTTGCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTAACCCAGAGAgcatggaatttcccattgataatcggtaaggcagaatggcctctaccatcatgatcacagcttcatcttatccct Alignment from Spaln_nt2Genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGC ccggtcttgtaaatagtacttcccaactagctgagtgctctcctccacagGAGGTGGCCCCCTCCTCAATAACTATGCCTTGACATTGTTGGTCATCTACTTGCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTAACCCAGAGAGCatggaatttcccattgataatcggtaaggcagaatggcctctaccatcatgatcacagcttcatcttatccct Alignment from Pairagon GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCA---------------------G ccggtcttgtaaatagtacttcccaactagctgagtgctctcctccacagGAGGTGGCCCCCTCCTCAATAACTATGCCTTGACATTGTTGGTCATCTACTTGCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTAACCCAGAGAGCATGGAATTTCCCATTGATAATCGgtaaggcagaatggcctctaccatcatgatcacagcttcatcttatccct Alignment from Exonerate_protein2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ccggtcttgtaaatagtacttcccaactagctgagtgctctcctccacagGAGGTGGCCCCCTCCTCAATAACTATGCCTTGACATTGTTGGTCATCTACTTGCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTAACCCAGAGAGCATggaatttcccattgataatcggtaaggcagaatggcctctaccatcatgatcacagcttcatcttatccct Alignment from Exonerate_coding2genome GAGGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCAG ccggtcttgtaaatagtacttcccaactagctgagtgctctcctccacagGAGGTGGCCCCCTCCTCAATAACTATGCCTTGACATTGTTGGTCATCTACTTGCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTAACCCAGAGAGCATggaatttcccattgataatcggtaaggcagaatggcctctaccatcatgatcacagcttcatcttatccct Alignment from GeneWise --GGTGGCCCCCTTCTCAATAACTACGCCTTGACGTTGTTAGTGATCTACTTCCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTTACCCAGAGAGCA---------------------G ccggtcttgtaaatagtacttcccaactagctgagtgctctcctccacagGAGGTGGCCCCCTCCTCAATAACTATGCCTTGACATTGTTGGTCATCTACTTGCTTCAGACCAGAGACCCTCCAGTACTTCCTACTGTGGCCCAGCTAACCCAGAGAGCATGGAATTTCCCATTGATAATCGgtaaggcagaatggcctctaccatcatgatcacagcttcatcttatccct #### Ubxn1_ID2438_2 --> 1 - 2 Original Alignment g---GAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATtg ttactacccccatggcttgcaggcactattaatatcttttggcatttaaggTTTGAGAAGGCTCTTGCCCTCACGGGGAACCACGGCATCGAGGCTGCGATGGCTtggtgcgtagacaatctgcacagttggtgggtgattgggagctgctgcacaa Alignment from CESAR g---GAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATtg ttactacccccatggcttgcaggcactattaatatcttttggcatttaaggTTTGAGAAGGCTCTTGCCCTCACGGGGAACCACGGCATCGAGGCTGCGATGGCTtggtgcgtagacaatctgcacagttggtgggtgattgggagctgctgcacaa Alignment from Spaln_aa2Genome GGAGAAGGCTCTGGCCCTCACAGGG---AACCAGGGCATCGAGGCTGCGATGGATTG ttactacccccatggcttgcaggcactattaatatcttttggcatttaagGTTTGAGAAGGCTCTTGCCCTCACGGGGAACCACGGCATCGAGGCTGCGATGGCTTGgtgcgtagacaatctgcacagttggtgggtgattgggagctgctgcacaa Alignment from Spaln_nt2Genome GGAGAAGGCT---CTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG ttactacccccatggcttgcaggcactattaatatcttttggcatttaagGTTTGAGAAGGCTCTTGCCCTCACGGGGAACCACGGCATCGAGGCTGCGATGGCTTGgtgcgtagacaatctgcacagttggtgggtgattgggagctgctgcacaa Alignment from Pairagon ------------------------------------------------------GAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG TTACTACCCCCATGGCTTGCAGGCACTATTAATATCTTTTGGCATTTAAGGTTTGAGAAGGCTCTTGCCCTCACGGGGAACCACGGCATCGAGGCTGCGATGGCTTGgtgcgtagacaatctgcacagttggtgggtgattgggagctgctgcacaa Alignment from Exonerate_protein2genome GCGCGGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG ttactacccccatggcttgcaggcactattaatatcttttggcatttaaGGTTTGAGAAGGCTCTTGCCCTCACGGGGAACCACGGCATCGAGGCTGCGATGGCTTGgtgcgtagacaatctgcacagttggtgggtgattgggagctgctgcacaa Alignment from Exonerate_coding2genome GCGCGGAGAAGGCTCTGGCCCTCACAGGGAACCAGGGCATCGAGGCTGCGATGGATTG ttactacccccatggcttgcaggcactattaatatcttttggcatttaaGGTTTGAGAAGGCTCTTGCCCTCACGGGGAACCACGGCATCGAGGCTGCGATGGCTTGgtgcgtagacaatctgcacagttggtgggtgattgggagctgctgcacaa Alignment from GeneWise ttactacccccatggcttgcaggcactattaatatcttttggcatttaaggtttgagaaggctcttgccctcacggggaaccacggcatcgaggctgcgatggcttggtgcgtagacaatctgcacagttggtgggtgattgggagctgctgcacaa #### Ubxn1_ID2439_3 --> 1 - 1 Original Alignment g---------------CTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAg gctgctgcacaaggtggcctccacaatactgcttcctttctctcccacaggGGGGTGTTTGCAATCCTGATGGAGCATGAAGACGACCCTGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCTTGGGACGAGAACCCAAGCCCTCAGAGCAAGTTGGCCCTGAAggtgagaattgggaaacatcttggttctagagaccttaaaagggccctgag Alignment from CESAR g---------------CTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAg gctgctgcacaaggtggcctccacaatactgcttcctttctctcccacaggGGGGTGTTTGCAATCCTGATGGAGCATGAAGACGACCCTGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCTTGGGACGAGAACCCAAGCCCTCAGAGCAAGTTGGCCCTGAAggtgagaattgggaaacatcttggttctagagaccttaaaagggccctgag Alignment from Spaln_aa2Genome G----------------CTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAG gctgctgcacaaggtggcctccacaatactgcttcctttctctcccacagGGGGGTGTTTGCAATCCTGATGGAGCATGAAGACGACCCTGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCTTGGGACGAGAACCCAAGCCCTCAGAGCAAGTTGGCCCTGAAGgtgagaattgggaaacatcttggttctagagaccttaaaagggccctgag Alignment from Spaln_nt2Genome GGCTGATGGAG--------------CATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAG gctgctgcacaaggtggcctccacaatactgcttcctttctctcccacagGGGGGTGTTTGCAATCCTGATGGAGCATGAAGACGACCCTGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCTTGGGACGAGAACCCAAGCCCTCAGAGCAAGTTGGCCCTGAAGgtgagaattgggaaacatcttggttctagagaccttaaaagggccctgag Alignment from Pairagon G---------------CTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAG gctgctgcacaaggtggcctccacaatactgcttcctttctctcccacagGGGGGTGTTTGCAATCCTGATGGAGCATGAAGACGACCCTGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCTTGGGACGAGAACCCAAGCCCTCAGAGCAAGTTGGCCCTGAAGgtgagaattgggaaacatcttggttctagagaccttaaaagggccctgag Alignment from Exonerate_protein2genome GCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAG gctgctgcacaaggtggcctccacaatactgcttcctttctctcccacaggggggtgtttgcaatCCTGATGGAGCATGAAGACGACCCTGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCTTGGGACGAGAACCCAAGCCCTCAGAGCAAGTTGGCCCTGAAGgtgagaattgggaaacatcttggttctagagaccttaaaagggccctgag Alignment from Exonerate_coding2genome GCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAG gctgctgcacaaggtggcctccacaatactgcttcctttctctcccacaggggggtgtttgcaatCCTGATGGAGCATGAAGACGACCCTGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCTTGGGACGAGAACCCAAGCCCTCAGAGCAAGTTGGCCCTGAAGgtgagaattgggaaacatcttggttctagagaccttaaaagggccctgag Alignment from GeneWise -------------TGGCTGATGGAGCATGAAGACGACCCCGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCCTGGGACGAGAACCCACGCCCTCAGAGCAAGTTGGCCCTGAAG gctgctgcacaaggtggcctccacaatactgcttcctttctctcccacagGGGGGTGTTTGCAATCCTGATGGAGCATGAAGACGACCCTGATGTGGATGAGCCTCTGGAGACTCCCCTCAGCCATGTCTTGGGACGAGAACCCAAGCCCTCAGAGCAAGTTGGCCCTGAAGgtgagaattgggaaacatcttggttctagagaccttaaaagggccctgag #### Unc93b1_ID217_8 --> 0 - 0 Original Alignment GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--- tatctaggatgggatatctgttatagactgctttctgttcttctgcttagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATCGACCTGCGTAGTGTGGGCTGGGGTAACATCTTCCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGCCACCTGGTGCCATTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGTACTGGTTTTGCACTGATCgtatggacagacaatacatatggctcatatggctaaacttccagcataca Alignment from CESAR GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--- tatctaggatgggatatctgttatagactgctttctgttcttctgcttagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATCGACCTGCGTAGTGTGGGCTGGGGTAACATCTTCCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGCCACCTGGTGCCATTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGTACTGGTTTTGCACTGATCgtatggacagacaatacatatggctcatatggctaaacttccagcataca Alignment from Spaln_aa2Genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--- tatctaggatgggatatctgttatagactgctttctgttcttctgcttagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATCGACCTGCGTAGTGTGGGCTGGGGTAACATCTTCCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGCCACCTGGTGCCATTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGTACTGGTTTTGCACTGATCgtatggacagacaatacatatggctcatatggctaaacttccagcataca Alignment from Spaln_nt2Genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--- tatctaggatgggatatctgttatagactgctttctgttcttctgcttagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATCGACCTGCGTAGTGTGGGCTGGGGTAACATCTTCCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGCCACCTGGTGCCATTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGTACTGGTTTTGCACTGATCgtatggacagacaatacatatggctcatatggctaaacttccagcataca Alignment from Pairagon GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG--- tatctaggatgggatatctgttatagactgctttctgttcttctgcttagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATCGACCTGCGTAGTGTGGGCTGGGGTAACATCTTCCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGCCACCTGGTGCCATTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGTACTGGTTTTGCACTGATCgtatggacagacaatacatatggctcatatggctaaacttccagcataca Alignment from Exonerate_protein2genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tatctaggatgggatatctgttatagactgctttctgttcttctgcttagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATCGACCTGCGTAGTGTGGGCTGGGGTAACATCTTCCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGCCACCTGGTGCCATTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGTACTGGTTTTGCACTGatcgtatggacagacaatacatatggctcatatggctaaacttccagcataca Alignment from Exonerate_coding2genome GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTG tatctaggatgggatatctgttatagactgctttctgttcttctgcttagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATCGACCTGCGTAGTGTGGGCTGGGGTAACATCTTCCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGCCACCTGGTGCCATTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGTACTGGTTTTGCACTGatcgtatggacagacaatacatatggctcatatggctaaacttccagcataca Alignment from GeneWise GTGCTGGGCCTGTGTGGAGCCGCTTACCGGCCCACGGAAGAGATCGACCTGCGCAGCGTGGGCTGGGGCAACATCTTCCAGCTGCCCTTCAAACACGTGCGTGACTTTCGCTTACGCCATCTGGTGCCCTTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGCACTGGTTTTGCCCTGGGC tatctaggatgggatatctgttatagactgctttctgttcttctgcttagGTCCTGGGCCTGTGTGGAGCAGCTTACCGGACCACGGAGGAGATCGACCTGCGTAGTGTGGGCTGGGGTAACATCTTCCAGTTGCCCTTCAAGCATGTACATGACTTTTGCTTACGCCACCTGGTGCCATTCTTTATCTACAGTGGCTTTGAGGTGCTCTTTGCCTGTACTGGTTTTGCACTGATCgtatggacagacaatacatatggctcatatggctaaacttccagcataca #### Vldlr_ID5814_13 --> 2 - 0 Original Alignment acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcttggggagaaagtagctgaattccccatagcattctgttttgtcacagac------AAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgagtcttgtgatttttgtcaatgtgtgcatctgtgaagcagttctagg Alignment from CESAR acCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcacaagcttggggagaaagtagctcccatagcattctgttttgtcacagac------AAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgagtcttgtgatttttgtcaatgtgtgcatctgtgaagcagttctagg Alignment from Spaln_aa2Genome CTCGACCTTGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gaaagtagctgaattccccatagcattctgttttgtcaca gACAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgagtcttgtgatttttgtcaatgtgtgcatctgtgaagcagttctagg Alignment from Spaln_nt2Genome TGTCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcttggggagaaagtagctgaattccccatagcattctgttttgtcacag--ACAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgagtcttgtgatttttgtcaatgtgtgcatctgtgaagcagttctagg Alignment from Pairagon TCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcttggggagaaagtagctgaattccccatagcattctgttttgtcacagACAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgagtcttgtgatttttgtcaatgtgtgcatctgtgaagcagttctagg Alignment from Exonerate_protein2genome TCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcttggggagaaagtagctgaattccccatagcattctgttttgtcacagACAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgagtcttgtgatttttgtcaatgtgtgcatctgtgaagcagttctagg Alignment from Exonerate_coding2genome TCAAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcttggggagaaagtagctgaattccccatagcattctgttttgtcacagACAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgagtcttgtgatttttgtcaatgtgtgcatctgtgaagcagttctagg Alignment from GeneWise --AAAAGCCGCCTCTACTGGCTGGATTCCAAGTTGCACATGCTCTCTAGTGTGGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCTCTGGAGTTCCTAGCTCATCCTCTTGCACTCACCATATTTGAG gcttggggagaaagtagctgaattccccatagcattctgttttgtcacagACAAAAGCCGTCTCTACTGGCTGGACTCCAAGTTGCACATGCTCTCTAGTGTTGACCTGAATGGTCAAGATCGTAGGATAGTGCTCAAGTCCCTCAAGTTCCTAGCTCATCCTCTTGCACTCACTATATTTGAGgtgagtcttgtgatttttgtcaatgtgtgcatctgtgaagcagttctagg #### Vps13a_ID4059_64 --> 0 - 1 Original Alignment GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg acagttgctattgcaccaggtctttacttgatgtgcttgcttccctgcagGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGTTAGGATTGAAAGCACTAGTTGGTGGAGCC---ggtaactagtagcagtgaaacctagcaacactgatcacaccagtgataact Alignment from CESAR GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTg acagttgctattgcaccaggtctttacttgatgtgcttgcttccctgcagGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGTTAGGATTGAAAGCACTAGTTGGTGGAGCC---ggtaactagtagcagtgaaacctagcaacactgatcacaccagtgataact Alignment from Spaln_aa2Genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCC- acagttgctattgcaccaggtctttacttgatgtgcttgcttccctgcagGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGTTAGGATTGAAAGCACTAGTTGGTGGAGCCGgtaactagtagcagtgaaacctagcaacactgatcacaccagtgataact Alignment from Spaln_nt2Genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCG acagttgctattgcaccaggtctttacttgatgtgcttgcttccctgcagGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGTTAGGATTGAAAGCACTAGTTGGTGGAGCCGgtaactagtagcagtgaaacctagcaacactgatcacaccagtgataact Alignment from Pairagon GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTT------------------------------------------------ acagttgctattgcaccaggtctttacttgatgtgcttgcttccctgcagGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGTTAGGATTGAAAGCACTAGTTGGTGGAGCCGGTAACTAGTAGCAGTGAAACCTAGCAACACTGATCACACCAGTGATAACT Alignment from Exonerate_protein2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG acagttgctattgcaccaggtctttacttgatgtgcttgcttccctgcagGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGTTAGGATTGAAAGCACTAGTTGGTGGAGCC---Ggtaactagtagcagtgaaacctagcaacactgatcacaccagtgataact Alignment from Exonerate_coding2genome GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCGTTG acagttgctattgcaccaggtctttacttgatgtgcttgcttccctgcagGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGTTAGGATTGAAAGCACTAGTTGGTGGAGCC---Ggtaactagtagcagtgaaacctagcaacactgatcacaccagtgataact Alignment from GeneWise GGGGCTATCCAGGGTCCTGAAGAGTTTGTGGAGGGAATGGCGCTAGGATTGAAAGCACTAGTTGGTGGAGCCG acagttgctattgcaccaggtctttacttgatgtgcttgcttccctgcagGGGGCTATCCAGGGTCCTGAAGAATTTGTGGAGGGAATGGCGTTAGGATTGAAAGCACTAGTTGGTGGAGCCGgtaactagtagcagtgaaacctagcaacactgatcacaccagtgataact #### Vps13a_ID4074_49 --> 0 - 0 Original Alignment GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA taaaaatactttaagcattaattataatgtatatatgttttgtatctcagGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTCGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATG---------gttagattcgttgagttcttctgtgctaaagaaacttccatttgcattat Alignment from CESAR GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA taaaaatactttaagcattaattataatgtatatatgttttgtatctcagGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTCGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATG---------gttagattcgttgagttcttctgtgctaaagaaacttccat Alignment from Spaln_aa2Genome GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA taaaaatactttaagcattaattataatgtatatatgttttgtatctcagGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTCGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGTTAGATTCgttgagttcttctgtgctaaagaaacttccatttgcattat Alignment from Spaln_nt2Genome GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATG taaaaatactttaagcattaattataatgtatatatgttttgtatctcagGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTCGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGgttagattcgttgagttcttctgtgctaaagaaacttccatttgcattat Alignment from Pairagon GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATG taaaaatactttaagcattaattataatgtatatatgttttgtatctcagGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTCGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGgttagattcgttgagttcttctgtgctaaagaaacttccatttgcattat Alignment from Exonerate_protein2genome GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA taaaaatactttaagcattaattataatgtatatatgttttgtatctcagGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTCGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGTTAGATTCgttgagttcttctgtgctaaagaaacttccatttgcattat Alignment from Exonerate_coding2genome GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA taaaaatactttaagcattaattataatgtatatatgttttgtatctcagGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTCGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGTTAGATTCgttgagttcttctgtgctaaagaaacttccatttgcattat Alignment from GeneWise GTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAGTTTTCAATTGATACTGTTGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGAATACCAA taaaaatactttaagcattaattataatgtatatatgttttgtatctcagGTTCAGCTTATGGTAACTGATAGTGAGCTTTCAGATCAATTTTCAATTGATACTGTCGGTAGTCATGGAGCCATTAGATGCAAAGGTCTGAAAATGGTTAGATTCgttgagttcttctgtgctaaagaaacttccatttgcattat #### Vps13a_ID4093_30 --> 2 - 1 Original Alignment ct---------TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg tctttctaaaagtttccccatgttgttagacttctgccctgtgttttaagctTTAGGGGAATTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAATTATCCTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACATTTCTGAAATTAAAATTGAAggtatgaacatctcataaaatgtatttagtattgacaaaatgaaaaagaca Alignment from CESAR ct---TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAg gtgtggtctttctaaaagtttccccatgttgttctgccctgtgttttaagctttagggGAATTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAATTATCCTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACATTTCTGAAATTAAAATTGAAggtatgaacatctcataaaatgtatttagtattgacaaaatgaaaaagaca Alignment from Spaln_aa2Genome CT---TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG tctttctaaaagtttccccatgttgttagacttctgccctgtgttttaagctttagGGGAATTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAATTATCCTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACATTTCTGAAATTAAAATTGAAGgtatgaacatctcataaaatgtatttagtattgacaaaatgaaaaagaca Alignment from Spaln_nt2Genome CTTTA---------AAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG tctttctaaaagtttccccatgttgttagacttctgccctgtgttttaagCTTTAGGGGAATTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAATTATCCTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACATTTCTGAAATTAAAATTGAAGgtatgaacatctcataaaatgtatttagtattgacaaaatgaaaaagaca Alignment from Pairagon CT---------TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG tctttctaaaagtttccccatgttgttagacttctgccctgtgttttaagCTTTAGGGGAATTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAATTATCCTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACATTTCTGAAATTAAAATTGAAGgtatgaacatctcataaaatgtatttagtattgacaaaatgaaaaagaca Alignment from Exonerate_protein2genome CT---TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG tctttctaaaagtttccccatgttgttagacttctgccctgtgttttaagctttagGGGAATTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAATTATCCTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACATTTCTGAAATTAAAATTGAAGgtatgaacatctcataaaatgtatttagtattgacaaaatgaaaaagaca Alignment from Exonerate_coding2genome CT---TTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG tctttctaaaagtttccccatgttgttagacttctgccctgtgttttaagctttagGGGAATTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAATTATCCTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACATTTCTGAAATTAAAATTGAAGgtatgaacatctcataaaatgtatttagtattgacaaaatgaaaaagaca Alignment from GeneWise --GCTTTAAAGCTACCCACGAATGAAGATATTATTACCTTGCAGCTTTTGGCAGAATTATCTTGTCTACAGATTTTTATTCAGGATCAGAAACAAAACATTTCTGAAATTAAAATTGAAG tctttctaaaagtttccccatgttgttagacttctgccctgtgttttaagctttagGGGAATTAAAGCTACCCACAAATGAAGATATTATTACTTTGCAGCTTTTGGCAGAATTATCCTGTCTACAGATTCTCATCCAGGATCAGAAACAGAACATTTCTGAAATTAAAATTGAAGgtatgaacatctcataaaatgtatttagtattgacaaaatgaaaaagaca #### Vps13a_ID4119_4 --> 2 - 1 Original Alignment gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa ttccctttataaaagctcagaaaatgttctctctttctctctgttttaaggtAGCCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCT---agtgggtagtcacttaaagtttataatttagattatttctagatttaaaaa Alignment from CESAR gtAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTa ttccctttataaaagctcagaaaatgttctctctttctctctgttttaaggtAGCCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCT---agtgggtagtcacttaaagtttataatttagattatttctagatttaaaaa Alignment from Spaln_aa2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ttccctttataaaagctcagaaaatgttctctctttctctctgttttaagGTAGCCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCT---TCTAgtgggtagtcacttaaagtttataatttagattatttctagatttaaaaa Alignment from Spaln_nt2Genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ttccctttataaaagctcagaaaatgttctctctttctctctgttttaagGTAGCCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGC---CTTCTAgtgggtagtcacttaaagtttataatttagattatttctagatttaaaaa Alignment from Pairagon GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ttccctttataaaagctcagaaaatgttctctctttctctctgttttaagGTAGCCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGC---CTTCTAgtgggtagtcacttaaagtttataatttagattatttctagatttaaaaa Alignment from Exonerate_protein2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ttccctttataaaagctcagaaaatgttctctctttctctctgttttaagGTAGCCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTAGTGggtagtcacttaaagtttataatttagattatttctagatttaaaaa Alignment from Exonerate_coding2genome GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ttccctttataaaagctcagaaaatgttctctctttctctctgttttaagGTAGCCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTAGTGggtagtcacttaaagtttataatttagattatttctagatttaaaaa Alignment from GeneWise GTAGTCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCTTCTTCTA ttccctttataaaagctcagaaaatgttctctctttctctctgttttaagGTAGCCTTAAACTTAAAATTCCATGGAAAAACCTTTATACTCAACCAGTTGAAGCTGTTTTGGAAGAAATTTTTTTACTCATAGTGCCT---TCTAgtgggtagtcacttaaagtttataatttagattatttctagatttaaaaa #### Vwce_ID2948_3 --> 2 - 1 Original Alignment cc---CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAg agtctgtgcattgcgagggcttggtccgcatgtgggtccttctctctcagccTTGCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTCTGTTCATGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAggtaagtgtgatgaaagagggcagaccgtgatcaccaaaataatatgaaga Alignment from CESAR cc---CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAg agtctgtgcattgcgagggcttggtccgcatgtgggtccttctctctcagccTTGCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTCTGTTCATGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAggtaagtgtgatgaaagagggcagaccgtgatcaccaaaataatatgaaga Alignment from Spaln_aa2Genome CC---CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG agtctgtgcattgcgagggcttggtccgcatgtgggtccttctctctcagCCTTGCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTCTGTTCATGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGgtaagtgtgatgaaagagggcagaccgtgatcaccaaaataatatgaaga Alignment from Spaln_nt2Genome CC---CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG agtctgtgcattgcgagggcttggtccgcatgtgggtccttctctctcagCCTTGCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTCTGTTCATGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGgtaagtgtgatgaaagagggcagaccgtgatcaccaaaataatatgaaga Alignment from Pairagon CC---CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG agtctgtgcattgcgagggcttggtccgcatgtgggtccttctctctcagCCTTGCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTCTGTTCATGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGgtaagtgtgatgaaagagggcagaccgtgatcaccaaaataatatgaaga Alignment from Exonerate_protein2genome CC---CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG agtctgtgcattgcgagggcttggtccgcatgtgggtccttctctctcagCCTTGCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTCTGTTCATGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGgtaagtgtgatgaaagagggcagaccgtgatcaccaaaataatatgaaga Alignment from Exonerate_coding2genome CC---CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG agtctgtgcattgcgagggcttggtccgcatgtgggtccttctctctcagCCTTGCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTCTGTTCATGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGgtaagtgtgatgaaagagggcagaccgtgatcaccaaaataatatgaaga Alignment from GeneWise -------------------------------------------------------CTCTGCTCCTTTGGCTGTGGGAGTGGCATCTGCATCGCTCCCAATGTCTGTTCCTGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAG AGTCTGTGCATTGCGAGGGCTTGGTCCGCATGTGGGTCCTTCTCTCTCAGCCTTGCTCTGCTCCTTTGGCTGTGGAAGTGGCATCTGCATCACTCCTAATGTCTGTTCATGCCAGGATGGAGAGCAAGGGGCCACTTGCCCAGgtaagtgtgatgaaagagggcagaccgtgatcaccaaaataatatgaaga #### Wdr74_ID2312_2 --> 2 - 0 Original Alignment gg------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA gttggtcccttgtttgtcaccccagtattccacgctgcttccttccccagggTTCAAAGTGAACCTTCAACGGAAACATACAGCTAATTTCGCACCATCTGGACAGCCACGGCGGGAAGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaagcaggctctggctgggccagagctacaggatgcctgacaatcctga Alignment from CESAR gg------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA gttggtcccttgtttgtcaccccagtattccacgctgcttccttccccagggTTCAAAGTGAACCTTCAACGGAAACATACAGCTAATTTCGCACCATCTGGACAGCCACGGCGGGAAGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaagcaggctctggctgggccagagctacaggatgcctgacaatcctga Alignment from Spaln_aa2Genome GGGTGAACCTTCAG------CGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA gttggtcccttgtttgtcaccccagtattccacgctgcttccttccccagGGTTCAAAGTGAACCTTCAACGGAAACATACAGCTAATTTCGCACCATCTGGACAGCCACGGCGGGAAGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaagcaggctctggctgggccagagctacaggatgcctgacaatcctga Alignment from Spaln_nt2Genome GGGTGAACCTT------CAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA gttggtcccttgtttgtcaccccagtattccacgctgcttccttccccagGGTTCAAAGTGAACCTTCAACGGAAACATACAGCTAATTTCGCACCATCTGGACAGCCACGGCGGGAAGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaagcaggctctggctgggccagagctacaggatgcctgacaatcctga Alignment from Pairagon GG------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA gttggtcccttgtttgtcaccccagtattccacgctgcttccttccccagGGTTCAAAGTGAACCTTCAACGGAAACATACAGCTAATTTCGCACCATCTGGACAGCCACGGCGGGAAGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaagcaggctctggctgggccagagctacaggatgcctgacaatcctga Alignment from Exonerate_protein2genome GG------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA gttggtcccttgtttgtcaccccagtattccacgctgcttccttccccagGGTTCAAAGTGAACCTTCAACGGAAACATACAGCTAATTTCGCACCATCTGGACAGCCACGGCGGGAAGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaagcaggctctggctgggccagagctacaggatgcctgacaatcctga Alignment from Exonerate_coding2genome GG------GTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA gttggtcccttgtttgtcaccccagtattccacgctgcttccttccccagGGTTCAAAGTGAACCTTCAACGGAAACATACAGCTAATTTCGCACCATCTGGACAGCCACGGCGGGAAGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaagcaggctctggctgggccagagctacaggatgcctgacaatcctga Alignment from GeneWise -----GGGGTGAACCTTCAGCGGAAACATGCGGCAAATTTCACACCGTCCGGACAGCCGCGGCGGGAGGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCGGCGAGACCCAA gttggtcccttgtttgtcaccccagtattccacgctgcttccttccccagGGTTCAAAGTGAACCTTCAACGGAAACATACAGCTAATTTCGCACCATCTGGACAGCCACGGCGGGAAGAGGCAGTGAATGCTCTGTGCTGGGGCACTGGCAGTGAGACCCAAgtaagcaggctctggctgggccagagctacaggatgcctgacaatcctga #### Wdr74_ID2319_9 --> 2 - 0 Original Alignment ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gcattagagtggctagttagccaacaccatccatttttcattcattgtaggtAGACTACTGGGCTGTCTGAAGGGTCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTA---------gtatgtgccagggtgatgcaaacctttgcgctggccgcactaacttacat Alignment from CESAR ggCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAG gcattagagtggctagttagccaacaccatccatttttcattcattgtaggtAGACTACTGGGCTGTCTGAAGGGTCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTA---------gtatgtgccagggtgatgcaaacctttgcgctggccgcact Alignment from Spaln_aa2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCAT---AAG gcattagagtggctagttagccaacaccatccatttttcattcattgtagGTAGACTACTGGGCTGTCTGAAGGGTCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAGTATGTGCCAGGgtgatgcaaacctttgcgctggccgcactaacttacat Alignment from Spaln_nt2Genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTA gcattagagtggctagttagccaacaccatccatttttcattcattgtagGTAGACTACTGGGCTGTCTGAAGGGTCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAgtatgtgccagggtgatgcaaacctttgcgctggccgcactaacttacat Alignment from Pairagon GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTA gcattagagtggctagttagccaacaccatccatttttcattcattgtagGTAGACTACTGGGCTGTCTGAAGGGTCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAgtatgtgccagggtgatgcaaacctttgcgctggccgcactaacttacat Alignment from Exonerate_protein2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAG---CATAAG gcattagagtggctagttagccaacaccatccatttttcattcattgtagGTAGACTACTGGGCTGTCTGAAGGGTCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAGTATGTGCCAGGgtgatgcaaacctttgcgctggccgcactaacttacat Alignment from Exonerate_coding2genome GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAG---CATAAG gcattagagtggctagttagccaacaccatccatttttcattcattgtagGTAGACTACTGGGCTGTCTGAAGGGTCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAGTATGTGCCAGGgtgatgcaaacctttgcgctggccgcactaacttacat Alignment from GeneWise GGCGTCTACTGGGCTGTCTGAAGGGGCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCTTGGACAGAGTCTTGAGGATACACAGGATCCGCAATCCACGTGGGCTAGAGCATAAGGTT gcattagagtggctagttagccaacaccatccatttttcattcattgtagGTAGACTACTGGGCTGTCTGAAGGGTCTTGCAGGTAGTGTTCGTGGGCTGCAGTGTCACCCTTCAAAGCCCCTATTAGCCTCATGTGGCCTGGACAGAGTCTTGAGGATATACAGGATCCGCAATCCATGTGGGCTAGTATGTGCCAGGgtgatgcaaacctttgcgctggccgcactaacttacat #### Wdr96_ID10334_37 --> 0 - 1 Original Alignment ---ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg attaactctttgaacattgttatgggttattttgttctttttttaaacagGAAACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCGAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAATAggtaagaacctttttctgataaattaaagggattctaacagtcccagcatc Alignment from CESAR ---ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAg attaactctttgaacattgttatgggttattttgttctttttttaaacagGAAACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCGAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAATAggtaagaacctttttctgataaattaaagggattctaacagtcccagcatc Alignment from Spaln_aa2Genome ACTCATAAGAAG---AATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG attaactctttgaacattgttatgggttattttgttctttttttaaacagGAAACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCGAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAATAGgtaagaacctttttctgataaattaaagggattctaacagtcccagcatc Alignment from Spaln_nt2Genome ACTCATAAG---AAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG attaactctttgaacattgttatgggttattttgttctttttttaaacagGAAACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCGAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAATAGgtaagaacctttttctgataaattaaagggattctaacagtcccagcatc Alignment from Pairagon ---ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG attaactctttgaacattgttatgggttattttgttctttttttaaacagGAAACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCGAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAATAGgtaagaacctttttctgataaattaaagggattctaacagtcccagcatc Alignment from Exonerate_protein2genome ---ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG attaactctttgaacattgttatgggttattttgttctttttttaaacagGAAACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCGAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAATAGgtaagaacctttttctgataaattaaagggattctaacagtcccagcatc Alignment from Exonerate_coding2genome ---ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG attaactctttgaacattgttatgggttattttgttctttttttaaacagGAAACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCGAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAATAGgtaagaacctttttctgataaattaaagggattctaacagtcccagcatc Alignment from GeneWise ---ACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCAAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCCGTCTCAGAGAGACAAGACATTTGCAATGAGATAG attaactctttgaacattgttatgggttattttgttctttttttaaacagGAAACTCATAAGAAGAATGTAGAAAACTGCAAAAAGCTACTCAAGAAACTGGGAAAATACAGCAATCAGAAAGATGTTGCGAATTACACCCTAAGCTGTAATCTACGGGAAGAACTGGTGGCTGTCTCAGAGAGACAAGACATTTGTAATGAAATAGgtaagaacctttttctgataaattaaagggattctaacagtcccagcatc #### Wnt8b_ID9022_5 --> 2 - 0 Original Alignment ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG------------------------------ gtgtcagctcactttggactcagggacttatagcgtctcttttctttcagggGGCCAAGGTTGGCTCTGGGGAGGATGCAGTGACAATGTTGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGGATCGTCACCGGATTACTGAGAAGCGCAAAgtaaatcctgcagctgtcagaactagggacccagcttcatccagtaccgg Alignment from CESAR ggGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gtgtcagctcactttggactcagggacttatagcgtctcttttctttcagggGGCCAAGGTTGGCTCTGGGGAGGATGCAGTGACAATGTTGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgatcgtcaccggattactgagaagcgcaaagtaaatcctgcagctgtcagaactagggacccagcttcatccagtaccgg Alignment from Spaln_aa2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG---- gtgtcagctcactttggactcagggacttatagcgtctcttttctttcagGGGGCCAAGGTTGGCTCTGGGGAGGATGCAGTGACAATGTTGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGGATCgtcaccggattactgagaagcgcaaagtaaatcctgcagctgtcagaactagggacccagcttcatccagtaccgg Alignment from Spaln_nt2Genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG---- gtgtcagctcactttggactcagggacttatagcgtctcttttctttcagGGGGCCAAGGTTGGCTCTGGGGAGGATGCAGTGACAATGTTGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGGATCgtcaccggattactgagaagcgcaaagtaaatcctgcagctgtcagaactagggacccagcttcatccagtaccgg Alignment from Pairagon GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG------------------------------ gtgtcagctcactttggactcagggacttatagcgtctcttttctttcagGGGGCCAAGGTTGGCTCTGGGGAGGATGCAGTGACAATGTTGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGGATCGTCACCGGATTACTGAGAAGCGCAAAgtaaatcctgcagctgtcagaactagggacccagcttcatccagtaccgg Alignment from Exonerate_protein2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gtgtcagctcactttggactcagggacttatagcgtctcttttctttcagGGGGCCAAGGTTGGCTCTGGGGAGGATGCAGTGACAATGTTGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgatcgtcaccggattactgagaagcgcaaagtaaatcctgcagctgtcagaactagggacccagcttcatccagtaccgg Alignment from Exonerate_coding2genome GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG gtgtcagctcactttggactcagggacttatagcgtctcttttctttcagGGGGCCAAGGTTGGCTCTGGGGAGGATGCAGTGACAATGTTGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGgatcgtcaccggattactgagaagcgcaaagtaaatcctgcagctgtcagaactagggacccagcttcatccagtaccgg Alignment from GeneWise GGGGCCAAGGTTGGCTCTGGGGAGGCTGCAGTGACAACGTGGGCTTCGGAGAGGCAATTTCCAAGCAGTTTGTGGATGCCCTCGAGACAGGACAAGATGCCCGGGCAGCCATGAATCTGCACAACAATGAGGCTGGCCGCAAG------------------------------ gtgtcagctcactttggactcagggacttatagcgtctcttttctttcagGGGGCCAAGGTTGGCTCTGGGGAGGATGCAGTGACAATGTTGGCTTTGGAGAGGCAATTTCCAAGCAATTTGTTGATGTCCTCGAGACAGGGCAAGATGCCCGGGCAGCCATGAATTTGCACAACAATGAGGCGGGTCGCAAGGATCGTCACCGGATTACTGAGAAGCGCAAAgtaaatcctgcagctgtcagaactagggacccagcttcatccagtaccgg #### Yif1a_ID831_3 --> 0 - 0 Original Alignment CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG atcttacaggagggactactatccataaaatgccatctcttcccctgtagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGG---------------------------gtaaggttgccattcagagtgctggccggaggactcaagggccaggacgc Alignment from CESAR CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG atcttacaggagggactactatccataaaatgccatctcttcccctgtagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGG---------------------------gtaaggttgccattcagagtgct Alignment from Spaln_aa2Genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGG atcttacaggagggactactatccataaaatgccatctcttcccctgtagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGgtaaggttgccattcagagtgctggccggaggactcaagggccaggacgc Alignment from Spaln_nt2Genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATTGGTCTTCCCATACACACATCAG atcttacaggagggactactatccataaaatgccatctcttcccctgtagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGGTAAGG---TTGCCATTCAGAGTGCTGgccggaggactcaagggccagga Alignment from Pairagon CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGG atcttacaggagggactactatccataaaatgccatctcttcccctgtagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGgtaaggttgccattcagagtgctggccggaggactcaagggccaggacgc Alignment from Exonerate_protein2genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGG atcttacaggagggactactatccataaaatgccatctcttcccctgtagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGgtaaggttgccattcagagtgctggccggaggactcaagggccaggacgc Alignment from Exonerate_coding2genome CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGG atcttacaggagggactactatccataaaatgccatctcttcccctgtagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGgtaaggttgccattcagagtgctggccggaggactcaagggccaggacgc Alignment from GeneWise CTGCACCGTTTTGTGTCCGTGAACAAACTCAAGTATTTTTTTGCTGTGGACACAGCCTATGTCGCTAAGAAGCTAGGGCTATT atcttacaggagggactactatccataaaatgccatctcttcccctgtagTTGCACCGTTTTGTGTCTGTGAACAAACTCAAGTATTTCTTTGCTGTGGACACAGCCTACGTTGCTAAGAAGCTCGGGGTAAGgttgccattcagagtgctggccggaggactcaagggccaggacgc #### Yif1a_ID834_6 --> 1 - 2 Original Alignment g------TTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGgg gtctgagctgacccaccttgggcacctataacccacctcttcttctctaggAAATTGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTTTGGGGCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGgggtgagagtccaaaggccaagaggagtctgggaggtcctaggctacgggtg Alignment from CESAR g------TTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGgg gtctgagctgacccaccttgggcacctataacccacctcttcttctctaggAAATTGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTTTGGGGCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGgggtgagagtccaaaggccaagaggagtctgggaggtcctaggctacgggtg Alignment from Spaln_aa2Genome GCAAAGGTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGGG gtctgagctgacccaccttgggcacctataacccacctcttcttctctagGAAATTGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTTTGGGGCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGGGgtgagagtccaaaggccaagaggagtctgggaggtcctaggctacgggtg Alignment from Spaln_nt2Genome GTTCTCCCCAGAGG------TGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGGG gtctgagctgacccaccttgggcacctataacccacctcttcttctctagGAAATTGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTTTGGGGCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGGGgtgagagtccaaaggccaagaggagtctgggaggtcctaggctacgggtg Alignment from Pairagon ------GTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGGG gtctgagctgacccaccttgggcacctataacccacctcttcttctctagGAAATTGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTTTGGGGCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGGGgtgagagtccaaaggccaagaggagtctgggaggtcctaggctacgggtg Alignment from Exonerate_protein2genome G------TTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGGG gtctgagctgacccaccttgggcacctataacccacctcttcttctctagGAAATTGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTTTGGGGCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGGGgtgagagtccaaaggccaagaggagtctgggaggtcctaggctacgggtg Alignment from Exonerate_coding2genome G------TTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGGG gtctgagctgacccaccttgggcacctataacccacctcttcttctctagGAAATTGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTTTGGGGCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGGGgtgagagtccaaaggccaagaggagtctgggaggtcctaggctacgggtg Alignment from GeneWise ----AGGTTCTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTGTGGGTGTTCATGGAGGTGTTGGCTCTGCTTCTGGGCCTCTACCTGGCCACCGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCGGTTACAAATATGTGGG gtctgagctgacccaccttgggcacctataacccacctcttcttctctagGAAATTGTTTTCCCCAGAGGTGTTGGGCCTGTGTGCAAGCACAGCACTGGTATGGGTGTTCATGGAGGTGTTGGCTCTGCTTTTGGGGCTCTACCTGGCCACTGTACGCAGTGAACTGAGTACCTTCCACCTCTTGGCTTACAGCAGTTACAAATATGTGGGgtgagagtccaaaggccaagaggagtctgggaggtcctaggctacgggtg #### Yif1a_ID835_7 --> 1 - 0 Original Alignment gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctgttcactgcattcctaattcattcaattatttttgttacatatacaggATGATCTTGAGTGTGCTCACAGGACTGCTCTTCGGCAGTGACAGCTACTATGTGGCCCTGGCCTGGACATCATCTGCACTTATG---------gtgagtgtgttcgcaggtgggcggcccctgcccctctcctgcttgcaatt Alignment from CESAR gATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctgttcactgcattcctaattcattcaattatttttgttacatatacaggATGATCTTGAGTGTGCTCACAGGACTGCTCTTCGGCAGTGACAGCTACTATGTGGCCCTGGCCTGGACATCATCTGCACTTATG---------gtgagtgtgttcgcaggtgggcggcccctgcccctccaatg Alignment from Spaln_aa2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT--- cctgttcactgcattcctaattcattcaattatttttgttacatatacagGATGATCTTGAGTGTGCTCACAGGACTGCTCTTCGGCAGTGACAGCTACTATGTGGCCCTGGCCTGGACATCATCTGCACTTATGGTGAGTGTGTTCgcaggtgggcggcccctgcccctctcctgcttgcaatt Alignment from Spaln_nt2Genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATG cctgttcactgcattcctaattcattcaattatttttgttacatatacagGATGATCTTGAGTGTGCTCACAGGACTGCTCTTCGGCAGTGACAGCTACTATGTGGCCCTGGCCTGGACATCATCTGCACTTATGgtgagtgtgttcgcaggtgggcggcccctgcccctctcctgcttgcaatt Alignment from Pairagon GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATG cctgttcactgcattcctaattcattcaattatttttgttacatatacagGATGATCTTGAGTGTGCTCACAGGACTGCTCTTCGGCAGTGACAGCTACTATGTGGCCCTGGCCTGGACATCATCTGCACTTATGgtgagtgtgttcgcaggtgggcggcccctgcccctctcctgcttgcaatt Alignment from Exonerate_protein2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctgttcactgcattcctaattcattcaattatttttgttacatatacagGATGATCTTGAGTGTGCTCACAGGACTGCTCTTCGGCAGTGACAGCTACTATGTGGCCCTGGCCTGGACATCATCTGCACTTATGGTGAGTGTGttcgcaggtgggcggcccctgcccctctcctgcttgcaatt Alignment from Exonerate_coding2genome GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctgttcactgcattcctaattcattcaattatttttgttacatatacagGATGATCTTGAGTGTGCTCACAGGACTGCTCTTCGGCAGTGACAGCTACTATGTGGCCCTGGCCTGGACATCATCTGCACTTATGGTGAGTGTGttcgcaggtgggcggcccctgcccctctcctgcttgcaatt Alignment from GeneWise GATGATCCTTAGTGTGCTCACGGGGCTGCTCTTCGGCAGTGATGGCTACTACGTGGCCCTGGCCTGGACATCATCTGCGCTTATGTACTTCATT cctgttcactgcattcctaattcattcaattatttttgttacatatacagGATGATCTTGAGTGTGCTCACAGGACTGCTCTTCGGCAGTGACAGCTACTATGTGGCCCTGGCCTGGACATCATCTGCACTTATG---GTGAGTgtgttcgcaggtgggcggcccctgcccctctcctgcttgca #### Zdhhc16_ID8350_7 --> 1 - 0 Original Alignment tTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG------ agattgactcctgtcttccaggttctaatgtgtcctctgcttcttcccagtTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCACGCTGTTCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGATATCgtgagcgctgaagggactgggtgatcgagtggggaagtgattatatgtaa Alignment from CESAR tTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG------ agattgactcctgtcttccaggttctaatgtgtcctctgcttcttcccagtTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCACGCTGTTCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGATATCgtgagcgctgaagggactgggtgatcgagtggggaagtgattatatgtaa Alignment from Spaln_aa2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG------ agattgactcctgtcttccaggttctaatgtgtcctctgcttcttcccagTTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCACGCTGTTCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGATATCgtgagcgctgaagggactgggtgatcgagtggggaagtgattatatgtaa Alignment from Spaln_nt2Genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG------ agattgactcctgtcttccaggttctaatgtgtcctctgcttcttcccagTTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCACGCTGTTCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGATATCgtgagcgctgaagggactgggtgatcgagtggggaagtgattatatgtaa Alignment from Pairagon TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG------ agattgactcctgtcttccaggttctaatgtgtcctctgcttcttcccagTTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCACGCTGTTCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGATATCgtgagcgctgaagggactgggtgatcgagtggggaagtgattatatgtaa Alignment from Exonerate_protein2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG agattgactcctgtcttccaggttctaatgtgtcctctgcttcttcccagTTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCACGCTGTTCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgatatcgtgagcgctgaagggactgggtgatcgagtggggaagtgattatatgtaa Alignment from Exonerate_coding2genome TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG agattgactcctgtcttccaggttctaatgtgtcctctgcttcttcccagTTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCACGCTGTTCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGgatatcgtgagcgctgaagggactgggtgatcgagtggggaagtgattatatgtaa Alignment from GeneWise TTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCATGCTGTTCTCATCAGTCGGGGTGAGACTAGCATCGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGG------ agattgactcctgtcttccaggttctaatgtgtcctctgcttcttcccagTTCTGTGGCCCTGGCCCTGGGTGCCCTAACCATGTGGCACGCTGTTCTGATCAGTCGGGGTGAGACTAGCATTGAAAGGCATATCAACAAGAAGGAGAGGCGCCGGTTACAGGCCAAGGGCAGGGATATCgtgagcgctgaagggactgggtgatcgagtggggaagtgattatatgtaa #### Zp1_ID3061_11 --> 2 - 1 Original Alignment ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg accctttggccaccaggggtcatagtactctttaacttttctgtttttagggCGTCGACGATCCCCTGGTCACCACAACATCACTCTCCGAGCCCTGGATATTGTAAGCTCTCCAGGCGCAGTGGGCTTTGAGGACGCAGCTAAACTTGAG------ggtaagttctgcgggatgtggggatgcacctaagtgtcttgaccctttctg Alignment from CESAR ggCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAg accctttggccaccaggggtcatagtactctttaacttttctgtttttagggCGTCGACGATCCCCTGGTCACCACAACATCACTCTCCGAGCCCTGGATATTGTAAGCTCTCCAGGCGCAGTGGGCTTTGAGGACGCAGCTAAACTTGAG------ggtaagttctgcgggatgtggggatgcacctaagtgtcttgaccctttctg Alignment from Spaln_aa2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAG- accctttggccaccaggggtcatagtactctttaacttttctgtttttagGGCGTCGACGATCCCCTGGTCACCACAACATCACTCTCCGAGCCCTGGATATTGTAAGCTCTCCAGGCGCAGTGGGCTTTGAGGACGCAGCTAAACTTGAGGgtaagttctgcgggatgtggggatgcacctaagtgtcttgaccctttctg Alignment from Spaln_nt2Genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGC accctttggccaccaggggtcatagtactctttaacttttctgtttttagGGCGTCGACGATCCCCTGGTCACCACAACATCACTCTCCGAGCCCTGGATATTGTAAGCTCTCCAGGCGCAGTGGGCTTTGAGGACGCAGCTAAACTTGAGGgtaagttctgcgggatgtggggatgcacctaagtgtcttgaccctttctg Alignment from Pairagon GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGCCCTCAG accctttggccaccaggggtcatagtactctttaacttttctgtttttagGGCGTCGACGATCCCCTGGTCACCACAACATCACTCTCCGAGCCCTGGATATTGTAAGCTCTCCAGGCGCAGTGGGCTTTGAGGACGCAGCTAAACTTGAG------Ggtaagttctgcgggatgtggggatgcacctaagtgtcttgaccctttctg Alignment from Exonerate_protein2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGC accctttggccaccaggggtcatagtactctttaacttttctgtttttagGGCGTCGACGATCCCCTGGTCACCACAACATCACTCTCCGAGCCCTGGATATTGTAAGCTCTCCAGGCGCAGTGGGCTTTGAGGACGCAGCTAAACTTGAGGgtaagttctgcgggatgtggggatgcacctaagtgtcttgaccctttctg Alignment from Exonerate_coding2genome GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAGC accctttggccaccaggggtcatagtactctttaacttttctgtttttagGGCGTCGACGATCCCCTGGTCACCACAACATCACTCTCCGAGCCCTGGATATTGTAAGCTCTCCAGGCGCAGTGGGCTTTGAGGACGCAGCTAAACTTGAGGgtaagttctgcgggatgtggggatgcacctaagtgtcttgaccctttctg Alignment from GeneWise GGCGTCGACGATCCTCTGGTCACCACAACATCACTCTCCGGGCCCTGGATATTGTAAGCTCTCCAGGGGCAGTGGGCTTTGAGGATGCTGCTAAACTTGAG- accctttggccaccaggggtcatagtactctttaacttttctgtttttagGGCGTCGACGATCCCCTGGTCACCACAACATCACTCTCCGAGCCCTGGATATTGTAAGCTCTCCAGGCGCAGTGGGCTTTGAGGACGCAGCTAAACTTGAGGgtaagttctgcgggatgtggggatgcacctaagtgtcttgaccctttctg #### Zp1_ID3064_8 --> 2 - 2 Original Alignment atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg taaagtacagcctgccccatgctttctcatgtctttttctaactccttagat------TTCAGCTCCTACTATCAGGGAAGTGACTACCCCCTTGTGAGACTGCTTCGGGAACCAGTCTATGTGGAGGTCCGACTCCTGCAGAAAACTGATCCCAGTCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGAACAGCCCCAATGGCCTATTCTGTCAGATgggtaagtgatatgagaagactgtgctgcatccagggtcagaaggactttct Alignment from CESAR atAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATgg gcagcttaaagtacagcctgccccactcatgtctttttctaactccttagat------TTCAGCTCCTACTATCAGGGAAGTGACTACCCCCTTGTGAGACTGCTTCGGGAACCAGTCTATGTGGAGGTCCGACTCCTGCAGAAAACTGATCCCAGTCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGAACAGCCCCAATGGCCTATTCTGTCAGATgggtaagtgatatgagaagactgtgctgcatccagggtcagaaggactttct Alignment from Spaln_aa2Genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctgccccatgctttctcatgtctttttctaactccttagAT------TTCAGCTCCTACTATCAGGGAAGTGACTACCCCCTTGTGAGACTGCTTCGGGAACCAGTCTATGTGGAGGTCCGACTCCTGCAGAAAACTGATCCCAGTCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGAACAGCCCCAATGGCCTATTCTGTCAGATGGgtaagtgatatgagaagactgtgctgcatccagggtcagaaggactttct Alignment from Spaln_nt2Genome AAGA CTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG TAAAgtacagcctgccccatgctttctcatgtctttttctaactccttagATTTCAGCTCCTACTATCAGGGAAGTGACTACCCCCTTGTGAGACTGCTTCGGGAACCAGTCTATGTGGAGGTCCGACTCCTGCAGAAAACTGATCCCAGTCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAG---CTTTGAACAGCCCCAATGGCCTATTCTGTCAGATGGgtaagtgatatgagaagactgtgctgcatccagggtcagaaggactttct Alignment from Pairagon ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctgccccatgctttctcatgtctttttctaactccttagA------TTTCAGCTCCTACTATCAGGGAAGTGACTACCCCCTTGTGAGACTGCTTCGGGAACCAGTCTATGTGGAGGTCCGACTCCTGCAGAAAACTGATCCCAGTCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAG---CTTTGAACAGCCCCAATGGCCTATTCTGTCAGATGGgtaagtgatatgagaagactgtgctgcatccagggtcagaaggactttct Alignment from Exonerate_protein2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctgccccatgctttctcatgtctttttctaactccttagAT------TTCAGCTCCTACTATCAGGGAAGTGACTACCCCCTTGTGAGACTGCTTCGGGAACCAGTCTATGTGGAGGTCCGACTCCTGCAGAAAACTGATCCCAGTCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGAACAGCCCCAATGGCCTATTCTGTCAGATGGgtaagtgatatgagaagactgtgctgcatccagggtcagaaggactttct Alignment from Exonerate_coding2genome ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctgccccatgctttctcatgtctttttctaactccttagAT------TTCAGCTCCTACTATCAGGGAAGTGACTACCCCCTTGTGAGACTGCTTCGGGAACCAGTCTATGTGGAGGTCCGACTCCTGCAGAAAACTGATCCCAGTCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGAACAGCCCCAATGGCCTATTCTGTCAGATGGgtaagtgatatgagaagactgtgctgcatccagggtcagaaggactttct Alignment from GeneWise ATAAGACTTTCAGCTCCTACTATCAGGGGAGTGACTATCCCCTTGTGAGACTGCTCCGGGAACCAGTCTATGTAGAGGTCCGACTCCTGCAGAGAACTGATCCCAGTCTGGTTCTGGTGCTACACCAGTGCTGGGCCACGCCCACCACCAGCCCCTTTGAGCAGCCCCAATGGCCTATTCTGTCAGATGG taaagtacagcctgccccatgctttctcatgtctttttctaactccttagAT------TTCAGCTCCTACTATCAGGGAAGTGACTACCCCCTTGTGAGACTGCTTCGGGAACCAGTCTATGTGGAGGTCCGACTCCTGCAGAAAACTGATCCCAGTCTGGTTCTGGTGTTACACCAGTGCTGGGCCACACCCACCACTAGC---TTTGAACAGCCCCAATGGCCTATTCTGTCAGATGGgtaagtgatatgagaagactgtgctgcatccagggtcagaaggactttct ####